Sbds (SBDS, ribosome maturation factor)

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Gene: Sbds (SBDS, ribosome maturation factor) Rattus norvegicus

Analyze

Symbol:

Sbds

Name:

SBDS, ribosome maturation factor

RGD ID:

1311043

Description:

Predicted to have microtubule binding activity; rRNA binding activity; and ribosome binding activity. Predicted to be involved in several processes, including hematopoietic or lymphoid organ development; inner cell mass cell proliferation; and ribosome biogenesis. Predicted to localize to cytosol; nuclear lumen; and spindle pole. Human ortholog(s) of this gene implicated in Shwachman-Diamond syndrome and aplastic anemia. Orthologous to human SBDS (SBDS ribosome maturation factor); PARTICIPATES IN ribosome biogenesis pathway; INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

LOC288615; MGC105922; ribosome maturation protein SBDS; SBDS ribosome assembly guanine nucleotide exchange factor; Shwachman-Bodian-Diamond syndrome; Shwachman-Bodian-Diamond syndrome homolog; Shwachman-Bodian-Diamond syndrome homolog (human); shwachman-Bodian-Diamond syndrome protein homolog

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):	SBDS (SBDS ribosome maturation factor)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Sbds (SBDS ribosome maturation factor)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Sbds (SBDS ribosome maturation factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SBDS (SBDS ribosome maturation factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SBDS (SBDS ribosome maturation factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Sbds (SBDS ribosome maturation factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SBDS (SBDS ribosome maturation factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	SBDS (SBDS ribosome maturation factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Sbds (SBDS ribosome maturation factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SBDS (SBDS ribosome maturation factor)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Sbds (SBDS ribosome maturation factor)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	sbds-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	CG8549	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|TreeFam)
Saccharomyces cerevisiae (baker's yeast):	SDO1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)

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	12	26,420,410 - 26,429,650 (+)	NCBI
Rnor_6.0 Ensembl	12	29,921,443 - 29,930,600 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	12	29,921,443 - 29,930,602 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	12	31,858,315 - 31,867,474 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	27,457,313 - 27,466,472 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	12	27,320,528 - 27,329,686 (+)	NCBI
Celera	12	28,134,732 - 28,143,891 (+)	NCBI		Celera
Cytogenetic Map	12	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

aplastic anemia (ISO)

Dwarfism (ISO)

genetic disease (ISO)

pleomorphic xanthoastrocytoma (ISO)

Shwachman-Diamond syndrome (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

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

2,4-dinitrotoluene (EXP)

2,6-dinitrotoluene (EXP)

4,4'-diaminodiphenylmethane (ISO)

aflatoxin B1 (ISO)

amosite asbestos (ISO)

Aroclor 1254 (ISO)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

bromobenzene (EXP)

butanal (ISO)

carbon nanotube (ISO)

cisplatin (ISO)

copper atom (ISO)

copper(0) (ISO)

copper(II) chloride (ISO)

copper(II) sulfate (ISO)

dicrotophos (ISO)

disodium selenite (ISO)

disulfiram (ISO)

doxorubicin (ISO)

hydrogen peroxide (ISO)

ochratoxin A (EXP)

paracetamol (ISO)

perfluorooctanoic acid (ISO)

pirinixic acid (ISO)

silicon dioxide (ISO)

sodium arsenite (EXP)

tetrachloromethane (ISO)

thapsigargin (ISO)

urethane (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

bone marrow development (ISO)

bone mineralization (ISO)

hematopoietic progenitor cell differentiation (ISO,ISS)

inner cell mass cell proliferation (ISO)

leukocyte chemotaxis (ISO)

mature ribosome assembly (ISO,ISS)

mitotic spindle organization (ISO)

rRNA processing (ISO)

Cellular Component

cellular_component (ND)

cytoplasm (ISO)

cytosol (IEA,ISO)

nucleolus (ISO)

nucleoplasm (IEA,ISO)

nucleus (ISO)

spindle pole (ISO,ISS)

Molecular Function

microtubule binding (ISO)

molecular_function (ND)

protein binding (ISO)

ribosome binding (ISO,ISS)

rRNA binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

ribosome biogenesis pathway (IEA)

References

References - curated


1.	Boocock GR, etal., Nat Genet. 2003 Jan;33(1):97-101. Epub 2002 Dec 23.
2.	OMIM Disease Annotation Pipeline
3.	Pipeline to import KEGG annotations from KEGG into RGD
4.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5.	RGD automated import pipeline for gene-chemical interactions
6.	RGD comprehensive gene curation

Additional References at PubMed

PMID:12477932	PMID:14743349	PMID:15342903	PMID:15860664	PMID:16914746	PMID:17475909	PMID:17643419	PMID:17920346	PMID:18324336	PMID:19759903	PMID:21536732	PMID:22658674

Genomics

Comparative Map Data

Sbds
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	12	26,420,410 - 26,429,650 (+)	NCBI
Rnor_6.0 Ensembl	12	29,921,443 - 29,930,600 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	12	29,921,443 - 29,930,602 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	12	31,858,315 - 31,867,474 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	27,457,313 - 27,466,472 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	12	27,320,528 - 27,329,686 (+)	NCBI
Celera	12	28,134,732 - 28,143,891 (+)	NCBI		Celera
Cytogenetic Map	12	q12	NCBI

SBDS
(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	66,987,680 - 66,995,587 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	7	66,987,680 - 66,995,586 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	7	66,452,667 - 66,460,573 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	66,090,125 - 66,098,023 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	7	65,896,839 - 65,904,738	NCBI
Celera	7	65,655,621 - 65,663,519 (+)	NCBI
Cytogenetic Map	7	q11.21	NCBI
HuRef	7	62,635,769 - 62,643,913 (-)	NCBI		HuRef
CHM1_1	7	66,547,913 - 66,555,811 (-)	NCBI		CHM1_1
CRA_TCAGchr7v2	7	65,790,252 - 65,798,150 (-)	NCBI

Sbds
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	130,274,573 - 130,284,371 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	5	130,274,572 - 130,284,371 (-)	Ensembl
GRCm38	5	130,245,732 - 130,255,530 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	130,245,731 - 130,255,530 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	130,721,602 - 130,731,332 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	5	130,530,435 - 130,540,165 (-)	NCBI			mm8
Celera	5	127,258,662 - 127,268,390 (-)	NCBI		Celera
Cytogenetic Map	5	G1.3	NCBI

Sbds
(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	NW_004955456	8,773,917 - 8,782,427 (-)	NCBI	ChiLan1.0	ChiLan1.0

SBDS
(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	74,022,350 - 74,030,407 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
Mhudiblu_PPA_v0	7	59,090,343 - 59,098,332 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

SBDS
(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	6	1,256,546 - 1,263,467 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	6	1,256,087 - 1,263,482 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Sbds
(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_004936543	7,324,748 - 7,329,774 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SBDS
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	16,161,557 - 16,187,540 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	16,161,524 - 16,168,619 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	16,408,130 - 16,415,224 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SBDS
(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	28	2,527,395 - 2,535,152 (-)	NCBI
ChlSab1.1 Ensembl	28	2,527,020 - 2,535,147 (-)	Ensembl

Sbds
(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_004624740	8,734,547 - 8,740,634 (-)	NCBI

Position Markers

RH139480

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	12	29,925,945 - 29,926,141	NCBI	Rnor6.0
Rnor_5.0	12	31,862,817 - 31,863,013	UniSTS	Rnor5.0
RGSC_v3.4	12	27,461,815 - 27,462,011	UniSTS	RGSC3.4
Celera	12	28,139,234 - 28,139,430	UniSTS
RH 3.4 Map	12	447.0	UniSTS
Cytogenetic Map	12	q13	UniSTS

RH130200

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	12	29,930,293 - 29,930,488	NCBI	Rnor6.0
Rnor_5.0	12	31,867,165 - 31,867,360	UniSTS	Rnor5.0
RGSC_v3.4	12	27,466,163 - 27,466,358	UniSTS	RGSC3.4
Celera	12	28,143,582 - 28,143,777	UniSTS
Cytogenetic Map	12	q13	UniSTS

RH131403

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	12	29,925,786 - 29,925,966	NCBI	Rnor6.0
Rnor_5.0	12	31,862,658 - 31,862,838	UniSTS	Rnor5.0
RGSC_v3.4	12	27,461,656 - 27,461,836	UniSTS	RGSC3.4
Celera	12	28,139,075 - 28,139,255	UniSTS
RH 3.4 Map	12	453.9	UniSTS
Cytogenetic Map	12	q13	UniSTS

Sbds

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	12	29,921,508 - 29,922,592	NCBI	Rnor6.0
Rnor_5.0	12	31,858,380 - 31,859,464	UniSTS	Rnor5.0
RGSC_v3.4	12	27,457,378 - 27,458,462	UniSTS	RGSC3.4
Celera	12	28,134,797 - 28,135,881	UniSTS
Cytogenetic Map	12	q13	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
1581516	Cm56	Cardiac mass QTL 56	4.2	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	12	1	30749723	Rat
1598855	Bp294	Blood pressure QTL 294	3.5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	1	36919844	Rat
7387292	Kidm42	Kidney mass QTL 42	3.03	0.0004	kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	12	1	38334225	Rat
9590086	Insglur6	Insulin/glucose ratio QTL 6	18.97	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	12	150810	45150810	Rat
9590147	Scort7	Serum corticosterone level QTL 7	13.61	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	12	150810	45150810	Rat
7411545	Bw128	Body weight QTL 128	5.2	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	12	150810	45150810	Rat
7411586	Foco5	Food consumption QTL 5	5.4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	150810	45150810	Rat
7411660	Foco28	Food consumption QTL 28	10.9	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	150810	45150810	Rat
7411595	Foco9	Food consumption QTL 9	4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	150810	45150810	Rat
8694179	Bw150	Body weight QTL 150	2.9	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	12	150810	45150810	Rat
2303575	Insul14	Insulin level QTL 14	4		blood insulin amount (VT:0001560)	blood insulin level (CMO:0000349)	12	492578	45492578	Rat
737979	Pia22	Pristane induced arthritis QTL 22	53.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	2475687	47475687	Rat
634351	Apr5	Acute phase response QTL 5	6.7		blood interleukin-6 amount (VT:0008595)	plasma interleukin-6 level (CMO:0001927)	12	2513442	47513442	Rat
2302042	Pia38	Pristane induced arthritis QTL 38	3.5	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	12	2513442	47513442	Rat
634350	Apr4	Acute phase response QTL 4	6		orosomucoid 1 amount (VT:0010541)	plasma orosomucoid 1 level (CMO:0001467)	12	4210051	49210051	Rat
7411547	Bw129	Body weight QTL 129		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	6	9223626	52716770	Rat
7411588	Foco6	Food consumption QTL 6		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	9223626	52716770	Rat
7411597	Foco10	Food consumption QTL 10		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	9223626	52716770	Rat
7411641	Foco19	Food consumption QTL 19	27.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	9223626	52716770	Rat
8552918	Pigfal7	Plasma insulin-like growth factor 1 level QTL 7			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	9223626	52716770	Rat
8552964	Pigfal17	Plasma insulin-like growth factor 1 level QTL 17	3.5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	9223626	52716770	Rat
8552912	Pigfal6	Plasma insulin-like growth factor 1 level QTL 6	5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	9223630	52716770	Rat
10059594	Kidm46	Kidney mass QTL 46	3.79	0.025	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	12	9789834	52716770	Rat
2293086	Iddm30	Insulin dependent diabetes mellitus QTL 30	3.82		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	10175889	31975590	Rat
61331	Eau2	Experimental allergic uveoretinitis QTL 2		0.0005	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	12	10256890	31723732	Rat
1300157	Rf21	Renal function QTL 21	4.4		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	12	11764995	37522089	Rat
1331755	Bp219	Blood pressure QTL 219	3.041		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	12	13127211	31723688	Rat
1331761	Bp218	Blood pressure QTL 218	2.973		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	12	13127211	50320041	Rat
61404	Bw120	Body weight QTL 120	5.1		body mass (VT:0001259)	body mass index (BMI) (CMO:0000105)	12	14419775	52716770	Rat
1549829	Scl48	Serum cholesterol level QTL 48	5		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	12	15021986	52716770	Rat
61416	Pia4	Pristane induced arthritis QTL 4	8.4		joint integrity trait (VT:0010548)	arthritic paw count (CMO:0001460)	12	15714609	35964508	Rat
61421	Cia12	Collagen induced arthritis QTL 12	4.6		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	15714609	41291738	Rat
2300186	Bmd59	Bone mineral density QTL 59	7.1	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	12	15908900	52716770	Rat
2293699	Bss49	Bone structure and strength QTL 49	5.61	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra trabecular cross-sectional area (CMO:0001692)	12	15908900	52716770	Rat
631543	Bp83	Blood pressure QTL 83	5.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	17185580	44098244	Rat
2293684	Bmd26	Bone mineral density QTL 26	4.4	0.0002	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	12	17960865	38409001	Rat
1641928	Alcrsp5	Alcohol response QTL 5			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	12	18342477	52716770	Rat
2303569	Gluco44	Glucose level QTL 44	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	18342477	52716770	Rat
2302060	Pia37	Pristane induced arthritis QTL 37	6.1	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	12	18729043	52716770	Rat
1549902	Bp269	Blood pressure QTL 269			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	18752593	52716770	Rat
1549912	Bp268	Blood pressure QTL 268			arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	10	18752593	52716770	Rat
737822	Alc10	Alcohol consumption QTL 10	2.2		consumption behavior trait (VT:0002069)	ethanol drink intake rate (CMO:0001407)	12	22650702	45946937	Rat
5684888	Pia42	Pristane induced arthritis QTL 42			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	22650702	48598906	Rat
61324	Eae5	Experimental allergic encephalomyelitis QTL 5	14		nervous system integrity trait (VT:0010566)	percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)	12	22650702	52716770	Rat
1298081	Cia25	Collagen induced arthritis QTL 25	4.7		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	22650721	41291738	Rat
70213	Niddm27	Non-insulin dependent diabetes mellitus QTL 27	3.72		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	22876297	43799153	Rat
631560	Apr1	Acute phase response QTL 1	6.1		orosomucoid 1 amount (VT:0010541)	plasma orosomucoid 1 level (CMO:0001467)	12	24906590	52716770	Rat
7411643	Foco20	Food consumption QTL 20		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	26098845	52716770	Rat
70169	Eae13	Experimental allergic encephalomyelitis QTL 13		0.032	nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	12	27190240	42196641	Rat
1331763	Wbc2	White blood cell count QTL 2	3.162		leukocyte quantity (VT:0000217)	total white blood cell count (CMO:0000365)	12	27285473	36161779	Rat
8693658	Alc33	Alcohol consumption QTL 33	2.1	0.68	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	12	29113609	49560679	Rat
8693635	Alc28	Alcohol consumption QTL 28	2.7	0.439	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	12	29113609	50757185	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	269
Count of miRNA genes:	187
Interacting mature miRNAs:	214
Transcripts:	ENSRNOT00000001190
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	11	74	35	41	11	8
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001008289	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089219	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089220	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089221	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC116246	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC086335	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473973	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000227	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000001190 ⟹ ENSRNOP00000001190

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	12	29,921,443 - 29,930,600 (+)	Ensembl

RefSeq Acc Id:

NM_001008289 ⟹ NP_001008290

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	26,420,489 - 26,429,649 (+)	NCBI
Rnor_6.0	12	29,921,443 - 29,930,602 (+)	NCBI
Rnor_5.0	12	31,858,315 - 31,867,474 (+)	NCBI
RGSC_v3.4	12	27,457,313 - 27,466,472 (+)	RGD
Celera	12	28,134,732 - 28,143,891 (+)	RGD

Sequence:

show sequence

CGAGCTCGAGATCTGTGAGCAGCCACCATGTCGATCTTCACCCCCACCAACCAGATCCGACTGA
CCAATGTAGCCGTGGTGCGGATGAAGCGGGGAGGGAAGCGCTTCGAAATCGCCTGCTATAAAAA
CAAGGTCGTCGGCTGGCGGAGTGGAGTGGAAAAAGACCTTGATGAAGTTCTGCAGACCCATTCA
GTGTTTGTCAATGTTTCCAAAGGTCAGGTTGCCAAGAAGGAAGACCTCATCAGTGCATTTGGGA
CCGACGACCAGACTGAAATCTGCAAGCAGATTCTGACTAAAGGAGAAGTTCAAGTGTCAGATAA
AGAACGGCACACACAGCTGGAGCAGATGTTTAGGGATATTGCCACCATTGTGGCAGACAAGTGT
GTGAACCCGGAAACAAAGAGACCCTACACCGTTATCCTCATCGAGAGAGCCATGAAGGACATCC
ACTACTCCGTCAAACCCAACAAGAGCACCAAGCAGCAGGCGCTGGAGGTGATAAAGCAGCTGAA
GGAGAAGATGAAGATCGAGAGGGCGCACATGCGCTTGCGCTTCCTCCTGCCGGTGAACGAGGGA
AAGAAGCTGAAGGAAAAGCTGAAGCCCCTGATGAAGGTCGTGGAGAGTGAGGACTACAGCCAGC
AGCTGGAGATCGTATGCCTCATCGACCCAGGCTGCTTCAGAGAAATTGACGAGCTGATAAAAAA
GGAAACGAAAGGCAAGGGTTCTCTGGAAGTGCTCAGTCTGAAAGACGTGGAGGAGGGAGATGAG
AAGTTTGAATGACACCGAGTAGGTCCTCAGCGCAGCACAACAGCGGGCGTCCGTCTGTCCTAGC
AGCAGCAGCAGCAGCAGCAGCAGCAGTGCGTTTCTGGGACCTGCCAAAAGCCCTCTGGAGCAAT
GTGCCACTTTCCATCCTGTGTTAAACATTGGCCTGGGTGCCTGGTATTTTTGTTGTCAATTGGG
GTTTCCAGCCAAAATGAAAAGAATAACCCAAAATACAGAGTCCAGAACAGCTGTTCACTGATGT
GTATGCCTTTCTGGTTCCACAGGGAAGACCAGAGGCAGCGCTGGATAAGAAGGTAGATTTAGTA
CGTGACAGATGACTGGAGAGGGTCTGTATAACAAAGGGGGACGCCTGCTGGGAAGGAAGATGTG
TTCTGCGTAATGAAGTCCAGGTCTGGGGTGTGAGCTTGGAGAGATCTTTCTGTCTCCCTACGAA
TAGGTGTGTAATGAATGACTGGGGAGAAATTGAATTTTTAGTTTTCAACAAACATGGTACCACA
ACTTAGATGATTCTTGGGAAAATATATAAAGTCATTTAATACTAATCTTAAAAGTTTATAATAT
ATGTTAGGATAGTTAAAAATTATATGTAATCAATAAAACTTATTTTTACTAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_039089219 ⟹ XP_038945147

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	26,420,910 - 26,429,650 (+)	NCBI

RefSeq Acc Id:

XM_039089220 ⟹ XP_038945148

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	26,420,410 - 26,429,650 (+)	NCBI

RefSeq Acc Id:

XM_039089221 ⟹ XP_038945149

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	26,420,909 - 26,429,650 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001008290	(Get FASTA)	NCBI Sequence Viewer
	XP_038945147	(Get FASTA)	NCBI Sequence Viewer
	XP_038945148	(Get FASTA)	NCBI Sequence Viewer
	XP_038945149	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH86335	(Get FASTA)	NCBI Sequence Viewer
	EDM13462	(Get FASTA)	NCBI Sequence Viewer
	Q5RK30	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001008290 ⟸ NM_001008289

- UniProtKB:

Q5RK30 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MSIFTPTNQIRLTNVAVVRMKRGGKRFEIACYKNKVVGWRSGVEKDLDEVLQTHSVFVNVSKGQ
VAKKEDLISAFGTDDQTEICKQILTKGEVQVSDKERHTQLEQMFRDIATIVADKCVNPETKRPY
TVILIERAMKDIHYSVKPNKSTKQQALEVIKQLKEKMKIERAHMRLRFLLPVNEGKKLKEKLKP
LMKVVESEDYSQQLEIVCLIDPGCFREIDELIKKETKGKGSLEVLSLKDVEEGDEKFE

hide sequence

RefSeq Acc Id:

ENSRNOP00000001190 ⟸ ENSRNOT00000001190

RefSeq Acc Id:	XP_038945148 ⟸ XM_039089220
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038945149 ⟸ XM_039089221
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038945147 ⟸ XM_039089219
- Peptide Label:	isoform X1

Transcriptome

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

Promoters

RGD ID:

13698576

Promoter ID:

EPDNEW_R9100

Type:

initiation region

Name:

Sbds_1

Description:

SBDS, ribosome maturation factor

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	12	29,921,377 - 29,921,437	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:1311043	AgrOrtholog
Ensembl Genes	ENSRNOG00000000888	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000001190	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000001190	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	1.10.10.900	UniProtKB/Swiss-Prot
	3.30.1250.10	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7301062	IMAGE-MGC_LOAD
InterPro	Ribosome_mat_SBDS_C	UniProtKB/Swiss-Prot
	Ribosome_mat_SBDS_CS	UniProtKB/Swiss-Prot
	Ribosome_mat_SBDS_N	UniProtKB/Swiss-Prot
	Ribosome_mat_SBDS_N_sf	UniProtKB/Swiss-Prot
	Sdo1/SBDS	UniProtKB/Swiss-Prot
	Sdo1/SBDS-like	UniProtKB/Swiss-Prot
	Sdo1/SBDS_central_sf	UniProtKB/Swiss-Prot
KEGG Report	rno:288615	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:105922	IMAGE-MGC_LOAD
NCBI Gene	288615	ENTREZGENE
PANTHER	PTHR10927	UniProtKB/Swiss-Prot
Pfam	SBDS	UniProtKB/Swiss-Prot
	SBDS_C	UniProtKB/Swiss-Prot
PhenoGen	Sbds	PhenoGen
PROSITE	UPF0023	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF109728	UniProtKB/Swiss-Prot
	SSF89895	UniProtKB/Swiss-Prot
TIGRFAMs	RNA_SBDS	UniProtKB/Swiss-Prot
UniProt	Q5RK30	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2017-05-12	Sbds	SBDS, ribosome maturation factor	Sbds	SBDS ribosome assembly guanine nucleotide exchange factor	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2016-02-25	Sbds	SBDS ribosome assembly guanine nucleotide exchange factor	Sbds	Shwachman-Bodian-Diamond syndrome	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-02-02	Sbds	Shwachman-Bodian-Diamond syndrome	Sbds	Shwachman-Bodian-Diamond syndrome homolog (human)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-30	Sbds	Shwachman-Bodian-Diamond syndrome homolog (human)		Shwachman-Bodian-Diamond syndrome	Name updated	1299863	APPROVED
2005-12-06	Sbds	Shwachman-Bodian-Diamond syndrome	Sbds_predicted	Shwachman-Bodian-Diamond syndrome (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Sbds_predicted	Shwachman-Bodian-Diamond syndrome (predicted)			Symbol and Name status set to approved	70820	APPROVED

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 - OMIM

Imported Annotations - KEGG (archival)