Fam162a (family with sequence similarity 162, member A)

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Gene: Fam162a (family with sequence similarity 162, member A) Rattus norvegicus

Analyze

Symbol:

Fam162a

Name:

family with sequence similarity 162, member A

RGD ID:

1590883

Description:

Predicted to be involved in several processes, including activation of cysteine-type endopeptidase activity involved in apoptotic process; cellular response to hypoxia; and positive regulation of release of cytochrome c from mitochondria. Predicted to localize to cytosol and mitochondrion. Orthologous to human FAM162A (family with sequence similarity 162 member A); INTERACTS WITH 2-nitrofluorene; 4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one; aflatoxin B1.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

E2-induced gene 5 protein homolog; growth and transformation-dependent protein; LOC360721; MGC116101

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

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	11	64,680,937 - 64,711,239 (+)	NCBI
Rnor_6.0 Ensembl	11	67,618,625 - 67,646,253 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	11	67,618,683 - 67,646,253 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	11	70,706,160 - 70,733,730 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	66,518,103 - 66,546,302 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	11	64,149,247 - 64,177,230 (+)	NCBI		Celera
Cytogenetic Map	11	q22	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-epigallocatechin 3-gallate (ISO)

1,2-dimethylhydrazine (ISO)

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

2-hydroxypropanoic acid (ISO)

2-nitrofluorene (EXP)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-sulfonyldiphenol (ISO)

4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one (EXP)

aflatoxin B1 (EXP,ISO)

all-trans-retinoic acid (ISO)

ammonium chloride (EXP)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

cadmium dichloride (ISO)

capsaicin (EXP)

carbamazepine (ISO)

carbon nanotube (ISO)

chloroacetaldehyde (ISO)

chromium(6+) (ISO)

cidofovir anhydrous (ISO)

cisplatin (ISO)

clodronic acid (ISO)

cobalt dichloride (ISO)

cyclosporin A (ISO)

dexamethasone (ISO)

dibutyl phthalate (ISO)

dicrotophos (ISO)

diethylstilbestrol (EXP)

dioxygen (ISO)

disodium selenite (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

entinostat (ISO)

ethyl methanesulfonate (ISO)

fluoranthene (ISO)

folic acid (ISO)

furan (EXP)

glyphosate (ISO)

hydralazine (ISO)

ifosfamide (ISO)

indometacin (ISO)

methapyrilene (EXP)

methyl methanesulfonate (ISO)

methylmercury chloride (ISO)

motexafin gadolinium (ISO)

N-methyl-4-phenylpyridinium (ISO)

N-nitrosodimethylamine (EXP)

N-nitrosomorpholine (EXP)

nickel sulfate (ISO)

paracetamol (ISO)

pentachlorophenol (ISO)

piperonyl butoxide (EXP)

pirinixic acid (EXP)

potassium chromate (ISO)

quercetin (ISO)

rac-lactic acid (ISO)

SB 431542 (ISO)

succimer (ISO)

sunitinib (ISO)

T-2 toxin (ISO)

Tesaglitazar (EXP)

testosterone enanthate (ISO)

thimerosal (ISO)

tolcapone (EXP)

trichostatin A (ISO)

valproic acid (ISO)

vorinostat (ISO)

zinc acetate (ISO)

zinc atom (ISO)

zinc dichloride (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

activation of cysteine-type endopeptidase activity involved in apoptotic process (ISO,ISS)

cellular response to hypoxia (IBA,ISO)

neuron apoptotic process (IBA,ISO)

positive regulation of apoptotic process (ISO)

positive regulation of release of cytochrome c from mitochondria (IBA,ISO,ISS)

Cellular Component

cytosol (ISO)

integral component of membrane (IEA)

mitochondrion (IBA,ISO)

Molecular Function

protein binding (ISO)

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.	Qu Y, etal., Stroke. 2009 Aug;40(8):2843-8. doi: 10.1161/STROKEAHA.109.553644. Epub 2009 Jun 11.
3.	RGD automated data pipeline
4.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:3040268	PMID:12477932	PMID:15082785	PMID:15489334	PMID:17316997	PMID:18614015	PMID:21700703	PMID:23376485

Genomics

Comparative Map Data

Fam162a
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	11	64,680,937 - 64,711,239 (+)	NCBI
Rnor_6.0 Ensembl	11	67,618,625 - 67,646,253 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	11	67,618,683 - 67,646,253 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	11	70,706,160 - 70,733,730 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	66,518,103 - 66,546,302 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	11	64,149,247 - 64,177,230 (+)	NCBI		Celera
Cytogenetic Map	11	q22	NCBI

FAM162A
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	3	122,384,176 - 122,412,334 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	3	122,384,182 - 122,412,334 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	3	122,103,029 - 122,131,181 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	123,585,713 - 123,611,651 (+)	NCBI	NCBI36		hg18	NCBI36
Celera	3	120,512,651 - 120,538,589 (+)	NCBI
Cytogenetic Map	3	q21.1	NCBI
HuRef	3	119,476,342 - 119,502,272 (+)	NCBI		HuRef
CHM1_1	3	122,066,508 - 122,092,446 (+)	NCBI		CHM1_1

Fam162a
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	35,864,214 - 35,891,931 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	16	35,864,131 - 35,891,964 (-)	Ensembl
GRCm38	16	36,043,844 - 36,071,561 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	36,043,761 - 36,071,594 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	16	36,043,930 - 36,071,601 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	16	35,963,591 - 35,991,262 (-)	NCBI			mm8
Celera	16	36,524,452 - 36,554,817 (-)	NCBI		Celera
Cytogenetic Map	16	B3	NCBI

Fam162a
(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_004955427	21,667,922 - 21,694,844 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955427	21,668,180 - 21,695,004 (+)	NCBI	ChiLan1.0	ChiLan1.0

FAM162A
(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	3	126,380,525 - 126,406,366 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	126,380,525 - 126,406,366 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	3	119,474,737 - 119,500,668 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

FAM162A
(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	33	25,525,411 - 25,552,256 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	33	25,525,408 - 25,552,272 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Fam162a
(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_004936536	8,697,631 - 8,725,667 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

FAM162A
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	138,115,505 - 138,151,738 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	138,115,499 - 138,151,828 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	147,726,442 - 147,762,654 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

FAM162A
(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	22	58,451,115 - 58,476,960 (-)	NCBI
ChlSab1.1 Ensembl	22	58,449,189 - 58,476,959 (-)	Ensembl

Fam162a
(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_004624912	739,804 - 763,149 (+)	NCBI

Position Markers

AW531837

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	11	67,643,029 - 67,643,220	NCBI	Rnor6.0
Rnor_5.0	11	70,730,506 - 70,730,697	UniSTS	Rnor5.0
RGSC_v3.4	11	66,543,078 - 66,543,269	UniSTS	RGSC3.4
Celera	11	64,174,006 - 64,174,197	UniSTS
RH 3.4 Map	11	485.5	UniSTS
Cytogenetic Map	11	q22	UniSTS

RH139177

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	11	67,617,857 - 67,618,381	NCBI	Rnor6.0
Rnor_5.0	11	70,705,334 - 70,705,858	UniSTS	Rnor5.0
RGSC_v3.4	11	66,517,220 - 66,517,744	UniSTS	RGSC3.4
Celera	11	64,148,364 - 64,148,888	UniSTS
RH 3.4 Map	11	485.4	UniSTS
Cytogenetic Map	11	q22	UniSTS

BI283380

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	8	93,443,727 - 93,443,921	NCBI	Rnor6.0
Rnor_5.0	8	92,958,508 - 92,958,702	UniSTS	Rnor5.0
RGSC_v3.4	8	91,028,145 - 91,028,339	UniSTS	RGSC3.4
Celera	8	86,358,798 - 86,358,992	UniSTS
RH 3.4 Map	8	988.6	UniSTS
Cytogenetic Map	8	q31	UniSTS
Cytogenetic Map	11	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
1300147	Bp187	Blood pressure QTL 187	3.67		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	11	1	72720192	Rat
1558659	Tescar1	Testicular tumor resistance QTL 1	3.9		testis integrity trait (VT:0010572)	percentage of study population developing testis tumors during a period of time (CMO:0001261)	11	325031	69342559	Rat
724554	Iddm17	Insulin dependent diabetes mellitus QTL 17		0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	11	19016272	90463843	Rat
10755497	Bp388	Blood pressure QTL 388	2.76		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	11	19475179	79734728	Rat
10058952	Gmadr6	Adrenal mass QTL 6	2.29	0.0072	adrenal gland mass (VT:0010420)	both adrenal glands wet weight to body weight ratio (CMO:0002411)	11	25401129	70401129	Rat
9590313	Scort20	Serum corticosterone level QTL 20	6.51	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	11	25720038	70720038	Rat
9589032	Epfw10	Epididymal fat weight QTL 10	9.29	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	11	25720038	70720038	Rat
8694376	Bw156	Body weight QTL 156	2.25	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	11	25720038	70720038	Rat
8694424	Bw162	Body weight QTL 162	3.8	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	11	25720038	70720038	Rat
724563	Uae10	Urinary albumin excretion QTL 10	6		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	11	28314665	86994795	Rat
1300110	Stl7	Serum triglyceride level QTL 7	4.64		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	11	30435339	86714631	Rat
2298551	Neuinf10	Neuroinflammation QTL 10	3.7		nervous system integrity trait (VT:0010566)	spinal cord beta-2 microglobulin mRNA level (CMO:0002125)	11	32155520	82443118	Rat
70180	BpQTLcluster10	Blood pressure QTL cluster 10	3.19		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	11	35900634	80900634	Rat
1300135	Rf19	Renal function QTL 19	3.38		blood creatinine amount (VT:0005328)	creatinine clearance (CMO:0000765)	11	43090338	86714631	Rat
634339	Niddm50	Non-insulin dependent diabetes mellitus QTL 50	3.32		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	11	44444347	69649708	Rat
2312566	Glom20	Glomerulus QTL 20	3.6	0.001	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	11	46583209	86714631	Rat
1581565	Pur10	Proteinuria QTL 10		0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	11	47264023	86994547	Rat
1581572	Uae35	Urinary albumin excretion QTL 35		0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	11	47264023	86994547	Rat
4889859	Pur28	Proteinuria QTL 28	19.5	0.001	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	11	47901049	78471527	Rat
724561	Plsm4	Polydactyly-luxate syndrome (PLS) morphotypes QTL 4		0.0003	forelimb integrity trait (VT:0010562)	front foot phalanges count (CMO:0001947)	11	57858810	90463843	Rat
7411658	Foco27	Food consumption QTL 27	16.2	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	11	59943023	90463843	Rat
4889521	Gluco62	Glucose level QTL 62	2.82	0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	11	60109842	87141948	Rat
631506	Bp104	Blood pressure QTL 104	2.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	11	62653365	86714475	Rat
70208	Niddm22	Non-insulin dependent diabetes mellitus QTL 22	3.61		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	11	62653365	86714483	Rat
10058954	Gmadr7	Adrenal mass QTL 7	2.49	0.0049	adrenal gland mass (VT:0010420)	both adrenal glands wet weight to body weight ratio (CMO:0002411)	11	64494671	90463843	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	213
Count of miRNA genes:	168
Interacting mature miRNAs:	181
Transcripts:	ENSRNOT00000041844, ENSRNOT00000043230
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_001029903	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006248413	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC097971	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473967	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ222091	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000222	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M17412	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000041844 ⟹ ENSRNOP00000040367

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	11	67,618,740 - 67,646,253 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000043230 ⟹ ENSRNOP00000040848

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	11	67,618,706 - 67,644,742 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000087054 ⟹ ENSRNOP00000070028

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	11	67,618,625 - 67,643,233 (+)	Ensembl

RefSeq Acc Id:

NM_001029903 ⟹ NP_001025074

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	11	64,681,036 - 64,711,239 (+)	NCBI
Rnor_6.0	11	67,618,740 - 67,646,253 (+)	NCBI
Rnor_5.0	11	70,706,160 - 70,733,730 (+)	NCBI
RGSC_v3.4	11	66,518,103 - 66,546,302 (+)	RGD
Celera	11	64,149,247 - 64,177,230 (+)	RGD

Sequence:

show sequence

ATGTGGAGCCTCCGCGGCCTGCGCCTGGCGGCTGGACATTGTTTTAGGTTATGTGAAAGAAATG
TTTCCTCGCCACTAAGGTTAACCAGGAACACTGACTTGAAGAGGATCAATGGATTCTGCACCAA
GCCACAAGAAAGTCCCAAAGCTCCAACCCAGTCTTACAGACACAGGGTGCCGCTTCACAAGCCC
ACAGACTTCGAGAAGAAGATCCTGCTGTGGTCAGGCCGCTTCAAGAAGGAGGAAGAGATCCCAG
AGACAATCTCGTTTGAGATGCTTGACGCTGCAAAGAACAAGATCCGGGTGAAGGTCAGCTATTT
AATGATTGCCCTAACAGTGGCAGGATGCGTCTATATGGTTATTGAGGGCAAGAAGCTTGAACCT
AGAAAGGAAAGCCCGTCTGAGAGAGGAGGCAGCTATGAAGGCCAAAGCGGACTAGACGTATTTG
TGCTGGATTTGGAAAAGCCAGGAATATTCCAAAAACCATCCCCCTCTGGGAAAGCTATTGAAAG
AGAACGAGACACTGTCCAGGGATGA

hide sequence

RefSeq Acc Id:

XM_006248413 ⟹ XP_006248475

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	11	64,680,937 - 64,709,865 (+)	NCBI
Rnor_6.0	11	67,618,683 - 67,644,879 (+)	NCBI
Rnor_5.0	11	70,706,160 - 70,733,730 (+)	NCBI

Sequence:

show sequence

TTGAGCGCCAGCGCCGCGGCCGCGGTGGGGTGCTGTGCGTCGGCGGATCAGGCGGTCATGTGGA
GCCTCCGCGGCCTGCGCCTGGCGGCTGGACATTGTTTTAGGTTATGTGAAAGAAATGTTTCCTC
GCCACTAAGGTTAACCAGGAACACTGACTTGAAGAGGATCAATGGATTCTGCACCAAGCCACAA
GAAAGTCCCAAAGCTCCAACCCAGTCTTACAGACACAGGGTGCCGCTTCACAAGCCCACAGACT
TCGAGAAGAAGATCCTGCTGTGGTCAGGCCGCTTCAAGAAGGAGGAAGAGATCCCAGAGACAAT
CTCGTTTGAGATGCTTGACGCTGCAAAGAACAAGATCCGGGTGAAGGTCAGCTATTTAATGATT
GCCCTAACAGTGGCAGGATGCGTCTATATGGTTATTGAGGGCAAGAAGGCTGCAAAAAGACATG
AGTCTTTAACAAGCTTGAACCTAGAAAGGAAAGCCCGTCTGAGAGAGGAGGCAGCTATGAAGGC
CAAAGCGGACTAGACGTATTTGTGCTGGATTTGGAAAAGCCAGGAGTACGGTTGCAACAAGAAG
CCTGCTTTAGAAAGGATAAGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTACCTAGGAAGCG
CAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAAAAAAAAAAAAAAAA
AAAAGGATGTGATCTGAGACCCACTTTGCAGACATGTGCACAGATGTGTTCCACTTCCCTATTT
CTGCTGTAGAGAAACAAGTAAATTTTCTTAGAGAATGA

hide sequence

RefSeq Acc Id:

XM_017598028 ⟹ XP_017453517

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	11	67,618,683 - 67,643,269 (+)	NCBI

Sequence:

show sequence

TTGAGCGCCAGCGCCGCGGCCGCGGTGGGGTGCTGTGCGTCGGCGGATCAGGCGGTCATGTGGA
GCCTCCGCGGCCTGCGCCTGGCGGCTGGACATTGTTTTAGGTTATGTGAAAGAAATGTTTCCTC
GCCACTAAGGTTAACCAGGAACACTGACTTGAAGAGGATCAATGGATTCTGCACCAAGCCACAA
GAAAGTCCCAAAGCTCCAACCCAGTCTTACAGACACAGGGTGCCGCTTCACAAGCCCACAGACT
TCGAGAAGAAGATCCTGCTGTGGTCAGGCCGCTTCAAGAAGGAGGAAGAGATCCCAGAGACAAT
CTCGTTTGAGATGCTTGACGCTGCAAAGAACAAGATCCGGGTGAAGGTCAGCTATTTAATGATT
GCCCTAACAGTGGCAGGATGCGTCTATATGGTTATTGAGGGCAAGAAGGCTCTTCTGAGTGGTG
TCCTCTGCACCTACAGCCTTGCTAGAGAGATGCTACCACAGGAGGAGGAAACGGCAGCCTAGGA
GGCTTTAGCAGCAGAGAGAGCGAGCTCAGCAGGCAGAGGCCTGATGACATAAGTTCAGTCCCTT
CATCCCAGTAGGCAGTAGGAGAGCCCTAACTCCTAAGACTCATCCTGGACTCTCCACATGCTCC
ATAGCTCATGTGTGTCCACATGCGCATCCATAGCTCATGTGTGTCCACATGCACTCCATAGCTC
ATGTGTGTCCACATGCACTCCATAGCTCATGTGTGGCCACATGCTCATCCATAGCTCATGTGTG
GCCACATGCTCATCCATAGCTCATGTGTGTCCACATGCACTCCATAGCTCATGTGTGTCCACAT
GCACTCCATAGCTCATGTGTGTCCACATGCACTCCATAGCTCATGTGTGTCCACATGCACTCCA
TAGCTCATGTGTGTCCACATGCACTCCATAGCTCATGTGTGTCTGTGCCTGCACACACGCAGTA
AATAACTTTTTAAAGTAGTCTTGGCACTTTGCCCACAGTCATGCATCTCCCTAATGACAGAATT
TGAACCTAGACATAACTGAGGTGAGAGTGAAATTCCTCCTCGGTACATAATGTGTTCTACAGCA
CAACTGTTAAGCTCCCTTACTGGATGTGAGAACCTGAGAGAGAAGCTTTCTCATCGACAGGCTT
TACAATGAAAGCCCTGAAGCTTACACACACACCGTACACCTTCCAAAACTCATAGTAAGTAAAA
AGACAAAAACTTAAAAA

hide sequence

RefSeq Acc Id:

XR_001840419

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	11	67,618,683 - 67,644,595 (+)	NCBI

Sequence:

show sequence

TTGAGCGCCAGCGCCGCGGCCGCGGTGGGGTGCTGTGCGTCGGCGGATCAGGCGGTCATGTGGA
GCCTCCGCGGCCTGCGCCTGGCGGCTGGACATTGTTTTAGGTTATGTGAAAGAAATGTTTCCTC
GCCACTAAGGTTAACCAGGAACACTGACTTGAAGAGGATCAATGGATTCTGCACCAAGCCACAA
GAAAGTCCCAAAGCTCCAACCCAGTCTTACAGACACAGGGTGCCGCTTCACAAGCCCACAGACT
TCGAGAAGAAGATCCTGCTGTGGTCAGGCCGCTTCAAGAAGGAGGAAGAGATCCCAGAGACAAT
CTCGTTTGAGATGCTTGACGCTGCAAAGAACAAGATCCGGGTGAAGGTCAGCTATTTAATGATT
GCCCTAACAGTGGCAGGATGCGTCTATATGGTTATTGAGGGCAAGAAGGCTCTTCTGAGTGGTG
TCCTCTGCACCTACAGCCTTGCTAGAGAGATGCTACCACAGGAGGAGGAAACGGCAGCCTAGGA
GGCTTTAGCAGCAGAGAGAGCGAGCTCAGCAGGCAGAGGCCTGATGACATAAGTTCAGTCCCTT
CATCCCAGTAGGCAGTAGGAGAGCCCTAACTCCTAAGACTCATCCTGGACTCTCCACATGCTCC
ATAGCTCATGTGTGTCCACATGCGCATCCATAGCTCATGTGTGTCCACATGCACTCCATAGCTC
ATGTGTGTCCACATGCACTCCATAGCTCATGTGTGGCCACATGCTCATCCATAGCTCATGTGTG
GCCACATGCTCATCCATAGCTCATGTGTGTCCACATGCACTCCATAGCTCATGTGTGTCCACAT
GCACTCCATAGCTCATGTGTGTCCACATGCACTCCATAGCTCATGTGTGTCCACATGCACTCCA
TAGCTCATGTGTGTCCACATGCACTCCATAGCTCATGTGTGTCTGTGCCTGCACACACGCAGTA
AATAACTTTTTAAAGTAGTCTTGGCACTTTGCCCACAGTCATGCATCTCCCTAATGACAGAATT
TGAACCTAGACATAACTGAGGTGAGAGTGAAATTCCTCCTCGGTACATAATGTGTTCTACAGCA
CAACTGTTAAGCTCCCTTACTGGATGTGAGAACCTGAGAGAGAAGCTTTCTCATCGACAGGCTT
TACAATGAAAGCCCTGAAGCTTACACACACACCGTACACCTTCCAAAACTCATAGCTGCAAAAA
GACATGAGTCTTTAACAAGCTTGAACCTAGAAAGGAAAGCCCGTCTGAGAGAGGAGGCAGCTAT
GAAGGCCAAAGCGGAC

hide sequence

Protein Sequences


Protein RefSeqs	NP_001025074	(Get FASTA)	NCBI Sequence Viewer
	XP_006248475	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA42232	(Get FASTA)	NCBI Sequence Viewer
	AAH97971	(Get FASTA)	NCBI Sequence Viewer
	EDM11295	(Get FASTA)	NCBI Sequence Viewer
	EDM11296	(Get FASTA)	NCBI Sequence Viewer
	Q4QQV3	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_001025074 ⟸ NM_001029903
- UniProtKB:	D4ADP1 (UniProtKB/TrEMBL)
- Sequence:	show sequence MWSLRGLRLAAGHCFRLCERNVSSPLRLTRNTDLKRINGFCTKPQESPKAPTQSYRHRVPLHKP TDFEKKILLWSGRFKKEEEIPETISFEMLDAAKNKIRVKVSYLMIALTVAGCVYMVIEGKKLEP RKESPSERGGSYEGQSGLDVFVLDLEKPGIFQKPSPSGKAIERERDTVQG hide sequence

RefSeq Acc Id:	XP_006248475 ⟸ XM_006248413
- Peptide Label:	isoform X1
- UniProtKB:	Q4QQV3 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MWSLRGLRLAAGHCFRLCERNVSSPLRLTRNTDLKRINGFCTKPQESPKAPTQSYRHRVPLHKP TDFEKKILLWSGRFKKEEEIPETISFEMLDAAKNKIRVKVSYLMIALTVAGCVYMVIEGKKAAK RHESLTSLNLERKARLREEAAMKAKAD hide sequence

RefSeq Acc Id:	XP_017453517 ⟸ XM_017598028
- Peptide Label:	isoform X2
- Sequence:	show sequence MWSLRGLRLAAGHCFRLCERNVSSPLRLTRNTDLKRINGFCTKPQESPKAPTQSYRHRVPLHKP TDFEKKILLWSGRFKKEEEIPETISFEMLDAAKNKIRVKVSYLMIALTVAGCVYMVIEGKKALL SGVLCTYSLAREMLPQEEETAA hide sequence

RefSeq Acc Id:

ENSRNOP00000040848 ⟸ ENSRNOT00000043230

RefSeq Acc Id:

ENSRNOP00000070028 ⟸ ENSRNOT00000087054

RefSeq Acc Id:

ENSRNOP00000040367 ⟸ ENSRNOT00000041844

Transcriptome

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

Promoters

RGD ID:

13698192

Promoter ID:

EPDNEW_R8710

Type:

initiation region

Name:

Fam162a_1

Description:

family with sequence similarity 162, member A

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	11	67,618,709 - 67,618,769	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:1590883	AgrOrtholog
Ensembl Genes	ENSRNOG00000002255	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000040367	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOP00000040848	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOP00000070028	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000041844	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOT00000043230	UniProtKB/Swiss-Prot
	ENSRNOT00000087054	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7442058	IMAGE-MGC_LOAD
InterPro	DUF1075	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:360721	UniProtKB/TrEMBL
MGC_CLONE	MGC:116101	IMAGE-MGC_LOAD
NCBI Gene	360721	ENTREZGENE
PANTHER	PTHR13674	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	DUF1075	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Fam162a	PhenoGen
UniProt	A0A0G2JWV2_RAT	UniProtKB/TrEMBL
	D4ADP1	ENTREZGENE, UniProtKB/TrEMBL
	F162A_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2013-05-24	Fam162a	family with sequence similarity 162, member A	LOC60380	growth and transformation-dependent protein	Data Merged	1643240	APPROVED
2008-10-23	Fam162a	family with sequence similarity 162, member A	LOC360721	growth and transformation-dependent protein	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-11-20	LOC360721	growth and transformation-dependent protein			Symbol and Name status set to provisional	70820	PROVISIONAL
2005-10-12	LOC60380				Symbol and Name status set to provisional	70820	PROVISIONAL

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)