Ssbp1 (single stranded DNA binding protein 1)

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Gene: Ssbp1 (single stranded DNA binding protein 1) Rattus norvegicus

Analyze

Symbol:

Ssbp1

Name:

single stranded DNA binding protein 1

RGD ID:

3760

Description:

Predicted to have chromatin binding activity and single-stranded DNA binding activity. Predicted to be involved in DNA unwinding involved in DNA replication; mitochondrion morphogenesis; and positive regulation of DNA helicase activity. Predicted to localize to mitochondrial nucleoid. Human ortholog(s) of this gene implicated in optic atrophy. Orthologous to human SSBP1 (single stranded DNA binding protein 1); PARTICIPATES IN DNA replication pathway; homologous recombination pathway of double-strand break repair; mismatch repair pathway; INTERACTS WITH 2,4-dinitrotoluene; 3H-1,2-dithiole-3-thione; ammonium chloride.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

mt-SSB; mtSSB; single strand DNA-binding protein P16; single-stranded DNA binding protein 1; single-stranded DNA binding protein 1, mitochondrial; Single-stranded DNA-binding protein; single-stranded DNA-binding protein, mitochondrial; Ssbp

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	SSBP1 (single stranded DNA binding protein 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther
Mus musculus (house mouse):	Ssbp1 (single-stranded DNA binding protein 1)	HGNC	EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Ssbp1 (single stranded DNA binding protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SSBP1 (single stranded DNA binding protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SSBP1 (single stranded DNA binding protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ssbp1 (single stranded DNA binding protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SSBP1 (single stranded DNA binding protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	SSBP1 (single stranded DNA binding protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ssbp1 (single stranded DNA binding protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SSBP1 (single stranded DNA binding protein 1)	Alliance	DIOPT (HGNC\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Mus musculus (house mouse):	Ssbp1 (single-stranded DNA binding protein 1)	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	mtss-1	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PhylomeDB)
Drosophila melanogaster (fruit fly):	mtSSB	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	RIM1	Alliance	DIOPT (OrthoFinder\|PANTHER)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	4	69,266,024 - 69,276,135 (+)	NCBI
Rnor_6.0 Ensembl	4	68,634,929 - 68,645,172 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	4	68,634,844 - 68,645,112 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	4	133,421,333 - 133,430,764 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	68,027,304 - 68,036,581 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	4	68,302,749 - 68,312,711 (+)	NCBI
Celera	4	64,269,091 - 64,279,111 (+)	NCBI		Celera
Cytogenetic Map	4	q23	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Arsenic Poisoning (ISO)

Optic Atrophy 13 (ISO)

skin disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

2,4-dinitrotoluene (EXP)

3H-1,2-dithiole-3-thione (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

ammonium chloride (EXP)

arsane (ISO)

arsenic atom (ISO)

arsenous acid (ISO)

atrazine (ISO)

beauvericin (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

carbon nanotube (ISO)

chloropicrin (ISO)

chromium(6+) (ISO)

cisplatin (ISO)

cobalt dichloride (ISO)

crocidolite asbestos (ISO)

cycloheximide (ISO)

diarsenic trioxide (ISO)

dibutyl phthalate (ISO)

dicrotophos (ISO)

dimethyl fumarate (ISO)

disodium selenite (ISO)

dopamine (ISO)

doxorubicin (ISO)

enalapril (EXP)

enniatin (ISO)

enzyme inhibitor (ISO)

ethanol (ISO)

finasteride (EXP)

flutamide (EXP)

folic acid (ISO)

gentamycin (EXP)

lead diacetate (ISO)

lipopolysaccharide (ISO)

mercury atom (ISO)

mercury(0) (ISO)

methapyrilene (EXP)

Methylazoxymethanol acetate (EXP)

methylmercury chloride (ISO)

methylparaben (ISO)

N-methyl-4-phenylpyridinium (ISO)

nefazodone (EXP)

paracetamol (ISO)

phenol red (ISO)

pinosylvin (ISO)

pirinixic acid (ISO)

potassium dichromate (ISO)

quercetin (ISO)

rotenone (ISO)

selenomethionine (ISO)

testosterone enanthate (ISO)

titanium dioxide (ISO)

trans-pinosylvin (ISO)

ursodeoxycholic acid (ISO)

valproic acid (ISO)

vincristine (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

DNA replication (IEA)

DNA unwinding involved in DNA replication (IEA,ISO)

mitochondrial DNA replication (IBA)

mitochondrion morphogenesis (IEA,ISO)

positive regulation of DNA helicase activity (IEA,ISO)

positive regulation of helicase activity (IBA,ISO)

Cellular Component

mitochondrial nucleoid (IBA,IEA,ISO)

mitochondrion (ISO,NAS)

nucleoid (IBA)

Molecular Function

chromatin binding (IEA,ISO)

identical protein binding (IEA,ISO)

protein binding (ISO)

single-stranded DNA binding (IBA,IEA,ISO,NAS)

Molecular Pathway Annotations Click to see Annotation Detail View

DNA replication pathway (IEA)

homologous recombination pathway of double-strand break repair (IEA)

mismatch repair pathway (IEA)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
3.	Pipeline to import KEGG annotations from KEGG into RGD
4.	RGD automated data pipeline
5.	RGD automated import pipeline for gene-chemical interactions
6.	Tiranti V, etal., Gene 1993 Apr 30;126(2):219-25.

Additional References at PubMed

PMID:2221914	PMID:9611270	PMID:12975372	PMID:15167897	PMID:16860483	PMID:18063578	PMID:18614015	PMID:20458337	PMID:21630459	PMID:22658674	PMID:22681889	PMID:25931508
PMID:26446790

Genomics

Comparative Map Data

Ssbp1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	4	69,266,024 - 69,276,135 (+)	NCBI
Rnor_6.0 Ensembl	4	68,634,929 - 68,645,172 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	4	68,634,844 - 68,645,112 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	4	133,421,333 - 133,430,764 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	68,027,304 - 68,036,581 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	4	68,302,749 - 68,312,711 (+)	NCBI
Celera	4	64,269,091 - 64,279,111 (+)	NCBI		Celera
Cytogenetic Map	4	q23	NCBI

SSBP1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	7	141,738,334 - 141,787,922 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	7	141,738,321 - 141,750,488 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	7	141,438,121 - 141,450,288 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	141,084,645 - 141,096,726 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	7	140,891,359 - 140,903,441	NCBI
Celera	7	136,159,808 - 136,171,889 (+)	NCBI
Cytogenetic Map	7	q34	NCBI
HuRef	7	135,734,891 - 135,746,970 (+)	NCBI		HuRef
CHM1_1	7	141,372,469 - 141,384,636 (+)	NCBI		CHM1_1
CRA_TCAGchr7v2	7	140,775,840 - 140,788,007 (+)	NCBI

Ssbp1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	40,448,302 - 40,458,757 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	6	40,448,286 - 40,461,634 (+)	Ensembl
GRCm38	6	40,471,414 - 40,481,823 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	40,471,352 - 40,484,700 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	40,421,414 - 40,431,822 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	6	40,401,022 - 40,411,430 (+)	NCBI			mm8
Celera	6	40,458,830 - 40,469,238 (+)	NCBI		Celera
Cytogenetic Map	6	B1	NCBI

Ssbp1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955494	1,814,106 - 1,826,375 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955494	1,807,885 - 1,826,375 (-)	NCBI	ChiLan1.0	ChiLan1.0

SSBP1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	7	146,139,837 - 146,151,495 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	146,139,837 - 146,151,495 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	7	133,670,085 - 133,682,228 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

SSBP1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	16	7,451,444 - 7,461,464 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	16	7,445,351 - 7,461,513 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Ssbp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936592	5,611,775 - 5,620,846 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SSBP1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	18	8,151,029 - 8,167,971 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	18	8,084,292 - 8,167,983 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	18	8,443,269 - 8,460,494 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SSBP1
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	21	110,492,340 - 110,504,176 (+)	NCBI
ChlSab1.1 Ensembl	21	110,492,377 - 110,504,177 (+)	Ensembl

Ssbp1
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624765	21,746,633 - 21,771,234 (+)	NCBI

Position Markers

D4Got43

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	4	68,645,020 - 68,645,203	NCBI	Rnor6.0
Rnor_5.0	4	133,430,772 - 133,430,955	UniSTS	Rnor5.0
RGSC_v3.4	4	68,036,588 - 68,036,772	RGD	RGSC3.4
RGSC_v3.4	4	68,036,589 - 68,036,772	UniSTS	RGSC3.4
RGSC_v3.1	4	68,312,718 - 68,312,902	RGD
Celera	4	64,279,064 - 64,279,247	UniSTS
RH 3.4 Map	4	404.51	UniSTS
RH 3.4 Map	4	404.51	RGD
Cytogenetic Map	4	q22	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
619616	Bp79	Blood pressure QTL 79		0.0292	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	3043231	79575658	Rat
2303168	Bp330	Blood pressure QTL 330	4.25	0.017	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	3043231	145254791	Rat
631261	Tcas3	Tongue tumor susceptibility QTL 3	6.88		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	4	7342404	92484039	Rat
2316958	Gluco58	Glucose level QTL 58	10		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	7850904	182171018	Rat
10755501	Bp390	Blood pressure QTL 390	2.5		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	4	23850384	169318094	Rat
6909122	Insul22	Insulin level QTL 22	4.63		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	4	23991721	76238799	Rat
6909128	Pancm4	Pancreatic morphology QTL 4	11.35		pancreas mass (VT:0010144)	pancreas wet weight (CMO:0000626)	4	23991721	76238799	Rat
1578655	Bmd11	Bone mineral density QTL 11	11		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	4	24631874	69631874	Rat
8655906	Rf60	Renal function QTL 60	3.8		blood creatinine amount (VT:0005328)	creatinine clearance (CMO:0000765)	4	26654749	81874227	Rat
12798520	Anxrr55	Anxiety related response QTL 55	4.45	0.01	locomotor behavior trait (VT:0001392)	number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)	4	29549895	112807890	Rat
8552782	Vie1	Viral induced encephalitis QTL 1	26.4		brain integrity trait (VT:0010579)	encephalitis incidence/prevalence measurement (CMO:0002361)	4	31825560	83531021	Rat
8552801	Bw143	Body weight QTL 143	7.3		body mass (VT:0001259)	change in body weight to body weight ratio (CMO:0002216)	4	31825560	83531021	Rat
8552809	Vie5	Viral induced encephalitis QTL 5	25.3		brain integrity trait (VT:0010579)	encephalitis incidence/prevalence measurement (CMO:0002361)	4	31825560	83531021	Rat
8655961	Kidm43	Kidney mass QTL 43	18		kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	4	34277932	99067150	Rat
1358352	Srcrt3	Stress Responsive Cort QTL 3	2.29		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	36615599	145611886	Rat
61475	Aia2	Adjuvant induced arthritis QTL 2	5.8		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	37685175	73066691	Rat
1331807	Rf31	Renal function QTL 31	2.988		urine potassium amount (VT:0010539)	urine potassium level (CMO:0000128)	4	37703272	75345433	Rat
1300139	Hrtrt6	Heart rate QTL 6	2.85		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	4	37703272	115372927	Rat
61445	Strs3	Sensitivity to stroke QTL 3	3		cerebrum integrity trait (VT:0010549)	post-insult time to onset of cerebrovascular lesion (CMO:0002343)	4	39208222	84208222	Rat
8694439	Bw168	Body weight QTL 168	9.57	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	4	39208247	84208247	Rat
6893678	Bw108	Body weight QTL 108	2.6	0.006	body mass (VT:0001259)	body weight (CMO:0000012)	4	42415777	87415777	Rat
1576305	Emca6	Estrogen-induced mammary cancer QTL 6	5.8		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	4	43414605	155469929	Rat
1354660	Salc1	Saline consumption QTL 1	11.26		drinking behavior trait (VT:0001422)	saline drink intake rate (CMO:0001627)	4	43414792	146942075	Rat
1354612	Foco1	Food consumption QTL 1	8.87		eating behavior trait (VT:0001431)	food intake rate (CMO:0000427)	4	43414792	146942075	Rat
1298082	Stresp4	Stress response QTL 4			blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	46898276	145611886	Rat
2312567	Glom19	Glomerulus QTL 19	1.9	0.006	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	4	49906054	145611886	Rat
4889969	Bss96	Bone structure and strength QTL 96	4.9		tibia size trait (VT:0100001)	tibia cortical bone volume (CMO:0001725)	4	55324857	79575658	Rat
4889972	Bss97	Bone structure and strength QTL 97	5.6		tibia size trait (VT:0100001)	tibia total bone volume (CMO:0001724)	4	55324857	79575658	Rat
5685009	Bmd86	Bone mineral density QTL 86	3.7		tibia mineral mass (VT:1000283)	bone mineral density (CMO:0001226)	4	55324857	79575658	Rat
5685012	Bmd87	Bone mineral density QTL 87	5.1		tibia mineral mass (VT:1000283)	bone mineral content (CMO:0001554)	4	55324857	79575658	Rat
70200	Alc18	Alcohol consumption QTL 18	9.2		drinking behavior trait (VT:0001422)	ethanol intake volume to total fluid intake volume ratio (CMO:0001591)	4	55324953	148360954	Rat
1641833	Alc21	Alcohol consumption QTL 21	8.6	0.0001	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	55375865	125671711	Rat
634311	Sach7	Saccharin preference QTL 7			taste sensitivity trait (VT:0001986)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	4	55791564	82134846	Rat
631546	Bp86	Blood pressure QTL 86	3.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	55791564	92484312	Rat
61336	Bp21	Blood pressure QTL 21	4.6		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	55791834	79557856	Rat
1578657	Bss12	Bone structure and strength QTL 12	8.9		femur morphology trait (VT:0000559)	femoral neck cross-sectional area (CMO:0001697)	4	56092756	101092756	Rat
1578658	Bss13	Bone structure and strength QTL 13	8		femur strength trait (VT:0010010)	femoral neck polar moment of inertia (CMO:0001670)	4	56092756	101092756	Rat
1558651	Swd3	Spike wave discharge measurement QTL 3	4.62	0.000024	brain electrophysiology trait (VT:0010557)	brain spike-and-wave discharge frequency (CMO:0001742)	4	57101077	92990863	Rat
631671	Iddm11	Insulin dependent diabetes mellitus QTL 11	3.6	0.0012	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	4	57307075	79578854	Rat
1358363	Sradr3	Stress Responsive Adrenal Weight QTL 3	6.19		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	4	58166424	103166424	Rat
738009	Sach4	Saccharine consumption QTL 4	4.9	0.000016	consumption behavior trait (VT:0002069)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	4	58640017	154427984	Rat
738016	Alc16	Alcohol consumption QTL 16	3.6	0.00015	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	58640017	154427984	Rat
738031	Alc14	Alcohol consumption QTL 14	7.6	0.00003	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	58640017	154427984	Rat
1549843	Bw53	Body weight QTL 53		0.0001	body mass (VT:0001259)	body weight gain (CMO:0000420)	4	60439127	99066957	Rat
1549839	Bw52	Body weight QTL 52		0.0001	body mass (VT:0001259)	body weight gain (CMO:0000420)	4	60439127	113416139	Rat
61418	Pia5	Pristane induced arthritis QTL 5	4.5		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	61038901	127777403	Rat
7394826	Bw126	Body weight QTL 126		0.002	body mass (VT:0001259)	body weight gain (CMO:0000420)	4	61708103	88565113	Rat
8552807	Vie4	Viral induced encephalitis QTL 4	7.3		brain integrity trait (VT:0010579)	encephalitis incidence/prevalence measurement (CMO:0002361)	4	61708341	83531021	Rat
70192	BpQTLcluster5	Blood pressure QTL cluster 5	4.183		arterial blood pressure trait (VT:2000000)	absolute change in mean arterial blood pressure (CMO:0000533)	4	61708341	113100992	Rat
70192	BpQTLcluster5	Blood pressure QTL cluster 5	4.183		arterial blood pressure trait (VT:2000000)	absolute change in pulse pressure (CMO:0001882)	4	61708341	113100992	Rat
70192	BpQTLcluster5	Blood pressure QTL cluster 5	4.183		arterial blood pressure trait (VT:2000000)	percent change in systolic blood pressure (CMO:0000747)	4	61708341	113100992	Rat
70192	BpQTLcluster5	Blood pressure QTL cluster 5	4.183		arterial blood pressure trait (VT:2000000)	percent change in mean arterial blood pressure (CMO:0002035)	4	61708341	113100992	Rat
70192	BpQTLcluster5	Blood pressure QTL cluster 5	4.183		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	61708341	113100992	Rat
70192	BpQTLcluster5	Blood pressure QTL cluster 5	4.183		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	61708341	113100992	Rat
70192	BpQTLcluster5	Blood pressure QTL cluster 5	4.183		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	4	61708341	113100992	Rat
2300179	Bmd50	Bone mineral density QTL 50	5.9	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	4	61975371	106975371	Rat
1641919	Alc22	Alcohol consumption QTL 22		0.0005	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	62947687	125671711	Rat
631674	Iddm14	Insulin dependent diabetes mellitus QTL 14			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	4	63537179	157286626	Rat
6478684	Anxrr30	Anxiety related response QTL 30		0.00087	defecation behavior trait (VT:0010462)	defecation rate (CMO:0000998)	4	63812687	108812687	Rat
6478743	Anxrr40	Anxiety related response QTL 40		0.83076	defecation behavior trait (VT:0010462)	defecation rate (CMO:0000998)	4	63812687	108812687	Rat
6478772	Anxrr49	Anxiety related response QTL 49		0.15488	defecation behavior trait (VT:0010462)	defecation rate (CMO:0000998)	4	63812687	108812687	Rat
631651	Bp124	Blood pressure QTL 124	3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	63938412	108938412	Rat
2317577	Eae24	Experimental allergic encephalomyelitis QTL 24			nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis severity score (CMO:0001419)	4	65987814	73372824	Rat
2317577	Eae24	Experimental allergic encephalomyelitis QTL 24			nervous system integrity trait (VT:0010566)	percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)	4	65987814	73372824	Rat
2317577	Eae24	Experimental allergic encephalomyelitis QTL 24			nervous system integrity trait (VT:0010566)	post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)	4	65987814	73372824	Rat
2312569	Pur19	Proteinuria QTL 19	3.4	0.001	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	4	65989243	97759057	Rat
2306547	Iddm38	Insulin dependent diabetes mellitus QTL 38			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	66394000	70773654	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	127
Count of miRNA genes:	106
Interacting mature miRNAs:	112
Transcripts:	ENSRNOT00000016217
Prediction methods:	Microtar, Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	43	57	41	19	41	8	10	74	35	35	11	8
Low								1			6
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_183328	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008762822	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008762823	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008762824	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008762825	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008762826	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008762827	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008762829	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039108287	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039108288	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AH006140	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473959	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FM064958	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000141	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M94557	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000016217 ⟹ ENSRNOP00000016217

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	4	68,635,581 - 68,645,012 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000081178 ⟹ ENSRNOP00000074061

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	4	68,634,929 - 68,645,172 (+)	Ensembl

RefSeq Acc Id:

NM_183328 ⟹ NP_899157

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	69,266,071 - 69,276,090 (+)	NCBI
Rnor_6.0	4	68,634,894 - 68,645,067 (+)	NCBI
Rnor_5.0	4	133,421,333 - 133,430,764 (+)	NCBI
RGSC_v3.4	4	68,027,304 - 68,036,581 (+)	RGD
Celera	4	64,269,091 - 64,279,111 (+)	NCBI

Sequence:

show sequence

GCGAGCCGCTGGCAGTCTGGGCTTGCGCGTCAGGAAAAGCCTAAAGATTAGGTTATAAGAAAAA
CCGAAGCCATGTTTCGAAGACCTGTGTTACAGGTATTTCGTCAGTTTGTAAGACAGGAGTCTGA
AGTAGCCAGCAGTTTGGTTCTTGAACGATCTTTGAATCGTGTTCAGTTACTTGGGCGAGTAGGT
CAGGACCCTGTCATGAGACAGGTGGAGGGAAAAAACCCAGTCACGATATTTTCTCTAGCAACAA
ATGAGATGTGGCGATCAGGGGACAATGAAGCATACCAAATGGGTGACGTCAGTCAAAAGACAAC
ATGGCACAGAATATCAGTGTTTCGGCCAGGCCTCAGAGATGTGGCTTATCAGTATGTGAAAAAG
GGGGCTCGTATATTTGTGGAAGGCAAAGTGGACTATGGTGAATACATGGATAAAAACAATGTGA
GGCGGCAAGCAACAACAATCATAGCTGATAACATTATATTTCTGAGTGACCAGGCAAGAGAAAA
GCCATAGAACGGATGATTCTTCGTTGATCATTGTTTGGTACAGTCTCCTTTGCAAATCATGTAC
AGTCTAT

hide sequence

RefSeq Acc Id:

XM_008762822 ⟹ XP_008761044

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	69,266,110 - 69,272,944 (+)	NCBI
Rnor_6.0	4	68,634,933 - 68,642,815 (+)	NCBI

Sequence:

show sequence

GAGGAGAGAAGGTTGAGACAAAGTTGTGAGTCCGTAGTGCACGAGCGCGTGCGGGCCTGGGGAG
CAGGTGTGCGGCTCCTTGCTGGAGTCTCAGTGTCCCCGCTGTTCCCTGTGCAGCCTGCGATCGC
CACTTTAGAGGAAAAGTACCCGCTTATCCCCGCGGCAAGGCTGGGAAGCCGGGCTTACTCAGCG
CTAACGGGAACGAAGGAAAAGCCTAAAGATTAGGTTATAAGAAAAACCGAAGCCATGTTTCGAA
GACCTGTGTTACAGGTATTTCGTCAGTTTGTAAGACAGGAGTCTGAAGTAGCCAGCAGTTTGGT
TCTTGAACGATCTTTGAATCGTGTTCAGTTACTTGGGCGAGTAGGTCAGGACCCTGTCATGAGA
CAGGTGGAGGGAAAAAACCCAGTCACGATATTTTCTCTAGCAACAAATGAGATGTGGCGATCAG
GGGACAATGAAGCATACCAAATGGGTGACGTCAGTCAAAAGACAACATGGCACAGAATATCAGT
GTTTCGGCCAGGCCTCAGAGATGTGGCTTATCAGTATGTGAAAAAGGGGGCTCGTATATTTGTG
GAAGGCAAAGTGGACTATGGTGAATACATGGATAAAAACAATGTGAGGCGGCAAGCAACAACAA
TCATAGCTGGTAAGAAGCCCGTGGTACGCAGCGTTTCTTGTTCATTAAAAGGCTTGGCATAATA
TAGGCCACTTTCCCGGGGGCTCTAAGTACCCCTGATGGCAACGCTACAGGAAACTCCCCAGAGG
ACTTTGATACTTTTCATTTTACTGTTTGCTAACACTGTCCACATTTATTTATTCCTCTAAAATT
GTACTCACATGTTTAGTTCAGGAGGAACTCTGCATAGAGTATAATAGCAACTTGCTCCTGCAGT
ACAGATGTAACTGGAAGCATTTACTCTCAGTGTCTTTAAACACTGTACAAGCACATATTCCAAG
GCAGCTGCAGAAGGGTGATGTTAGGAGTTTGAAACTGAACGTGCAACGACCTTCATTTGAAATT
TAAAAACTTAGGTCTTTAAACAAAACAACATGGACTGCATAGACGTAAAACAATATGATAGAGT
TCAAACCTCTAAAGTTTTAGAAGAATTTTGGAAACAATACAGCTGTTTATATATCTGTAACTTA
ACCTGAAGAAATGCTTTTTTGTATGAAATTATATATAGATTAATGAAATATAGATAGCTTACCA
ATTTGATACCATTTTTTTAAAAGTACTGCTTAACAGATTTTAATAGTATCATGAAAATTAAAAT
GTTACTAAATACATCTTTTAATGAGATAGACATATTTTATTACTTCTTGAAGAAGTTGCTAAAA
TTTATAAGCCTTAATTTGCTTATTTTGTTTTTGTTATTAAACACCTAGAAACATGTTTTGTAGA
TAGGAGTGAAAAATCTTAGTGAGATGTGCTATAACAGTGCTCTGTTGTCTGAAGCGTCTGAGTA
GAGAGAATGGCGGCTTGGCCACTCGTGTGCTCACCACTTAGCACTAATCGGCTGCTTTTTTCTC
TTCCAGGATCAGTTGGAAGTGACATTTTCTATTTTATCCATAAATGTTAGCTTGTATCACTGAA
AGAAAAAGTTGTGTTGTAACACGGTTATTTTACCCAATGTTGAGATTATTATGGCATTTCTGTA
TAAAAAGGATGTCATTGTGCTCACTCTTCCTTGGATTCCCAGTTTTCTTATCTGTATGCTTTTA
AAAAATCCTTTTCTTTCCCCTTGTTCCAATGGTTAT

hide sequence

RefSeq Acc Id:

XM_008762823 ⟹ XP_008761045

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	69,266,095 - 69,272,944 (+)	NCBI
Rnor_6.0	4	68,634,933 - 68,642,815 (+)	NCBI

Sequence:

show sequence

GAGGAGAGAAGGTTGAGACAAAGTTGTGAGTCCGTAGTGCACGAGCGCGTGCGGGCCTGGGGAG
CAGGTGTGCGGCTCCTTGCTGGAGTCTCAGTGTCCCCGCTGTTCCCTGTGCAGCCTGCGATCGC
CACTTTAGAGGAAAAGAAAAGCCTAAAGATTAGGTTATAAGAAAAACCGAAGCCATGTTTCGAA
GACCTGTGTTACAGGTATTTCGTCAGTTTGTAAGACAGGAGTCTGAAGTAGCCAGCAGTTTGGT
TCTTGAACGATCTTTGAATCGTGTTCAGTTACTTGGGCGAGTAGGTCAGGACCCTGTCATGAGA
CAGGTGGAGGGAAAAAACCCAGTCACGATATTTTCTCTAGCAACAAATGAGATGTGGCGATCAG
GGGACAATGAAGCATACCAAATGGGTGACGTCAGTCAAAAGACAACATGGCACAGAATATCAGT
GTTTCGGCCAGGCCTCAGAGATGTGGCTTATCAGTATGTGAAAAAGGGGGCTCGTATATTTGTG
GAAGGCAAAGTGGACTATGGTGAATACATGGATAAAAACAATGTGAGGCGGCAAGCAACAACAA
TCATAGCTGGTAAGAAGCCCGTGGTACGCAGCGTTTCTTGTTCATTAAAAGGCTTGGCATAATA
TAGGCCACTTTCCCGGGGGCTCTAAGTACCCCTGATGGCAACGCTACAGGAAACTCCCCAGAGG
ACTTTGATACTTTTCATTTTACTGTTTGCTAACACTGTCCACATTTATTTATTCCTCTAAAATT
GTACTCACATGTTTAGTTCAGGAGGAACTCTGCATAGAGTATAATAGCAACTTGCTCCTGCAGT
ACAGATGTAACTGGAAGCATTTACTCTCAGTGTCTTTAAACACTGTACAAGCACATATTCCAAG
GCAGCTGCAGAAGGGTGATGTTAGGAGTTTGAAACTGAACGTGCAACGACCTTCATTTGAAATT
TAAAAACTTAGGTCTTTAAACAAAACAACATGGACTGCATAGACGTAAAACAATATGATAGAGT
TCAAACCTCTAAAGTTTTAGAAGAATTTTGGAAACAATACAGCTGTTTATATATCTGTAACTTA
ACCTGAAGAAATGCTTTTTTGTATGAAATTATATATAGATTAATGAAATATAGATAGCTTACCA
ATTTGATACCATTTTTTTAAAAGTACTGCTTAACAGATTTTAATAGTATCATGAAAATTAAAAT
GTTACTAAATACATCTTTTAATGAGATAGACATATTTTATTACTTCTTGAAGAAGTTGCTAAAA
TTTATAAGCCTTAATTTGCTTATTTTGTTTTTGTTATTAAACACCTAGAAACATGTTTTGTAGA
TAGGAGTGAAAAATCTTAGTGAGATGTGCTATAACAGTGCTCTGTTGTCTGAAGCGTCTGAGTA
GAGAGAATGGCGGCTTGGCCACTCGTGTGCTCACCACTTAGCACTAATCGGCTGCTTTTTTCTC
TTCCAGGATCAGTTGGAAGTGACATTTTCTATTTTATCCATAAATGTTAGCTTGTATCACTGAA
AGAAAAAGTTGTGTTGTAACACGGTTATTTTACCCAATGTTGAGATTATTATGGCATTTCTGTA
TAAAAAGGATGTCATTGTGCTCACTCTTCCTTGGATTCCCAGTTTTCTTATCTGTATGCTTTTA
AAAAATCCTTTTCTTTCCCCTTGTTCCAATGGTTAT

hide sequence

RefSeq Acc Id:

XM_008762824 ⟹ XP_008761046

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	69,266,024 - 69,272,944 (+)	NCBI
Rnor_6.0	4	68,634,844 - 68,642,815 (+)	NCBI

Sequence:

show sequence

TCCTGTTTTTCCTTGCCTATCGCGAGCTTTGCCGGCTCTGTGCGCCGGAAGCGAGCCGCTGGCA
GTCTGGGCTTGCGCGTCAGGAAAAGCCTAAAGATTAGGTTATAAGAAAAACCGAAGCCATGTTT
CGAAGACCTGTGTTACAGGTATTTCGTCAGTTTGTAAGACAGGAGTCTGAAGTAGCCAGCAGTT
TGGTTCTTGAACGATCTTTGAATCGTGTTCAGTTACTTGGGCGAGTAGGTCAGGACCCTGTCAT
GAGACAGGTGGAGGGAAAAAACCCAGTCACGATATTTTCTCTAGCAACAAATGAGATGTGGCGA
TCAGGGGACAATGAAGCATACCAAATGGGTGACGTCAGTCAAAAGACAACATGGCACAGAATAT
CAGTGTTTCGGCCAGGCCTCAGAGATGTGGCTTATCAGTATGTGAAAAAGGGGGCTCGTATATT
TGTGGAAGGCAAAGTGGACTATGGTGAATACATGGATAAAAACAATGTGAGGCGGCAAGCAACA
ACAATCATAGCTGGTAAGAAGCCCGTGGTACGCAGCGTTTCTTGTTCATTAAAAGGCTTGGCAT
AATATAGGCCACTTTCCCGGGGGCTCTAAGTACCCCTGATGGCAACGCTACAGGAAACTCCCCA
GAGGACTTTGATACTTTTCATTTTACTGTTTGCTAACACTGTCCACATTTATTTATTCCTCTAA
AATTGTACTCACATGTTTAGTTCAGGAGGAACTCTGCATAGAGTATAATAGCAACTTGCTCCTG
CAGTACAGATGTAACTGGAAGCATTTACTCTCAGTGTCTTTAAACACTGTACAAGCACATATTC
CAAGGCAGCTGCAGAAGGGTGATGTTAGGAGTTTGAAACTGAACGTGCAACGACCTTCATTTGA
AATTTAAAAACTTAGGTCTTTAAACAAAACAACATGGACTGCATAGACGTAAAACAATATGATA
GAGTTCAAACCTCTAAAGTTTTAGAAGAATTTTGGAAACAATACAGCTGTTTATATATCTGTAA
CTTAACCTGAAGAAATGCTTTTTTGTATGAAATTATATATAGATTAATGAAATATAGATAGCTT
ACCAATTTGATACCATTTTTTTAAAAGTACTGCTTAACAGATTTTAATAGTATCATGAAAATTA
AAATGTTACTAAATACATCTTTTAATGAGATAGACATATTTTATTACTTCTTGAAGAAGTTGCT
AAAATTTATAAGCCTTAATTTGCTTATTTTGTTTTTGTTATTAAACACCTAGAAACATGTTTTG
TAGATAGGAGTGAAAAATCTTAGTGAGATGTGCTATAACAGTGCTCTGTTGTCTGAAGCGTCTG
AGTAGAGAGAATGGCGGCTTGGCCACTCGTGTGCTCACCACTTAGCACTAATCGGCTGCTTTTT
TCTCTTCCAGGATCAGTTGGAAGTGACATTTTCTATTTTATCCATAAATGTTAGCTTGTATCAC
TGAAAGAAAAAGTTGTGTTGTAACACGGTTATTTTACCCAATGTTGAGATTATTATGGCATTTC
TGTATAAAAAGGATGTCATTGTGCTCACTCTTCCTTGGATTCCCAGTTTTCTTATCTGTATGCT
TTTAAAAAATCCTTTTCTTTCCCCTTGTTCCAATGGTTAT

hide sequence

RefSeq Acc Id:

XM_008762825 ⟹ XP_008761047

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	69,266,096 - 69,272,944 (+)	NCBI
Rnor_6.0	4	68,634,918 - 68,642,815 (+)	NCBI

Sequence:

show sequence

GCGCGTCAGGTGAGGGAGGAGAGAAGGTTGAGACAAAGTTGTGAGTCCGTAGTGCACGAGCGCG
TGCGGGCCTGGGGAGCAGGAAAAGCCTAAAGATTAGGTTATAAGAAAAACCGAAGCCATGTTTC
GAAGACCTGTGTTACAGGTATTTCGTCAGTTTGTAAGACAGGAGTCTGAAGTAGCCAGCAGTTT
GGTTCTTGAACGATCTTTGAATCGTGTTCAGTTACTTGGGCGAGTAGGTCAGGACCCTGTCATG
AGACAGGTGGAGGGAAAAAACCCAGTCACGATATTTTCTCTAGCAACAAATGAGATGTGGCGAT
CAGGGGACAATGAAGCATACCAAATGGGTGACGTCAGTCAAAAGACAACATGGCACAGAATATC
AGTGTTTCGGCCAGGCCTCAGAGATGTGGCTTATCAGTATGTGAAAAAGGGGGCTCGTATATTT
GTGGAAGGCAAAGTGGACTATGGTGAATACATGGATAAAAACAATGTGAGGCGGCAAGCAACAA
CAATCATAGCTGGTAAGAAGCCCGTGGTACGCAGCGTTTCTTGTTCATTAAAAGGCTTGGCATA
ATATAGGCCACTTTCCCGGGGGCTCTAAGTACCCCTGATGGCAACGCTACAGGAAACTCCCCAG
AGGACTTTGATACTTTTCATTTTACTGTTTGCTAACACTGTCCACATTTATTTATTCCTCTAAA
ATTGTACTCACATGTTTAGTTCAGGAGGAACTCTGCATAGAGTATAATAGCAACTTGCTCCTGC
AGTACAGATGTAACTGGAAGCATTTACTCTCAGTGTCTTTAAACACTGTACAAGCACATATTCC
AAGGCAGCTGCAGAAGGGTGATGTTAGGAGTTTGAAACTGAACGTGCAACGACCTTCATTTGAA
ATTTAAAAACTTAGGTCTTTAAACAAAACAACATGGACTGCATAGACGTAAAACAATATGATAG
AGTTCAAACCTCTAAAGTTTTAGAAGAATTTTGGAAACAATACAGCTGTTTATATATCTGTAAC
TTAACCTGAAGAAATGCTTTTTTGTATGAAATTATATATAGATTAATGAAATATAGATAGCTTA
CCAATTTGATACCATTTTTTTAAAAGTACTGCTTAACAGATTTTAATAGTATCATGAAAATTAA
AATGTTACTAAATACATCTTTTAATGAGATAGACATATTTTATTACTTCTTGAAGAAGTTGCTA
AAATTTATAAGCCTTAATTTGCTTATTTTGTTTTTGTTATTAAACACCTAGAAACATGTTTTGT
AGATAGGAGTGAAAAATCTTAGTGAGATGTGCTATAACAGTGCTCTGTTGTCTGAAGCGTCTGA
GTAGAGAGAATGGCGGCTTGGCCACTCGTGTGCTCACCACTTAGCACTAATCGGCTGCTTTTTT
CTCTTCCAGGATCAGTTGGAAGTGACATTTTCTATTTTATCCATAAATGTTAGCTTGTATCACT
GAAAGAAAAAGTTGTGTTGTAACACGGTTATTTTACCCAATGTTGAGATTATTATGGCATTTCT
GTATAAAAAGGATGTCATTGTGCTCACTCTTCCTTGGATTCCCAGTTTTCTTATCTGTATGCTT
TTAAAAAATCCTTTTCTTTCCCCTTGTTCCAATGGTTAT

hide sequence

RefSeq Acc Id:

XM_008762826 ⟹ XP_008761048

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	69,266,096 - 69,272,944 (+)	NCBI
Rnor_6.0	4	68,634,932 - 68,642,815 (+)	NCBI

Sequence:

show sequence

GGAGGAGAGAAGGTTGAGACAAAGTTGAAAAGCCTAAAGATTAGGTTATAAGAAAAACCGAAGC
CATGTTTCGAAGACCTGTGTTACAGGTATTTCGTCAGTTTGTAAGACAGGAGTCTGAAGTAGCC
AGCAGTTTGGTTCTTGAACGATCTTTGAATCGTGTTCAGTTACTTGGGCGAGTAGGTCAGGACC
CTGTCATGAGACAGGTGGAGGGAAAAAACCCAGTCACGATATTTTCTCTAGCAACAAATGAGAT
GTGGCGATCAGGGGACAATGAAGCATACCAAATGGGTGACGTCAGTCAAAAGACAACATGGCAC
AGAATATCAGTGTTTCGGCCAGGCCTCAGAGATGTGGCTTATCAGTATGTGAAAAAGGGGGCTC
GTATATTTGTGGAAGGCAAAGTGGACTATGGTGAATACATGGATAAAAACAATGTGAGGCGGCA
AGCAACAACAATCATAGCTGGTAAGAAGCCCGTGGTACGCAGCGTTTCTTGTTCATTAAAAGGC
TTGGCATAATATAGGCCACTTTCCCGGGGGCTCTAAGTACCCCTGATGGCAACGCTACAGGAAA
CTCCCCAGAGGACTTTGATACTTTTCATTTTACTGTTTGCTAACACTGTCCACATTTATTTATT
CCTCTAAAATTGTACTCACATGTTTAGTTCAGGAGGAACTCTGCATAGAGTATAATAGCAACTT
GCTCCTGCAGTACAGATGTAACTGGAAGCATTTACTCTCAGTGTCTTTAAACACTGTACAAGCA
CATATTCCAAGGCAGCTGCAGAAGGGTGATGTTAGGAGTTTGAAACTGAACGTGCAACGACCTT
CATTTGAAATTTAAAAACTTAGGTCTTTAAACAAAACAACATGGACTGCATAGACGTAAAACAA
TATGATAGAGTTCAAACCTCTAAAGTTTTAGAAGAATTTTGGAAACAATACAGCTGTTTATATA
TCTGTAACTTAACCTGAAGAAATGCTTTTTTGTATGAAATTATATATAGATTAATGAAATATAG
ATAGCTTACCAATTTGATACCATTTTTTTAAAAGTACTGCTTAACAGATTTTAATAGTATCATG
AAAATTAAAATGTTACTAAATACATCTTTTAATGAGATAGACATATTTTATTACTTCTTGAAGA
AGTTGCTAAAATTTATAAGCCTTAATTTGCTTATTTTGTTTTTGTTATTAAACACCTAGAAACA
TGTTTTGTAGATAGGAGTGAAAAATCTTAGTGAGATGTGCTATAACAGTGCTCTGTTGTCTGAA
GCGTCTGAGTAGAGAGAATGGCGGCTTGGCCACTCGTGTGCTCACCACTTAGCACTAATCGGCT
GCTTTTTTCTCTTCCAGGATCAGTTGGAAGTGACATTTTCTATTTTATCCATAAATGTTAGCTT
GTATCACTGAAAGAAAAAGTTGTGTTGTAACACGGTTATTTTACCCAATGTTGAGATTATTATG
GCATTTCTGTATAAAAAGGATGTCATTGTGCTCACTCTTCCTTGGATTCCCAGTTTTCTTATCT
GTATGCTTTTAAAAAATCCTTTTCTTTCCCCTTGTTCCAATGGTTAT

hide sequence

RefSeq Acc Id:

XM_008762827 ⟹ XP_008761049

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	69,266,097 - 69,276,135 (+)	NCBI
Rnor_6.0	4	68,634,933 - 68,645,112 (+)	NCBI

Sequence:

show sequence

GAGGAGAGAAGGTTGAGACAAAGTTGTGAGTCCGTAGTGCACGAGCGCGTGCGGGCCTGGGGAG
CAGGTGTGCGGCTCCTTGCTGGAGTCTCAGTGTCCCCGCTGTTCCCTGTGCAGCCTGCGATCGC
CACTTTAGAGGAAAAGTACCCGCTTATCCCCGCGGCAAGGCTGGGAAGCCGGGCTTACTCAGCG
CTAACGGGAACGAAGGAAAAGCCTAAAGATTAGGTTATAAGAAAAACCGAAGCCATGTTTCGAA
GACCTGTGTTACAGGTATTTCGTCAGTTTGTAAGACAGGAGTCTGAAGTAGCCAGCAGTTTGGT
TCTTGAACGATCTTTGAATCGTGTTCAGTTACTTGGGCGAGTAGGTCAGGACCCTGTCATGAGA
CAGGTGGAGGGAAAAAACCCAGTCACGATATTTTCTCTAGCAACAAATGAGATGTGGCGATCAG
GGGACAATGAAGCATACCAAATGGGTGACGTCAGTCAAAAGACAACATGGCACAGAATATCAGT
GTTTCGGCCAGGCCTCAGAGATGTGGCTTATCAGTATGTGAAAAAGGGGGCTCGTATATTTGTG
GAAGGCAAAGTGGACTATGGTGAATACATGGATAAAAACAATGTGAGGCGGCAAGCAACAACAA
TCATAGCTGATAACATTATATTTCTGAGTGACCAGGCAAGAGAAAAGCCATAGAACGGATGATT
CTTCGTTGATCATTGTTTGGTACAGTCTCCTTTGCAAATCATGTACAGTCTATAGTTTAAAGAC
AAAAATTAAAATTTTTATATAAAATGAGTGATAA

hide sequence

RefSeq Acc Id:

XM_008762829 ⟹ XP_008761051

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	69,266,713 - 69,276,135 (+)	NCBI
Rnor_6.0	4	68,635,536 - 68,645,112 (+)	NCBI

Sequence:

show sequence

CTTTAGGAAAAGCCTAAAGATTAGGTTATAAGAAAAACCGAAGCCATGTTTCGAAGACCTGTGT
TACAGGTATTTCGTCAGTTTGTAAGACAGGAGTCTGAAGTAGCCAGCAGTTTGGTTCTTGAACG
ATCTTTGAATCGTGTTCAGTTACTTGGGCGAGTAGGTCAGGACCCTGTCATGAGACAGGTGGAG
GGAAAAAACCCAGTCACGATATTTTCTCTAGCAACAAATGAGATGTGGCGATCAGGGGACAATG
AAGCATACCAAATGGGTGACGTCAGTCAAAAGACAACATGGCACAGAATATCAGTGTTTCGGCC
AGGCCTCAGAGATGTGGCTTATCAGTATGTGAAAAAGGGGGCTCGTATATTTGTGGAAGGCAAA
GTGGACTATGGTGAATACATGGATAAAAACAATGTGAGGCGGCAAGCAACAACAATCATAGCTG
GTAAGAAGCCCGTGATAACATTATATTTCTGAGTGACCAGGCAAGAGAAAAGCCATAGAACGGA
TGATTCTTCGTTGATCATTGTTTGGTACAGTCTCCTTTGCAAATCATGTACAGTCTATAGTTTA
AAGACAAAAATTAAAATTTTTATATAAAATGAGTGATAA

hide sequence

RefSeq Acc Id:

XM_039108287 ⟹ XP_038964215

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	69,266,096 - 69,276,135 (+)	NCBI

RefSeq Acc Id:

XM_039108288 ⟹ XP_038964216

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	69,266,713 - 69,273,984 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_899157	(Get FASTA)	NCBI Sequence Viewer
	XP_008761044	(Get FASTA)	NCBI Sequence Viewer
	XP_008761045	(Get FASTA)	NCBI Sequence Viewer
	XP_008761046	(Get FASTA)	NCBI Sequence Viewer
	XP_008761047	(Get FASTA)	NCBI Sequence Viewer
	XP_008761048	(Get FASTA)	NCBI Sequence Viewer
	XP_008761049	(Get FASTA)	NCBI Sequence Viewer
	XP_008761051	(Get FASTA)	NCBI Sequence Viewer
	XP_038964215	(Get FASTA)	NCBI Sequence Viewer
	XP_038964216	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA67315	(Get FASTA)	NCBI Sequence Viewer
	AAC18063	(Get FASTA)	NCBI Sequence Viewer
	EDM15409	(Get FASTA)	NCBI Sequence Viewer
	EDM15410	(Get FASTA)	NCBI Sequence Viewer
	EDM15411	(Get FASTA)	NCBI Sequence Viewer
	EDM15412	(Get FASTA)	NCBI Sequence Viewer
	EDM15413	(Get FASTA)	NCBI Sequence Viewer
	P28042	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_899157 ⟸ NM_183328
- Peptide Label:	precursor
- UniProtKB:	A0A0G2K747 (UniProtKB/TrEMBL)
- Sequence:	show sequence MFRRPVLQVFRQFVRQESEVASSLVLERSLNRVQLLGRVGQDPVMRQVEGKNPVTIFSLATNEM WRSGDNEAYQMGDVSQKTTWHRISVFRPGLRDVAYQYVKKGARIFVEGKVDYGEYMDKNNVRRQ ATTIIADNIIFLSDQAREKP hide sequence

RefSeq Acc Id:	XP_008761046 ⟸ XM_008762824
- Peptide Label:	isoform X1
- Sequence:	show sequence MFRRPVLQVFRQFVRQESEVASSLVLERSLNRVQLLGRVGQDPVMRQVEGKNPVTIFSLATNEM WRSGDNEAYQMGDVSQKTTWHRISVFRPGLRDVAYQYVKKGARIFVEGKVDYGEYMDKNNVRRQ ATTIIAGKKPVVRSVSCSLKGLA hide sequence

RefSeq Acc Id:	XP_008761047 ⟸ XM_008762825
- Peptide Label:	isoform X1
- Sequence:	show sequence MFRRPVLQVFRQFVRQESEVASSLVLERSLNRVQLLGRVGQDPVMRQVEGKNPVTIFSLATNEM WRSGDNEAYQMGDVSQKTTWHRISVFRPGLRDVAYQYVKKGARIFVEGKVDYGEYMDKNNVRRQ ATTIIAGKKPVVRSVSCSLKGLA hide sequence

RefSeq Acc Id:	XP_008761048 ⟸ XM_008762826
- Peptide Label:	isoform X1
- Sequence:	show sequence MFRRPVLQVFRQFVRQESEVASSLVLERSLNRVQLLGRVGQDPVMRQVEGKNPVTIFSLATNEM WRSGDNEAYQMGDVSQKTTWHRISVFRPGLRDVAYQYVKKGARIFVEGKVDYGEYMDKNNVRRQ ATTIIAGKKPVVRSVSCSLKGLA hide sequence

RefSeq Acc Id:	XP_008761049 ⟸ XM_008762827
- Peptide Label:	isoform X2
- UniProtKB:	A0A0G2K747 (UniProtKB/TrEMBL)
- Sequence:	show sequence MFRRPVLQVFRQFVRQESEVASSLVLERSLNRVQLLGRVGQDPVMRQVEGKNPVTIFSLATNEM WRSGDNEAYQMGDVSQKTTWHRISVFRPGLRDVAYQYVKKGARIFVEGKVDYGEYMDKNNVRRQ ATTIIADNIIFLSDQAREKP hide sequence

RefSeq Acc Id:	XP_008761044 ⟸ XM_008762822
- Peptide Label:	isoform X1
- Sequence:	show sequence MFRRPVLQVFRQFVRQESEVASSLVLERSLNRVQLLGRVGQDPVMRQVEGKNPVTIFSLATNEM WRSGDNEAYQMGDVSQKTTWHRISVFRPGLRDVAYQYVKKGARIFVEGKVDYGEYMDKNNVRRQ ATTIIAGKKPVVRSVSCSLKGLA hide sequence

RefSeq Acc Id:	XP_008761045 ⟸ XM_008762823
- Peptide Label:	isoform X1
- Sequence:	show sequence MFRRPVLQVFRQFVRQESEVASSLVLERSLNRVQLLGRVGQDPVMRQVEGKNPVTIFSLATNEM WRSGDNEAYQMGDVSQKTTWHRISVFRPGLRDVAYQYVKKGARIFVEGKVDYGEYMDKNNVRRQ ATTIIAGKKPVVRSVSCSLKGLA hide sequence

RefSeq Acc Id:	XP_008761051 ⟸ XM_008762829
- Peptide Label:	isoform X4
- Sequence:	show sequence MFRRPVLQVFRQFVRQESEVASSLVLERSLNRVQLLGRVGQDPVMRQVEGKNPVTIFSLATNEM WRSGDNEAYQMGDVSQKTTWHRISVFRPGLRDVAYQYVKKGARIFVEGKVDYGEYMDKNNVRRQ ATTIIAGKKPVITLYF hide sequence

RefSeq Acc Id:

ENSRNOP00000016217 ⟸ ENSRNOT00000016217

RefSeq Acc Id:

ENSRNOP00000074061 ⟸ ENSRNOT00000081178

RefSeq Acc Id:	XP_038964215 ⟸ XM_039108287
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038964216 ⟸ XM_039108288
- Peptide Label:	isoform X3

Protein Domains

SSB

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Promoters

RGD ID:

13692988

Promoter ID:

EPDNEW_R3511

Type:

initiation region

Name:

Ssbp1_1

Description:

single stranded DNA binding protein 1

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	4	68,634,907 - 68,634,967	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

ACI/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN/SsN (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

F344/NRrrc (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FHL/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

GH/OmrMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LE/Stm (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/Crl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/NCrlBR (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LL/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LN/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

M520/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MHS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MR/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

SBH/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SBN/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHR/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHRSP/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SR/JrHsd (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/Jr (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/JrHsdMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WAG/Rij (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

WKY/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WN/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:3760	AgrOrtholog
Ensembl Genes	ENSRNOG00000012100	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000016217	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOP00000074061	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000016217	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOT00000081178	UniProtKB/TrEMBL
InterPro	NA-bd_OB-fold	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Primosome_PriB/ssb	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ssDNA-bd	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:54304	UniProtKB/TrEMBL
NCBI Gene	54304	ENTREZGENE
PANTHER	PTHR10302	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	SSB	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Ssbp1	PhenoGen
PROSITE	SSB	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF50249	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs	ssb	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A0G2K747	ENTREZGENE, UniProtKB/TrEMBL
	G3V7K6_RAT	UniProtKB/TrEMBL
	P28042	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-03-29	Ssbp1	single stranded DNA binding protein 1	Ssbp1	single-stranded DNA binding protein 1, mitochondrial	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-10-16	Ssbp1	single-stranded DNA binding protein 1, mitochondrial	Ssbp1	single-stranded DNA binding protein 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2003-04-09	Ssbp1	single-stranded DNA binding protein 1	Ssbp	Single-stranded DNA-binding protein	Symbol and Name updated	629477	APPROVED
2002-06-10	Ssbp	Single-stranded DNA-binding protein			Symbol and Name status set to approved	70586	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_protein	135 amino acids	730021

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

Imported Annotations - KEGG (archival)