Hic1 (HIC ZBTB transcriptional repressor 1)

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Gene: Hic1 (HIC ZBTB transcriptional repressor 1) Rattus norvegicus

Analyze

Symbol:

Hic1

Name:

HIC ZBTB transcriptional repressor 1

RGD ID:

1307527

Description:

Predicted to have DNA-binding transcription repressor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and histone deacetylase binding activity. Predicted to be involved in intrinsic apoptotic signaling pathway in response to DNA damage; negative regulation of transcription by RNA polymerase II; and regulation of signal transduction. Predicted to localize to chromatin and nucleoplasm. Orthologous to human HIC1 (HIC ZBTB transcriptional repressor 1); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

hypermethylated in cancer 1; hypermethylated in cancer 1 protein; LOC303310

RGD Orthologs

Human

Mouse

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

NCBI Annotation Information:

Annotation category: suggests misassembly; Annotation category: partial on reference assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	10	62,007,150 - 62,010,774 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	62,007,150 - 62,009,582 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	61,721,540 - 61,725,164 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	62,470,736 - 62,476,506 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	10	62,485,182 - 62,492,086 (-)	NCBI
Celera	10	59,044,464 - 59,049,428 (-)	NCBI		Celera
Cytogenetic Map	10	q24	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Breast Neoplasms (ISO)

Gastrointestinal Neoplasms (ISO)

macular degeneration (ISO)

medulloblastoma (ISO)

Miller-Dieker lissencephaly syndrome (ISS)

Polyps (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-demecolcine (ISO)

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

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

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

3,3',4,4',5-pentachlorobiphenyl (EXP)

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

4,4'-sulfonyldiphenol (ISO)

5-aza-2'-deoxycytidine (ISO)

6-propyl-2-thiouracil (EXP)

acrylamide (EXP)

all-trans-retinoic acid (ISO)

antirheumatic drug (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

benzo[b]fluoranthene (ISO)

Benzo[k]fluoranthene (ISO)

benzophenanthridine (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

buta-1,3-diene (ISO)

cadmium sulfate (ISO)

carbon nanotube (ISO)

chloroprene (ISO)

chrysene (ISO)

cisplatin (ISO)

clofibrate (ISO)

cobalt dichloride (ISO)

dexamethasone (ISO)

dibenz[a,h]anthracene (ISO)

disodium selenite (ISO)

doxorubicin (ISO)

etoposide (ISO)

folic acid (ISO)

formaldehyde (ISO)

indometacin (ISO)

lead(II) chloride (ISO)

methylisothiazolinone (ISO)

N-Nitrosopyrrolidine (ISO)

paracetamol (ISO)

pirinixic acid (ISO)

progesterone (ISO)

propanal (ISO)

Ptaquiloside (ISO)

tetraphene (ISO)

titanium dioxide (ISO)

urethane (ISO)

valproic acid (ISO)

vincristine (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

intrinsic apoptotic signaling pathway in response to DNA damage (ISO)

negative regulation of transcription by RNA polymerase II (ISO)

negative regulation of Wnt signaling pathway (ISO)

positive regulation of DNA damage response, signal transduction by p53 class mediator (ISO)

regulation of transcription by RNA polymerase II (IBA)

Cellular Component

chromatin (ISO)

nucleoplasm (IBA)

Molecular Function

DNA-binding transcription factor activity (ISO)

DNA-binding transcription repressor activity, RNA polymerase II-specific (IBA,ISO)

histone deacetylase binding (ISO)

protein binding (ISO)

RNA polymerase II cis-regulatory region sequence-specific DNA binding (IBA)

sequence-specific DNA binding (ISO)

sequence-specific double-stranded DNA 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.	GOA data from the GO Consortium
3.	RGD automated data pipeline
4.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12052894	PMID:15231840	PMID:16269335	PMID:16724116

Genomics

Comparative Map Data

Hic1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	10	62,007,150 - 62,010,774 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	62,007,150 - 62,009,582 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	61,721,540 - 61,725,164 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	62,470,736 - 62,476,506 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	10	62,485,182 - 62,492,086 (-)	NCBI
Celera	10	59,044,464 - 59,049,428 (-)	NCBI		Celera
Cytogenetic Map	10	q24	NCBI

HIC1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	17	2,054,154 - 2,063,241 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	17	2,055,103 - 2,063,241 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	17	1,957,454 - 1,962,981 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	17	1,905,143 - 1,909,731 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	17	1,906,714 - 1,908,879	NCBI
Celera	17	1,974,408 - 1,978,996 (+)	NCBI
Cytogenetic Map	17	p13.3	NCBI
HuRef	17	1,853,855 - 1,857,995 (+)	NCBI		HuRef
CHM1_1	17	1,967,163 - 1,971,751 (+)	NCBI		CHM1_1

Hic1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	75,052,203 - 75,061,081 (-)	NCBI	GRCm39		mm39
GRCm38	11	75,161,377 - 75,170,255 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	75,164,565 - 75,169,519 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	74,978,067 - 74,983,757 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	11	74,980,763 - 74,985,714 (-)	NCBI			mm8
Celera	11	82,671,336 - 82,677,017 (-)	NCBI		Celera
Cytogenetic Map	11	B5	NCBI
cM Map	11	45.76	NCBI

HIC1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	12	48,168,766 - 48,171,635 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	12	48,167,861 - 48,172,540 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	12	50,021,109 - 50,025,558 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

HIC1
(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 Ensembl	16	1,694,341 - 1,697,023 (+)	Ensembl
ChlSab1.1	16	1,687,560 - 1,697,888 (+)	NCBI

Hic1
(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_004624786	4,724,806 - 4,729,714 (+)	NCBI

Position Markers

Hic1

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	10	62,007,652 - 62,007,753	NCBI	Rnor6.0
Rnor_5.0	10	61,722,042 - 61,722,143	UniSTS	Rnor5.0
RGSC_v3.4	10	62,471,238 - 62,471,338	UniSTS	RGSC3.4
Celera	10	59,044,969 - 59,045,066	UniSTS
Cytogenetic Map	10	q24	UniSTS

BE100929

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	10	62,010,566 - 62,010,715	NCBI	Rnor6.0
Rnor_5.0	10	61,724,956 - 61,725,105	UniSTS	Rnor5.0
RGSC_v3.4	10	62,476,298 - 62,476,447	UniSTS	RGSC3.4
Celera	10	59,049,220 - 59,049,369	UniSTS
Cytogenetic Map	10	q24	UniSTS

G54872

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	10	62,008,171 - 62,008,418	NCBI	Rnor6.0
Rnor_6.0	10	62,480,957 - 62,481,204	NCBI	Rnor6.0
Rnor_5.0	10	62,192,273 - 62,192,520	UniSTS	Rnor5.0
Rnor_5.0	10	61,722,561 - 61,722,808	UniSTS	Rnor5.0
RGSC_v3.4	10	62,471,756 - 62,472,003	UniSTS	RGSC3.4
Celera	10	59,045,484 - 59,045,731	UniSTS
Cytogenetic Map	10	q24	UniSTS

RH124699

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	10	62,007,149 - 62,007,293	NCBI	Rnor6.0
Rnor_5.0	10	61,721,539 - 61,721,683	UniSTS	Rnor5.0
RGSC_v3.4	10	62,470,735 - 62,470,879	UniSTS	RGSC3.4
Celera	10	59,044,466 - 59,044,610	UniSTS
Cytogenetic Map	10	q24	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
631554	Bp133	Blood pressure QTL 133		0.005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	764421	66221621	Rat
2298544	Neuinf9	Neuroinflammation QTL 9	4.6		nervous system integrity trait (VT:0010566)	spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)	10	5877536	64401490	Rat
8662860	Vetf10	Vascular elastic tissue fragility QTL 10			artery integrity trait (VT:0010639)	number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)	10	6229095	75983805	Rat
61427	Cia16	Collagen induced arthritis QTL 16	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	6429075	99492409	Rat
2303118	Mamtr7	Mammary tumor resistance QTL 7		0.003	mammary gland integrity trait (VT:0010552)	mammary tumor growth rate (CMO:0000344)	10	9841807	108540162	Rat
2301967	Cm73	Cardiac mass QTL 73	4.55		heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	10	14827894	92423564	Rat
631268	Cia21	Collagen induced arthritis QTL 21	3.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	14827894	107857673	Rat
2316949	Gluco60	Glucose level QTL 60	3.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	10	14827894	110992275	Rat
1354587	Kidm21	Kidney mass QTL 21	3.3		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	10	15375474	62469074	Rat
6893350	Bw99	Body weight QTL 99	0.87	0.16	body mass (VT:0001259)	body weight (CMO:0000012)	1	17121542	62121542	Rat
6893352	Bw100	Body weight QTL 100	0.33	0.6	body mass (VT:0001259)	body weight (CMO:0000012)	1	17121542	62121542	Rat
1598852	Anxrr19	Anxiety related response QTL 19	5.07		body movement coordination trait (VT:0005424)	number of rearing movements in an experimental apparatus (CMO:0001752)	10	19402814	64402814	Rat
1554317	Bmd4	Bone mineral density QTL 4	9.4	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	10	20170031	102897474	Rat
70223	Bp57	Blood pressure QTL 57	5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	21523906	83549467	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	21523906	90312401	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	21523906	90312401	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	21523906	90312401	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	1	21523906	90312401	Rat
70198	BpQTLcluster9	Blood pressure QTL cluster 9	2.94		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	21523906	90312401	Rat
1581497	Esta1	Estrogen-induced thymic atrophy QTL 1			thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	10	21707766	64648311	Rat
724556	Pur2	Proteinuria QTL 2	5.5		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	10	22901497	93886300	Rat
1331762	Rf40	Renal function QTL 40	3.873		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	10	23861015	66539843	Rat
1331791	Cm31	Cardiac mass QTL 31	3.84606		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	10	23861015	112626471	Rat
631267	Cia20	Collagen induced arthritis QTL 20	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	24483076	107857673	Rat
61325	Aia5	Adjuvant induced arthritis QTL 5		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	24483076	107857673	Rat
61354	Pia10	Pristane induced arthritis QTL 10		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	24483076	107857673	Rat
70224	Eae3	Experimental allergic encephalomyelitis QTL 3	4.1		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	10	27237530	64648311	Rat
1298069	Bp168	Blood pressure QTL 168	5.5		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	10	27237530	101482600	Rat
631542	Bp82	Blood pressure QTL 82	6.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	27237530	102427718	Rat
2300171	Bmd58	Bone mineral density QTL 58	4.9	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	10	28789280	73789280	Rat
2292441	Bp308	Blood pressure QTL 308			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	30099909	75099909	Rat
10402859	Bp381	Blood pressure QTL 381		0.002	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	30099909	75099909	Rat
724527	Bp148	Blood pressure QTL 148		0.0001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	30983805	75983805	Rat
1576311	Pia26	Pristane induced arthritis QTL 26			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	31919397	78343192	Rat
1578779	Tcas10	Tongue tumor susceptibility QTL 10	3.12		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	10	33179030	78179030	Rat
631557	Bp136	Blood pressure QTL 136		0.003	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	33343192	78343192	Rat
1576319	Cia29	Collagen induced arthritis QTL 29			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	35139424	80139424	Rat
6893342	Cm78	Cardiac mass QTL 78	0.1	0.88	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	10	36185929	82675365	Rat
631552	Vetf2	Vascular elastic tissue fragility QTL 2	4.5	0.0002	aorta elastic tissue integrity trait (VT:0010556)	artery internal elastic lamina non-tumorous lesion count (CMO:0001913)	10	36185929	95845311	Rat
1358897	Stresp6	Stress response QTL 6	4.17	0.022	blood norepinephrine amount (VT:0005663)	plasma norepinephrine level (CMO:0001010)	10	36584373	66539843	Rat
61441	Btemp1	Thermal response to stress QTL 1	4		body temperature trait (VT:0005535)	core body temperature (CMO:0001036)	10	36584560	66015527	Rat
2317042	Aia20	Adjuvant induced arthritis QTL 20	3.38		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	10	40514044	85514044	Rat
2317043	Aia7	Adjuvant induced arthritis QTL 7	3.82		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	10	40514044	85514044	Rat
1576308	Schws1	Schwannoma susceptibility QTL 1		0.0041	nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	10	41260363	106105607	Rat
631269	Cia22	Collagen induced arthritis QTL 22	8.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	41260363	107857673	Rat
631270	Cia23	Collagen induced arthritis QTL 23	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	41260363	107857673	Rat
8552805	Bw145	Body weight QTL 145	2.2		body mass (VT:0001259)	change in body weight to body weight ratio (CMO:0002216)	10	43188659	81042642	Rat
1298078	Stresp5	Stress response QTL 5	2.99	0.00025	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	10	43289657	108540162	Rat
61463	Bp12	Blood pressure QTL 12	6.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	43704955	88704955	Rat
2300218	Hpcl2	Hepatic cholesterol level QTL 2			liver cholesterol amount (VT:0010498)	liver cholesterol level (CMO:0001597)	10	46593021	98939209	Rat
9589030	Epfw9	Epididymal fat weight QTL 9	19.24	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	10	46848346	91848346	Rat
7411614	Foco18	Food consumption QTL 18		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	10	46848346	91848346	Rat
8694173	Bw149	Body weight QTL 149	4.38	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	10	46848346	91848346	Rat
631547	Bp87	Blood pressure QTL 87	4.5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	50638337	95638337	Rat
2293652	Bmd22	Bone mineral density QTL 22	4.9	0.0001	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	10	51289203	84596393	Rat
2293669	Bmd33	Bone mineral density QTL 33	4.5	0.0001	femur strength trait (VT:0010010)	femoral neck polar moment of inertia (CMO:0001670)	10	51289203	84596393	Rat
2293679	Bmd30	Bone mineral density QTL 30	3.5	0.0001	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	10	51289203	84596393	Rat
2293705	Bmd25	Bone mineral density QTL 25	7.1	0.0001	femur mineral mass (VT:0010011)	cortical volumetric bone mineral density (CMO:0001730)	10	51289203	84596393	Rat
7207811	Bmd90	Bone mineral density QTL 90	5.2		femur size trait (VT:1000369)	femoral neck cross-sectional area (CMO:0001697)	10	51289203	84596393	Rat
1549846	Scl47	Serum cholesterol level QTL 47	3.6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	53104718	98104718	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	53621375	112626471	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	10	53621375	112626471	Rat
631530	Tls3	T-lymphoma susceptibility QTL 3	0	0.0001	thymus integrity trait (VT:0010555)	percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)	10	53625815	98939209	Rat
631535	Cm51	Cardiac mass QTL 51	3		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	10	53637485	94807701	Rat
1359017	Hrtrt21	Heart rate QTL 21	2.4		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	10	55224855	100224855	Rat
2306787	Ean3	Experimental allergic neuritis QTL 3	3.1		nervous system integrity trait (VT:0010566)	body weight loss (CMO:0001399)	10	55678976	69385767	Rat
70171	Cari1	Carrageenan-induced inflammation QTL 1	4.9	0.0005	hypodermis integrity trait (VT:0010550)	inflammatory exudate volume (CMO:0001429)	10	55678976	112626471	Rat
70164	Bw21	Body weight QTL 21	4.36	0.00005	body mass (VT:0001259)	body weight (CMO:0000012)	10	55679084	102427604	Rat
1354608	Cm33	Cardiac mass QTL 33	2.8		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	10	56698730	101698730	Rat
2298495	Eae23	Experimental allergic encephalomyelitis QTL 23	16.93		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis duration (CMO:0001424)	10	57180653	63976874	Rat
1549831	Bss6	Bone structure and strength QTL 6	4		lumbar vertebra strength trait (VT:0010574)	vertebra ultimate force (CMO:0001678)	10	60450007	105450007	Rat
2312662	Slep8	Serum leptin concentration QTL 8		0.05	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	10	60875260	105875260	Rat
2312668	Scl65	Serum cholesterol level QTL 65		0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	60875260	105875260	Rat
2312672	Insul15	Insulin level QTL 15		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	10	60875260	105875260	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	148
Count of miRNA genes:	106
Interacting mature miRNAs:	118
Transcripts:	ENSRNOT00000004143, ENSRNOT00000066972
Prediction methods:	Miranda, Rnahybrid
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										10	16
Low	3	41	33	27	7	27	4	7	52	20	18	11	4
Below cutoff		2	24	14	12	14	4	4	22	5	7		4

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001107021	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017604087	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AABR07029972	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AAHX01064832	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AAHX01064833	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AAHX01064834	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473948	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GU139346	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000004143 ⟹ ENSRNOP00000004143

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	10	62,007,150 - 62,009,582 (-)	Ensembl

RefSeq Acc Id:

NM_001107021 ⟹ NP_001100491

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	10	62,007,150 - 62,010,774 (-)	NCBI
Rnor_5.0	10	61,721,540 - 61,725,164 (-)	NCBI
RGSC_v3.4	10	62,470,736 - 62,476,506 (-)	RGD

Sequence:

show sequence

ATGATTACAAGAGTGCGCCACCAGCCCTGGCTTGAGTTCCCCATTTGAAGACAGAACCTTTTCC
GAATTGGTGCAATATTACTTTTAAATATGTACTCGGAAGCACTCAGCACAAAACCCCAAGGTTT
ACGGGACTCCCAGGTCCGATCGATATCTGGGTCTCCAGGTGGGCACATCTGGAAGCGCGCGAAC
CTTCAAGATCTCCAGCTCAGCTCCGCATCTGCAAGCCTCCAGCCCAGGTGTGCGCCAGAGGTCG
CAGCCCAGCCGTACACAGCCCCGCGCGGCCGCGAGGTGGCGCCATGGCCGCAGCAGCGTCTGCC
GGTTCGGGCCGCTCCAGATAAGAGTGTGCGAAAAGCGCGGAGGGGCTGAGACGCGATCAGGACG
CGGGGAGGACGGACCGGCAAGACAGACCGACCGGGGGCCCGGCGGGCGGAGGGCAGCGCACTGC
AGCCACGTCCCCCCCTGGATCCGCCGGCAGCCGGGCCCGGGGCTTCCGACATGCCCCCCAGGAG
AGTGTGCTGGGCAGACGATGCTGGACGCGATGGAGGCGCCTGGCCATTCGAGGCAGCTACTGCT
GCAGCTCAACAACCAGCGCACCAAGGGCTTCTTGTGCGACGTGATCATCGTGGTGCAGAACGCC
CTCTTCCGCGCTCACAAGAACGTGCTGGCAGCCAGCAGCGCCTACCTCAAGTCCCTGGTGGTGC
ATGACAACCTGCTAAACCTGGACCATGACATGGTGAGCCCGGCCGTGTTCCGCCTGGTGCTGGA
CTTCATCTACACCGGCCGCCTTACTGACAGTGTTGAGGCCGCAGCAGCGGCGGCGGTGGCCCCG
GGCGCCGAGCCGAGCCTGGGCGCTGTGCTGGCTGCTGCCAGTTACCTGCAGATCCCTGACCTCG
TGGCTCTGTGCAAGAAGCGCCTCAAACGGCATGGCAAGTACTGCCACCTGCGGNNNNNNNNNNN
NNNNNNNNNTCCGCCGCCGCCGCCTGCCGCCGAGCCGCCGTCGGGCCCCGAGGCAGCGGTCAAC
ACCCACTGCGCCGAGCTCTATGCTTCGGGCCCGGGCCCAGCAGCCTCACTCTGCGCCCCGGAGC
GTCGCTGCTCCCCGCTTTGCGGCCTGGATCTGTCCAAGAAGAGCCCGCCAGGTTCCTCGGTCCC
CGAGCGACCGCTTAGTGAGCGCGAACTGCCTCCACGTCCGGACAGCCCTCCGGGTGCGGGGCCT
GCAGTCTACAAGGAGCCACCGCTCACCCTGCCGCCGCTGCCGCCTTTGCCCTTCCAAAAGCTGG
AGGAGGCCGTACCGACTCCAGACCCGTTTCGAGGAAGCGGTGGCAGTCCGGGACCCGAGCCCCC
CGGCCGCCCCGACGGCTCCAGCCTCCTCTACCGCTGGATGAAGCACGAGCCAGGCCTGGGTAGT
TATGGCGACGAACTGGTCCGGGATCGAGGCTCCCCGGGCGAGCGCCTCGAGGAGCGCGGTGGGG
ATCCTGCCGCCTCACCCGGGGGTCCCCCGCTCGGCCTGGTACCCCCGCCACGCTATCCCGGGAG
CCTGGACGGGCCAGGCACAGGAGCCGACGGCGACGACTACAAGAGCAGCAGCGAGGAGACTGGT
AGCAGCGAGGACCCCAGCCCACCCGGAGGCCACCTGGAGGGCTACCCATGCCCGCACTTGGCTT
ATGGTGAGCCTGAGAGCTTTGGTGACAACCTGTACGTGTGCATTCCATGTGGCAAAGGCTTCCC
CAGCTCGGAACAGCTGAATGCACACGTGGAGGCTCACGTGGAAGAAGAGGAGGCGTTGTATGGC
AGGGCAGAAGCTGCTGAGGTGGCTGCTGGGGCCGCCGGCCTCGGGCCCCCCTTTGGTGGCGGTG
GGGACAAGGTCGCTGGGCCGCCGGGTGGCCTAGGAGAGCTGCTGCGGCCGTACCGCTGCGCGTC
CTGTGACAAGAGCTACAAGGACCCGGCCACGCTGAGGCAGCACGAGAAGACACACTGGCTGACG
AGGCCCTATCCGTGTACCATCTGCGGGAAGAAGTTCACGCAACGCGGAACCATGACACGCCATA
TGCGCAGCCACTTGGGCCTAAAGCCCTTTGCGTGCGACGCGTGCGGCATGCGCTTCACCCGCCA
GTACCGCCTCACGGAGCACATGCGCATCCACTCGGGAGAGAAGCCCTACGAGTGCCAGGTGTGC
GGTGGCAAGTTTGCTCAACAGCGCAACCTCATCAGTCATATGAAGATGCACGCTGTAGGTGGCG
CGGCCGGCGCGGCCGGGGCGCTGGCTGGCCTGGGAGGACTACCTGGCGTCCCTGGCCCGGACGG
CAAGGGCAAGCTGGACTTCCCTGAGGGCGTCTTTGCTGTGGCCCGCCTCACAGCTGAACAGCTA
AGCCTGAAGCAGCAGGACAAGGCAGCAGCTGCCGAGCTGCTGGCACAGACCACGCACTTCCTGC
ACGACCCCAAGGTGGCGCTCGAGAGCCTCTACCCGCTGGCCAAATTCACTGCAGAGCTAGGACT
CAGCCCGGATAAGGCGGCAGAGGTGCTGAGCCAGGGCGCGCACCTGGCCGCAGGACCGGACAGC
CGGACCATTGACCGTTTCTCTCCCGCCTAGAGCGCTCCTCCTAGGTGCGCCCGGCGCTGCCTGA
CAGCCCGGGAACAACTGGTAGCAGCGGTAGCGCCGCAGTGGTGGCCCCACCTTTCTACGCCTCA
CCTGGCCTCACTGTTTTGTGCCTTAGCCCGGGAAGTCAGTGGGGGAGGGGGGGAAACCCCGGGA
CGGGGGTGGGATAGGGGAAGGGAGATTTATATTTTTGATATCAGCTTTGACCAAAGGAGAACCC
TGCCTCTCCCTGTGGTTCGTTGCCCCCCCCCCCCCCCCCGGCTCCGCGCTGCTCGTGGGGGGAA
GGGTTTCATTCGGATGCTCCCAGCCCTACCTCCGGCCCTTGCGACCACACCCATTCTCACTGTG
AATCTCCCAGCTGGGGTCGGAGCGTTGGGCGCAGTTGGGGAGAGGGGAGGGGACTGAGCCGGCC
GGAGGGCCTCCCCGTCCCCCGCTCCTGCCCAGCCCGGGACTGATAATGTGAAGTTCCTCATTTT
GCACAAGTGGCACTAGCCCCAGGGCCAACCCTTCCTTTCCTCACCACCAGGGTGGGCAGCTCTG
GCGCCAGGGATGACAGCCCTGGCCCATCTGTCTCTGCTTCCGAGGTGTCCCCCTCCTCTTCCTG
CCCCCCCTCCCACCCCCAGGACCATATTTATTGCATGCGCCCTAGGTGGCCCTTATCCTGAGCC
CAACTTTAGCTGGGCTGGAGAGAGGTCTCCTTCCTTCGTTCCCGTTCTGTCCCTTTGTATATTC
TCTACTCTGTACACAGGCTCTTCCAGAGCCGCTTCCATTTTCTATACTCAACCAAACAGCAATA
AAGCAGTAACCAAGGTCCC

hide sequence

RefSeq Acc Id:

XM_017604087 ⟹ XP_017459576

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Celera	10	59,044,464 - 59,049,428 (-)	NCBI

Sequence:

show sequence

ATGATTACAAGAGTGCGCCACCAGCCCTGGCTTNNGAGTTCCCCATTTGAAGACAGAACCTTTN
NTCCGAATTGGTGCAATATTACTTTTAAATATGTACTCGGAAGCACTCAGCACAAAACCCCAAG
GTTTACGGGACTCCCAGGTCCGATCATATCTGGGTCTCCAGGTGGGCACATCTGGAAGCGCGCG
AACCTTCAAGATCTCCAGCTCAGCTCCGCATCTGCAAGCCTCNCAGCCCAGGTGTGCGCCAGAG
GTCGCAGCCCAGCCGTACACNAGCCCCGCGCGGCCGCGAGGTGGCGCCATGGCCGCAGCAGCGT
CTGCCGGTTCGGGCCGCTCCAGATAAGAGTGTGCGAAAAGCGCGGAGGGGCTGAGACGCGATCA
GGACGCGGGGAGGACGGACCGGCAAGACAGACCGACCGGGGGCCCGGCGGGCGGAGGGCAGCGC
ACTGCAGCCACGTCCCCCCCTGGATCCGCCGGCAGCCGGGCCCGGGGCTTCCGACATGCCCCCC
AGGAGAGTGTGCTGGGCAGACGATGCTGGACGCGATGGAGGCGCCTGGCCATTCGAGGCAGCTA
CTGCTGCAGCTCAACAACCAGCGCACCAAGGGCTTCTTGTGCGACGTGATCATCGTGGTGCAGA
ACGCCCTCTTCCGCGCTCACAAGAACGTGCTGGCAGCCAGCAGCGCCTACCTCAAGTCCCTGGT
GGTGCATGACAACCTGCTAAACCTGGACCATGACATGGTGAGCCCGGCCGTGTTCCGCCTGGTG
CTGGACTTCATCTACACCGGCCGCCTTACTGACAGTGTTGAGGCCGCAGCAGCGGCGGCGGTGG
CCCCGGGCGCCGAGCCGAGCCTGGGCGCTGTGCTGGCTGCTGCCAGTTACCTGCAGATCCCTGA
CCTCGTGGCTCTGTGCAAGAAGCGCCTCAAACGGCATGGCAAGTACTGCCACCTGCGGNNNNNN
NNNNNNNNNNNNNNTCCGCCGCCGCCGCCTGCCGCCGAGCCGCCGTCGGGCCCCGAGGCAGCGG
TCAACACCCACTGCGCCGAGCTCTATGCTTCGGGCCCGGGCCCAGCAGCCTCACTCTGCGCCCC
GGAGCGTCGCTGCTCCCCGCTTTGCGGCCTGGATCTGTCCAAGAAGAGCCCGCCAGGTTCCTCG
GTCCCCGAGCGACCGCTTAGTGAGCGCGAACTGCCTCCACGTCCGGACAGCCCTCCGGGTGCGG
GGCCTGCAGTCTACAAGGAGCCACCGCTCACCCTGCCGCCGCTGCCGCCTTTGCCCTTCCAAAA
GCTGGAGGAGGCCGTACCGACTCCAGACCCGTTTCGAGGAAGCGGTGGCAGTCCGGGACCCGAG
CCCCCCGGCCGCCCCGACGGCTCCAGCCTCCTCTACCGCTGGATGAAGCACGAGCCAGGCCTGG
GTAGTTATGGCGACGAACTGGTCCGGGATCGAGGCTCCCCGGGCGAGCGCCTCGAGGAGCGCGG
TGGGGATCCTGCCGCCTCACCCGGGGGTCCCCCGCTCGGCCTGGTACCCCCGCCACGCTATCCC
GGGAGCCTGGACGGGCCAGGCACAGGAGCCGACGGCGACGACTACAAGAGCAGCAGCGAGGAGA
CTGGTAGCAGCGAGGACCCCAGCCCACCCGGAGGCCACCTGGAGGGCTACCCATGCCCGCACTT
GGCTTATGGTGAGCCTGAGAGCTTTGGTGACAACCTGTACGTGTGCATTCCATGTGGCAAAGGC
TTCCCCAGCTCGGAACAGCTGAATGCACACGTGGAGGCTCACGTGGAAGAAGAGGAGGCGTTGT
ATGGCAGGGCAGAAGCTGCTGAGGTGGCTGCTGGGGCCGCCGGCCTCGGGCCCCCCTTTGGTGG
CGGTGGGGACAAGGTCGCTGGGCCGCCGGGTGGCCTAGGAGAGCTGCTGCGGCCGTACCGCTGC
GCGTCCTGTGACAAGAGCTACAAGGACCCGGCCACGCTGAGGCAGCACGAGAAGACACACTGGC
TGACGAGGCCCTATCCGTGTACCATCTGCGGGAAGAAGTTCACGCAACGCGGAACCATGACACG
CCATATGCGCAGCCACTTGGGCCTAAAGCCCTTTGCGTGCGACGCGTGCGGCATGCGCTTCACC
CGCCAGTACCGCCTCACGGAGCACATGCGCATCCACTCGGGAGAGAAGCCCTACGAGTGCCAGG
TGTGCGGTGGCAAGTTTGCTCAACAGCGCAACCTCATCAGTCATATGAAGATGCACGCTGTAGG
TGGCGCGGCCGGCGCGGCCGGGGCGCTGGCTGGCCTGGGAGGACTACCTGGCGTCCCTGGCCCG
GACGGCAAGGGCAAGCTGGACTTCCCTGAGGGCGTCTTTGCTGTGGCCCGCCTCACAGCTGAAC
AGCTAAGCCTGAAGCAGCAGGACAAGGCAGCAGCTGCCGAGCTGCTGGCACAGACCACGCACTT
CCTGCACGACCCCAAGGTGGCGCTCGAGAGCCTCTACCCGCTGGCCAAATTCACTGCAGAGCTA
GGACTCAGCCCGGATAAGGCGGCAGAGGTGCTGAGCCAGGGCGCGCACCTGGCCGCAGGACCGG
ACAGCCGGACCATTGACCGTTTCTCTCCCGCCTAGAGCGCTCCTCCTAGGTGCGCCCGGCGCTG
CCTGACAGCCCGGGAACAACTGGTAGCAGCGGTAGCGCCGCAGTGGTGGCCCCACCTTTCTACG
CCTCACCTGGCCTCACTGTTTTGTGCCTTAGCCCGGGAAGTCAGTGGGGGAGGGGGGGAAACCC
CGGGACGGGGGTGGGATAGGGGAAGGGAGATTTATATTTTTGATATCAGCTTTGACCAAAGGAG
AACCCTGCCTCTCCCTGTGGTTCGTTGCCCCCCCCCCCCCCCCCGGCTCCGCGCTGCTCGTGGG
GGGAAGGGTTTCATTCGGATGCTCCCAGCCCTACCTCCGGCCCTTGCGACCACACCCATTCTCA
CTGTGAATCTCCCAGCTGGGGTCGGAGCGTTGGGCGCAGTTGGGGAGAGGGGAGGGGACTGAGC
CGGCCGGAGGGCCTCCCCGTCCCCCGCTCCTGCCCAGCCCGGGACTGATAATGTGAAGTTCCTC
ATTTTGCACAAGTGGCACTAGCCCCAGGGCCAACCCTTCCTTTCCTCACCACCAGGGTGGGCAG
CTCTGGCGCCAGGGATGACAGCCCTGGCCCATCTGTCTCTGCTTCCGAGGTGTCCCCCTCCTCT
TCCTGCCCCCCCTCCCACCCCCAGGACCATATTTATTGCATGCGCCCTAGGTGGCCCTTATCCT
GAGCCCAACTTTAGCTGGGCTGGAGAGAGGTCTCCTTCCTTCGTTCCCGTTCTGTCCCTTTGTA
TATTCTCTACTCTGTACACAGGCTCTTCCAGAGCCGCTTCCATTTTCTATACTCAACCAAACAG
CAATAAAGCAGTAACCAAGGTCCCTAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001100491	(Get FASTA)	NCBI Sequence Viewer
	XP_017459576	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDM05198	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001100491 ⟸ NM_001107021

- Sequence:

show sequence

MLDAMEAPGHSRQLLLQLNNQRTKGFLCDVIIVVQNALFRAHKNVLAASSAYLKSLVVHDNLLN
LDHDMVSPAVFRLVLDFIYTGRLTDSVEAAAAAAVAPGAEPSLGAVLAAASYLQIPDLVALCKK
RLKRHGKYCHLRXXXXXXXPPPPPAAEPPSGPEAAVNTHCAELYASGPGPAASLCAPERRCSPL
CGLDLSKKSPPGSSVPERPLSERELPPRPDSPPGAGPAVYKEPPLTLPPLPPLPFQKLEEAVPT
PDPFRGSGGSPGPEPPGRPDGSSLLYRWMKHEPGLGSYGDELVRDRGSPGERLEERGGDPAASP
GGPPLGLVPPPRYPGSLDGPGTGADGDDYKSSSEETGSSEDPSPPGGHLEGYPCPHLAYGEPES
FGDNLYVCIPCGKGFPSSEQLNAHVEAHVEEEEALYGRAEAAEVAAGAAGLGPPFGGGGDKVAG
PPGGLGELLRPYRCASCDKSYKDPATLRQHEKTHWLTRPYPCTICGKKFTQRGTMTRHMRSHLG
LKPFACDACGMRFTRQYRLTEHMRIHSGEKPYECQVCGGKFAQQRNLISHMKMHAVGGAAGAAG
ALAGLGGLPGVPGPDGKGKLDFPEGVFAVARLTAEQLSLKQQDKAAAAELLAQTTHFLHDPKVA
LESLYPLAKFTAELGLSPDKAAEVLSQGAHLAAGPDSRTIDRFSPA

hide sequence

RefSeq Acc Id:

XP_017459576 ⟸ XM_017604087

- Peptide Label:

isoform X1

- Sequence:

show sequence

MITRVRHQPWLXSSPFEDRTFXPNWCNITFKYVLGSTQHKTPRFTGLPGPIISGSPGGHIWKRA
NLQDLQLSSASASLXAQVCARGRSPAVHXPRAAARWRHGRSSVCRFGPLQIRVCEKRGGAETRS
GRGEDGPARQTDRGPGGRRAAHCSHVPPWIRRQPGPGLPTCPPGECAGQTMLDAMEAPGHSRQL
LLQLNNQRTKGFLCDVIIVVQNALFRAHKNVLAASSAYLKSLVVHDNLLNLDHDMVSPAVFRLV
LDFIYTGRLTDSVEAAAAAAVAPGAEPSLGAVLAAASYLQIPDLVALCKKRLKRHGKYCHLRXX
XXXXXPPPPPAAEPPSGPEAAVNTHCAELYASGPGPAASLCAPERRCSPLCGLDLSKKSPPGSS
VPERPLSERELPPRPDSPPGAGPAVYKEPPLTLPPLPPLPFQKLEEAVPTPDPFRGSGGSPGPE
PPGRPDGSSLLYRWMKHEPGLGSYGDELVRDRGSPGERLEERGGDPAASPGGPPLGLVPPPRYP
GSLDGPGTGADGDDYKSSSEETGSSEDPSPPGGHLEGYPCPHLAYGEPESFGDNLYVCIPCGKG
FPSSEQLNAHVEAHVEEEEALYGRAEAAEVAAGAAGLGPPFGGGGDKVAGPPGGLGELLRPYRC
ASCDKSYKDPATLRQHEKTHWLTRPYPCTICGKKFTQRGTMTRHMRSHLGLKPFACDACGMRFT
RQYRLTEHMRIHSGEKPYECQVCGGKFAQQRNLISHMKMHAVGGAAGAAGALAGLGGLPGVPGP
DGKGKLDFPEGVFAVARLTAEQLSLKQQDKAAAAELLAQTTHFLHDPKVALESLYPLAKFTAEL
GLSPDKAAEVLSQGAHLAAGPDSRTIDRFSPA

hide sequence

RefSeq Acc Id:

ENSRNOP00000004143 ⟸ ENSRNOT00000004143

Protein Domains

C2H2-type

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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

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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:1307527	AgrOrtholog
Ensembl Genes	ENSRNOG00000046405	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000004143	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000004143	ENTREZGENE, UniProtKB/TrEMBL
InterPro	HIC1	UniProtKB/TrEMBL
	Znf_C2H2/integrase_DNA-bd	UniProtKB/TrEMBL
	Znf_C2H2_sf	UniProtKB/TrEMBL
NCBI Gene	303310	ENTREZGENE
PANTHER	PTHR24394:SF16	UniProtKB/TrEMBL
Pfam	zf-C2H2	UniProtKB/TrEMBL
PhenoGen	Hic1	PhenoGen
PROSITE	ZINC_FINGER_C2H2_1	UniProtKB/TrEMBL
	ZINC_FINGER_C2H2_2	UniProtKB/TrEMBL
SMART	ZnF_C2H2	UniProtKB/TrEMBL
Superfamily-SCOP	SSF57667	UniProtKB/TrEMBL
UniGene	Rn.11570	ENTREZGENE
UniProt	D4A974_RAT	UniProtKB/TrEMBL
	E5D4G5_RAT	UniProtKB/TrEMBL
	E5D4G6_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-10-12	Hic1	HIC ZBTB transcriptional repressor 1	Hic1	hypermethylated in cancer 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Hic1	hypermethylated in cancer 1	Hic1_predicted	hypermethylated in cancer 1 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Hic1_predicted	hypermethylated in cancer 1 (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 - CTD

Imported Disease Annotations - MGI