LOC100911664 (uncharacterized LOC100911664)

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Gene: LOC100911664 (uncharacterized LOC100911664) Rattus norvegicus

Analyze

Symbol:

LOC100911664

Name:

uncharacterized LOC100911664

RGD ID:

6491729

Description:

Orthologous to human C6orf62 (chromosome 6 open reading frame 62); INTERACTS WITH bisphenol A; 2-hydroxypropanoic acid (ortholog); 5-azacytidine (ortholog).

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

uncharacterized protein C6orf62 homolog; uncharacterized protein LOC100911664

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	17	40,256,211 - 40,267,851 (-)	NCBI
Rnor_6.0 Ensembl	17	42,257,019 - 42,276,797 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	17	42,256,971 - 42,268,607 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	17	44,124,742 - 44,136,371 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	17	39,893,497 - 39,905,141 (-)	NCBI		Celera
Cytogenetic Map	17	p11	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

2-hydroxypropanoic acid (ISO)

5-azacytidine (ISO)

aflatoxin B1 (ISO)

antirheumatic drug (ISO)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bisphenol A (EXP,ISO)

bortezomib (ISO)

cadmium dichloride (ISO)

cobalt dichloride (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

doxorubicin (ISO)

formaldehyde (ISO)

hydrogen peroxide (ISO)

leflunomide (ISO)

menadione (ISO)

rac-lactic acid (ISO)

silicon dioxide (ISO)

sunitinib (ISO)

tert-butyl hydroperoxide (ISO)

urethane (ISO)

valproic acid (ISO)

References

References - curated


1.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12477932

Genomics

Comparative Map Data

LOC100911664
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	17	40,256,211 - 40,267,851 (-)	NCBI
Rnor_6.0 Ensembl	17	42,257,019 - 42,276,797 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	17	42,256,971 - 42,268,607 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	17	44,124,742 - 44,136,371 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	17	39,893,497 - 39,905,141 (-)	NCBI		Celera
Cytogenetic Map	17	p11	NCBI

C6orf62
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	6	24,704,861 - 24,719,998 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	6	24,704,299 - 24,720,920 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	6	24,705,089 - 24,719,382 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	24,813,137 - 24,827,382 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	6	24,813,144 - 24,827,382	NCBI
Celera	6	25,938,465 - 25,952,778 (-)	NCBI
Cytogenetic Map	6	p22.3	NCBI
HuRef	6	24,654,519 - 24,668,831 (-)	NCBI		HuRef
CHM1_1	6	24,709,233 - 24,723,547 (-)	NCBI		CHM1_1

BC005537
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	24,985,640 - 24,996,882 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	13	24,985,640 - 25,000,180 (+)	Ensembl
GRCm38	13	24,801,657 - 24,812,899 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	24,801,657 - 24,816,197 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	13	24,893,526 - 24,904,768 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	13	24,809,122 - 24,820,364 (+)	NCBI			mm8
Celera	13	25,032,322 - 25,043,564 (+)	NCBI		Celera
Cytogenetic Map	13	A3.1	NCBI

LOC102009721
(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_004955483	2,346,246 - 2,358,156 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955483	2,346,246 - 2,358,156 (+)	NCBI	ChiLan1.0	ChiLan1.0

C6H6orf62
(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	6	24,874,941 - 24,891,081 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	6	24,875,047 - 24,891,081 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	6	24,543,074 - 24,559,096 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

C35H6orf62
(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	35	22,726,357 - 22,741,119 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	35	22,725,186 - 22,741,526 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

CUNH6orf62
(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_004936671	965,598 - 977,181 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

C7H6orf62
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	19,509,688 - 19,524,834 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	19,509,676 - 19,524,905 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	20,662,445 - 20,677,593 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CUNH6orf62
(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	17	47,534,547 - 47,549,611 (+)	NCBI
ChlSab1.1 Ensembl	17	47,535,883 - 47,548,354 (+)	Ensembl

CUNH6orf62
(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_004624756	2,335,394 - 2,349,823 (+)	NCBI

Position Markers

RH127745

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	17	42,257,017 - 42,257,221	NCBI	Rnor6.0
Rnor_5.0	17	44,124,816 - 44,125,020	UniSTS	Rnor5.0
RGSC_v3.4	17	47,317,843 - 47,318,047	UniSTS	RGSC3.4
Celera	17	39,893,543 - 39,893,747	UniSTS
Cytogenetic Map	17	p11	UniSTS

RH140503

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	17	42,260,263 - 42,260,509	NCBI	Rnor6.0
Rnor_5.0	17	44,128,062 - 44,128,308	UniSTS	Rnor5.0
RGSC_v3.4	17	47,321,090 - 47,321,336	UniSTS	RGSC3.4
Celera	17	39,896,790 - 39,897,036	UniSTS
Cytogenetic Map	17	p11	UniSTS

RH118352

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	17	42,260,174 - 42,260,343	NCBI	Rnor6.0
Rnor_5.0	17	44,127,973 - 44,128,142	UniSTS	Rnor5.0
RGSC_v3.4	17	47,321,001 - 47,321,170	UniSTS	RGSC3.4
Celera	17	39,896,701 - 39,896,870	UniSTS
Cytogenetic Map	17	p11	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
1354658	Spl8	Serum phospholipid level QTL 8	3.8		blood VLDL phospholipid amount (VT:0010507)	blood very low density lipoprotein phospholipid level (CMO:0001571)	17	1	63676140	Rat
1354662	Rf49	Renal function QTL 49	2.9		blood creatinine amount (VT:0005328)	plasma creatinine level (CMO:0000537)	17	1	73413148	Rat
1354581	Bp247	Blood pressure QTL 247	4.5		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	17	1	73413148	Rat
1354596	Bw32	Body weight QTL 32	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	17	3336972	63676140	Rat
1354638	Insul1	Insulin level QTL 1	4.8		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	17	3336972	73413148	Rat
1354651	Lmblg2	Limb length QTL 2	6		tibia length (VT:0004357)	tibia length (CMO:0000450)	17	3336972	73413148	Rat
1354630	Cm34	Cardiac mass QTL 34	8.7		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	17	3336972	73413148	Rat
2303627	Vencon8	Ventilatory control QTL 8		0.001	respiration trait (VT:0001943)	tidal volume (CMO:0000222)	17	5191047	50191047	Rat
10054088	Scort28	Serum corticosterone level QTL 28	2.04	0.0102	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	17	5191047	50191047	Rat
2303561	Bw91	Body weight QTL 91	2		body mass (VT:0001259)	body weight (CMO:0000012)	17	9827304	54827304	Rat
2300002	Iddm36	Insulin dependent diabetes mellitus QTL 36	1.98		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	17	10529709	42542027	Rat
1331765	Hrtrt15	Heart rate QTL 15	4.094		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	17	15743755	61036897	Rat
1354640	Scl32	Serum cholesterol level QTL 32	5.4		blood HDL cholesterol amount (VT:0000184)	blood high density lipoprotein cholesterol level (CMO:0000052)	17	18676140	63676140	Rat
1354659	Scl68	Serum cholesterol level QTL 68	3.9		blood VLDL cholesterol amount (VT:0005144)	blood very low density lipoprotein cholesterol level (CMO:0000648)	17	18676140	63676140	Rat
7488966	Bp370	Blood pressure QTL 370		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	21490950	62195822	Rat
1559055	Bp278	Blood pressure QTL 278		0.04	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	21490950	66490950	Rat
12903978	Cm118	Cardiac mass QTL 118		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	17	21490950	66490950	Rat
12903979	Cm119	Cardiac mass QTL 119		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	17	21490950	66490950	Rat
12903980	Cm120	Cardiac mass QTL 120		0.002	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	17	21490950	66490950	Rat
12903981	Am17	Aortic mass QTL 17		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	17	21490950	66490950	Rat
12903982	Kidm70	Kidney mass QTL 70		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	17	21490950	74823273	Rat
70157	Niddm32	Non-insulin dependent diabetes mellitus QTL 32	4.34		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	17	22136814	53475276	Rat
61394	Bp8	Blood pressure QTL 8	2.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	22775065	64946194	Rat
1354628	Stl13	Serum triglyceride level QTL 13	3.8		blood triglyceride amount (VT:0002644)	blood triglyceride level (CMO:0000118)	17	24030618	63676140	Rat
1581512	Cm55	Cardiac mass QTL 55	2.8	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	17	27690959	61794615	Rat
4889955	Bss93	Bone structure and strength QTL 93	4.4		tibia size trait (VT:0100001)	tibia cortical bone volume to tibia total bone volume ratio (CMO:0001727)	17	27690959	63994435	Rat
2302377	Scl61	Serum cholesterol level QTL 61	4.36		blood HDL cholesterol amount (VT:0000184)	serum high density lipoprotein cholesterol level (CMO:0000361)	17	28073589	56207236	Rat
1354619	Bp242	Blood pressure QTL 242	6.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	28413148	73413148	Rat
9590107	Sffal7	Serum free fatty acids level QTL 7	4.81	0.001	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	17	30975228	75975228	Rat
8552928	Pigfal9	Plasma insulin-like growth factor 1 level QTL 9	9		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	17	30975228	75975228	Rat
10450503	Bp386	Blood pressure QTL 386		0.28	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	32055882	58468016	Rat
2324621	Coatc5	Coat color QTL 5			coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	17	32055882	77922655	Rat
2313854	Bp343	Blood pressure QTL 343	3.9		life span trait (VT:0005372)	age at time of death (CMO:0001193)	17	33303627	53475276	Rat
724549	Niddm56	Non-insulin dependent diabetes mellitus QTL 56		0.03	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	17	33303627	78303627	Rat
1354663	Bvd5	Brain ventricular dilatation QTL 5	3.51	0.001	brain ventricle morphology trait (VT:0000822)	hydrocephalus severity score (CMO:0001881)	17	33303627	85321557	Rat
1300148	Bp192	Blood pressure QTL 192	3.47		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	17	36283245	77922655	Rat
724528	Uae4	Urinary albumin excretion QTL 4	4.9	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	17	37790306	73413148	Rat
2317054	Aia12	Adjuvant induced arthritis QTL 12	4.24		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	17	41176057	86176057	Rat
2317060	Aia26	Adjuvant induced arthritis QTL 26	3.22		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	17	41176057	86176057	Rat
2301412	Kidm40	Kidney mass QTL 40		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	17	41731080	86731080	Rat

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001305277	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC085940	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC089212	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ221176	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ227695	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000289	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000059564 ⟹ ENSRNOP00000056321

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	17	42,257,019 - 42,267,079 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000083996 ⟹ ENSRNOP00000072694

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	17	42,258,168 - 42,276,797 (-)	Ensembl

RefSeq Acc Id:

NM_001305277 ⟹ NP_001292206

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	17	40,256,211 - 40,267,851 (-)	NCBI
Rnor_6.0	17	42,256,971 - 42,268,607 (-)	NCBI
Celera	17	39,893,497 - 39,905,141 (-)	NCBI

Sequence:

show sequence

CGTCCTTCCCTCCGTCGCCGCCCGGGGCGCCGAGCCCGACTATGGGGCCCAGGTGGGGGCTGAG
TGGCGGCAGCAGCGCGCGCGGCCCGGCCACAGAGCGCAGCGCAGCGGGCATGGAGGGGCTCCGT
CGGCCCGTCGTGTTCTCTTGACATGGCTCCCGCCCGCGCCACGAGCAGCGCCCCCGCCGCCGCC
GCCGCCTCCTCCTCCGCAGCCGCCGCTCCGCCCGCAGGCTGCGGCTAGACGGCCCACCGACGGT
CGGCCTGCGAGTCCCGCTCTCCTCTCCGCGGGGACCCCGCCCTGCCGCCTAGATCCCGGCCTCT
GCCCCCTTGGGAAACCACCCAGCCGCCCCCACTCGGGAAACATGGGCTGTTGAACGGGAAAAGC
GAATCCAGAACCCGGGAACTTCATTCCTTTCTTTTTTGGGGTGGGAGGGTGGGCTTCCTTTAAG
AAGTAATTCTTATTAACACGATTATTTTCTTCTTTCCCCTCCTCCCAACTGATCCTTCCCACTT
ACTCTCTTCCCGCCTCCTCTACCCGGGCGGGAATCGTTTCCACGTTGAAATGAGTGAGAACCCG
AGTGATCCAGTGTCTCCCGTGGTGCGAGCGAGTCGCTGCCGCTGAAGGCCAGGGGTTGGGGGTG
GGACCTGGGGGTCGAAGGCAGGTGATTCCCCGGGCCCAGCCTGGGACGTGGGAGAACCCGCCAC
CTTTGCCTCAGCCATGCTCACACGAAGATAATCGAACTCCCTACCATCCCGAACCTGAACAGGG
TCAAATTTAATACGGAGGGCTCCCCGGGGAATGTAGAACCCACCGCAGGGCTAAGGGTGCTTGG
ATCCCGGGCATTAATCAGGGCTAATCACAGAGCCGGAATAACTATTAATACCATTTAATAGACC
CCCCTTTCCCTCTGCCATCATGGTTCTCCTTGGCAGCAGCGTTCGCAGCCGCCTGAGGGTGAAA
ACGTGGGTGATGGGGAAGTTGGTAATGACTCCGCTGTTTTTTCTCATGACTCCTTTGGGCAACA
GCTGTCCACCCCCGGTATACACTGTAGTTGATTGCAGGGAAACCCTGTACCTCTCCCCTTCTTT
CTCTGCTGATTTTGCACTTTTCTCTTTGCTCACCACCAAGTGTAATCAATAGCAAAACACTGAC
AGTACATAGCAGTAGTGAAATCTGAAATAACTAAGAATTAATCAGGTACTACAGCCATGGATCT
GGCTGGGTAAAATCCAACTGGGGATTTCAGTTTCATTCACCTACCCTGTTTTGGTGGTTTTTAG
TTTTGTTTTTCTTTTTTTCTTTTGTTTTTTTTCCCCCTTTTCCTATATTTGGGAAGCAACATCA
CAATTTTCCCTCCCTTTTCTCAATTTTTTAATCCCTTTTCTGAAAAGGGGGAAAAATCCGGATG
GATTTCACGGATTGGACTGGTGTCAGCTGTGTTTTACTGCACACCTAAATCCTGATGATAGGTT
TTTCATTTTCCCCTCAATGCCTTTTATTTTGGCAGTTTAGCCACATGTGTTTTCCAGAAAGTTA
GTTCCAAGTTTTTTCTCCTCTTTCTTTCCTTCCCTTCCCCTTTCCCATCTAACCCTCAAACATT
ATTGTCCAAACATGACTGGACAGCAACTTTTGTTTCTTGACCCTGTGGTATGACAGTCTGCTAA
TATTGCCAGAAGGTGCAGTTTGGGGGTTACAGTTGTGATTTTAGCTATTCAATCATATTAGCAG
GAAAAAAATGACTTGTTTCTGTTGTACTTGAGTCTTAAGAAAAAGTGCCCATAGTTTAGTGACA
ATTTCCAAAGGCTTTAGTACCACCTGTATTTCAAAATGGGGGACCCAAACTCCCGGAAGAAACA
AGCTCTGAACAGACTACGTGCTCAGCTTAGAAAGAAAAAAGAATCTCTAGCTGACCAGTTTGAC
TTCAAGATGTATATTGCCTTTGTGTTCAAGGAGAAGAAGAAAAAGTCAGCACTTTTTGAAGTGT
CTGAGGTTATACCAGTCATGACAAATAATTATGAAGAAAATATTCTGAAAGGTGTGCGAGATTC
CAGCTATTCCTTGGAAAGTTCTATAGAGCTTCTACAGAAGGATGTGGTACAGCTCCATGCCCCT
CGATACCAGTCTATGAGAAGGGATGTAATTGGCTGTACTCAGGAGATGGATTTCATTCTTTGGC
CTCGGAATGATATTGAGAAAATTGTTTGTCTCCTGTTTTCTAGGTGGAAGGAATCTGATGAACC
TTTTAGGCCTGTTCAGGCCAAATTTGAATTTCATCACGGTGACTATGAGAAACAGTTTCTGCAT
GTACTGAGCCGCAAGGACAAGACAGGAATTGTTGTCAACAATCCTAACCAGTCAGTGTTTCTCT
TCATTGACAGACAGCATTTGCAGACTCCAAAAAACAAAGCCACCATCTTCAAGTTATGCAGCAT
CTGCCTCTACCTGCCGCAGGAACAGCTCACCCACTGGGCAGTTGGCACCATAGAGGATCACCTC
CGTCCTTACATGCCAGAGTAAATAAGAGCATTGACCAGCAATGGAGAAGACCAGAGAATGCAGC
AGCTATTTTCTTTTCTTGTTTTCTTACCACTTTTCTTTCAGAGTTTAAAGAAAATGGACTCATG
CACAGAACACTATGCGTTTTGAAACTTGTTCATCCTGGATTTATTTTAATCATTTGTATCACAG
AACTTTAAAAAAAATCAGATGTCTTCTGCACGGACTGTGTGAAAGTGCTTTGCAGACTGCTGCA
CTGCATCAGCGTCTTACTAAAGTGTGAAGGAAGGACTACTGTACACTGAATGCTTACTGTATCT
GAAAGCACAGGGATGCTCAGTGTTGTGGTCTTCATGTTTGTGCTGGGTTTTGCCTCTGACATCT
GTCATCAGTATTGAGGGTGAGAGTGAATGTAACAGGTATAAATAACATTTAAAAACTTCATAGC
TTTGCTATAATCACCGTTGTTCCAGAGCACTGTCAGATTCATTCTAATGACCAGATGGTTGTTA
CAAAAAGAAATTACAACCACGGGAAAGAAATGTTAATGAAAAAAAGCATCTCATTGAGTGAGGT
ATCTCTGCCTCGTGTGCACTGGGCCATGTTTGCTTTCTTGGTACTCATTAGTACATGTATTTTC
CCAGATCTCTTTCCCCGAGTTGCTGATATAGAGTACTCTGCTGTGTGCAGATGCATTTATACAC
ATTAAAGCAGATCTGGAGTCTGGTGTGGCTGAAGCAGCTACAAAACCGAGGAACAGTCATAGCT
GCAAAAACCATCATAAGTAGAGGACTTTTTTGGTTTTTGTTTTGTTTTTTGGTGTTAGAAATTT
TAATTACAAATAAAAAATCCAGTGAATTTTGCAGAAATCCTGGTTTCTACACCATCCTAAAGAA
GTTGAGTGTTTGGGATAGAAAACAAAAGTGGGGCTCTTACATTGTAAAAATACCTACAGAGTGT
GGAGAGTTCTGGAAGCAGAACTCGTTTGTGCAATGAATATGAGGAAAGACTACTGTATAGCTTT
TACTTTGTTTTGTTTTTCTTTTAAATGAAGAAAAGCTTTGCTTAAGGGTTGCATACTTTTACTG
GAGTAAATCGGAATGATCCTACTCTTGAAGTAAAACTAGTGCTTACTGGTTTCCATTTGTATTT
AGCTTCTGGTTGGAATTTGAAAAAAAAAAAAAAAAGAGAGAGACCTAAATAAAATAGGAGAAAG
CTA

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Protein Sequences


Protein RefSeqs	NP_001292206	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH85940	(Get FASTA)	NCBI Sequence Viewer
	AAH89212	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001292206 ⟸ NM_001305277

- UniProtKB:

Q7TP28 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MGDPNSRKKQALNRLRAQLRKKKESLADQFDFKMYIAFVFKEKKKKSALFEVSEVIPVMTNNYE
ENILKGVRDSSYSLESSIELLQKDVVQLHAPRYQSMRRDVIGCTQEMDFILWPRNDIEKIVCLL
FSRWKESDEPFRPVQAKFEFHHGDYEKQFLHVLSRKDKTGIVVNNPNQSVFLFIDRQHLQTPKN
KATIFKLCSICLYLPQEQLTHWAVGTIEDHLRPYMPE

hide sequence

RefSeq Acc Id:

ENSRNOP00000056321 ⟸ ENSRNOT00000059564

RefSeq Acc Id:

ENSRNOP00000072694 ⟸ ENSRNOT00000083996

Transcriptome

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

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:6491729	AgrOrtholog
Ensembl Genes	ENSRNOG00000018456	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000056321	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOP00000072694	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000059564	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOT00000083996	UniProtKB/TrEMBL
InterPro	DUF4566	UniProtKB/TrEMBL
KEGG Report	rno:100911664	UniProtKB/TrEMBL
	rno:498750	UniProtKB/TrEMBL
NCBI Gene	LOC100911664	ENTREZGENE
PANTHER	PTHR28336	UniProtKB/TrEMBL
Pfam	DUF4566	UniProtKB/TrEMBL
PhenoGen	LOC100911664	PhenoGen
UniProt	Q7TP28	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2012-07-05	LOC100911664	uncharacterized LOC100911664			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)