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Gene: Gcfc2 (GC-rich sequence DNA-binding factor 2) Rattus norvegicus

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Symbol:

Gcfc2

Name:

GC-rich sequence DNA-binding factor 2

RGD ID:

1304792

Description:

Predicted to enable DNA binding activity. Predicted to be involved in spliceosomal complex assembly. Predicted to be located in nucleolus. Predicted to be part of U2-type post-mRNA release spliceosomal complex. Predicted to be active in nucleus. Orthologous to human GCFC2 (GC-rich sequence DNA-binding factor 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

GC-rich sequence DNA-binding factor; hypothetical protein LOC312474; intron Large complex component GCFC2; LOC312474; RGD1304792; similar to chromosome 2 open reading frame 3; transcription factor 9 (binds GC-rich sequences); uncharacterized protein LOC312474

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	GCFC2 (GC-rich sequence DNA-binding factor 2)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther
Mus musculus (house mouse):	Gcfc2 (GC-rich sequence DNA binding factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Gcfc2 (GC-rich sequence DNA-binding factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	GCFC2 (GC-rich sequence DNA-binding factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	GCFC2 (GC-rich sequence DNA-binding factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Gcfc2 (GC-rich sequence DNA-binding factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	GCFC2 (GC-rich sequence DNA-binding factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	GCFC2 (GC-rich sequence DNA-binding factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Gcfc2 (GC-rich sequence DNA-binding factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Gcfc2 (GC-rich sequence DNA-binding factor 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	GCFC2 (GC-rich sequence DNA-binding factor 2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	GCFC2 (GC-rich sequence DNA-binding factor 2)	Alliance	DIOPT (HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Gcfc2 (GC-rich sequence DNA binding factor 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	gcfc2 (GC-rich sequence DNA-binding factor 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG1965	Alliance	DIOPT (Hieranoid\|OrthoFinder\|OrthoInspector\|PANTHER)
Drosophila melanogaster (fruit fly):	CG1965	Alliance	DIOPT (Hieranoid\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	F43G9.12	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	F43G9.12	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoInspector\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	gcfc2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	gcfc2	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	116,039,432 - 116,076,330 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	4	116,039,433 - 116,077,152 (+)	Ensembl				GRCr8
mRatBN7.2	4	114,481,613 - 114,519,268 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	114,481,607 - 114,519,962 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	4	119,937,627 - 119,974,268 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	115,712,809 - 115,749,448 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	114,333,043 - 114,369,678 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	112,662,556 - 112,700,505 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	112,662,609 - 112,699,711 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	4	177,350,321 - 177,390,090 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	4	116,167,383 - 116,204,212 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	4	103,480,083 - 103,516,885 (+)	NCBI		Celera
RGSC_v3.1	4	116,354,439 - 116,448,696 (+)	NCBI
Cytogenetic Map	4	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

17beta-hydroxy-5alpha-androstan-3-one (ISO)

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

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

acetamide (EXP)

actinomycin D (ISO)

aflatoxin B1 (EXP)

Aflatoxin B2 alpha (ISO)

all-trans-retinoic acid (ISO)

antirheumatic drug (ISO)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

cadmium atom (ISO)

cadmium dichloride (EXP,ISO)

caffeine (ISO)

cyclosporin A (ISO)

DDE (ISO)

diazinon (ISO)

enzyme inhibitor (ISO)

fipronil (EXP)

FR900359 (ISO)

fulvestrant (ISO)

gentamycin (EXP)

ivermectin (ISO)

manganese atom (ISO)

manganese(0) (ISO)

manganese(II) chloride (ISO)

methimazole (EXP)

methyl methanesulfonate (ISO)

Nutlin-3 (ISO)

ochratoxin A (ISO)

potassium dichromate (ISO)

quercetin (ISO)

resveratrol (ISO)

sodium arsenite (ISO)

sunitinib (ISO)

tanespimycin (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

triphenyl phosphate (ISO)

vinclozolin (EXP)

vitamin E (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

mRNA splicing, via spliceosome (IBA,IEA)

spliceosomal complex assembly (IEA,ISO)

Cellular Component

nucleolus (IEA,ISO)

nucleoplasm (IEA,ISO)

nucleus (IBA,IEA,ISO)

U2-type post-mRNA release spliceosomal complex (IEA,ISO)

Molecular Function

DNA binding (IEA)

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:9705290	PMID:24304693

Genomics

Comparative Map Data

Gcfc2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	116,039,432 - 116,076,330 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	4	116,039,433 - 116,077,152 (+)	Ensembl				GRCr8
mRatBN7.2	4	114,481,613 - 114,519,268 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	114,481,607 - 114,519,962 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	4	119,937,627 - 119,974,268 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	115,712,809 - 115,749,448 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	114,333,043 - 114,369,678 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	112,662,556 - 112,700,505 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	112,662,609 - 112,699,711 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	4	177,350,321 - 177,390,090 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	4	116,167,383 - 116,204,212 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	4	103,480,083 - 103,516,885 (+)	NCBI		Celera
RGSC_v3.1	4	116,354,439 - 116,448,696 (+)	NCBI
Cytogenetic Map	4	q34	NCBI

GCFC2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	75,662,705 - 75,713,122 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	75,652,000 - 75,711,184 (-)	Ensembl			hg38	GRCh38
GRCh37	2	75,889,831 - 75,938,041 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	75,742,802 - 75,791,830 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	2	75,800,948 - 75,849,977	NCBI
Celera	2	75,721,111 - 75,769,393 (-)	NCBI		Celera
Cytogenetic Map	2	p12	NCBI
HuRef	2	75,627,634 - 75,675,844 (-)	NCBI		HuRef
CHM1_1	2	75,819,158 - 75,867,395 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	2	75,671,995 - 75,722,342 (-)	NCBI		T2T-CHM13v2.0

Gcfc2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	81,887,543 - 81,936,079 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	81,900,650 - 81,936,896 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	6	81,910,562 - 81,959,098 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	81,923,669 - 81,959,915 (+)	Ensembl			mm10	GRCm38
MGSCv37	6	81,873,663 - 81,909,092 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	6	81,889,327 - 81,924,756 (+)	NCBI		MGSCv36	mm8
Celera	6	83,922,328 - 83,960,186 (+)	NCBI		Celera
Cytogenetic Map	6	C3	NCBI
cM Map	6	35.81	NCBI

Gcfc2
(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_004955424	10,173,652 - 10,200,641 (+)	Ensembl
ChiLan1.0	NW_004955424	10,174,291 - 10,202,201 (+)	NCBI	ChiLan1.0	ChiLan1.0

GCFC2
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	12	50,672,727 - 50,719,178 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2A	50,675,487 - 50,721,932 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2A	75,734,262 - 75,782,444 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2A	77,237,702 - 77,286,670 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	77,237,702 - 77,286,670 (-)	Ensembl			panPan2	panpan1.1

GCFC2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	17	47,629,511 - 47,677,017 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	17	47,629,577 - 47,676,328 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	17	47,273,453 - 47,320,943 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	17	48,492,464 - 48,539,972 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	17	48,491,771 - 48,540,321 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	17	47,508,310 - 47,555,762 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	17	47,572,659 - 47,619,661 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	17	48,134,934 - 48,182,465 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Gcfc2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024406292	8,872,038 - 8,917,261 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936556	1,820,645 - 1,866,131 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936556	1,819,656 - 1,865,858 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

GCFC2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	67,547,847 - 67,593,915 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	3	67,547,803 - 67,609,152 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	71,114,963 - 71,133,170 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

GCFC2
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	14	31,524,958 - 31,571,978 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	14	31,525,483 - 31,573,928 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666045	80,628,138 - 80,675,299 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Gcfc2
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624749	27,666,991 - 27,696,055 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Gcfc2
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	6	64,157,758 - 64,196,182 (-)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Gcfc2
157 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	267
Count of miRNA genes:	173
Interacting mature miRNAs:	194
Transcripts:	ENSRNOT00000009104
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.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
631689	Scl4	Serum cholesterol level QTL 4	1.9	0.008	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	4	96731383	141731383	Rat
1582232	Gluco25	Glucose level QTL 25	3.6	0.0023	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	86583980	149763391	Rat
1358352	Srcrt3	Stress Responsive Cort QTL 3	2.29		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	39431983	123203361	Rat
1578655	Bmd11	Bone mineral density QTL 11	11		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	4	92406430	137406430	Rat
10755501	Bp390	Blood pressure QTL 390	2.5		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	4	27730518	170099664	Rat
1357342	Bw40	Body weight QTL 40		0.001	body mass (VT:0001259)	body weight (CMO:0000012)	4	74233320	119233320	Rat
631556	Bp135	Blood pressure QTL 135		0.017	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	80212111	119233320	Rat
61330	Eau1	Experimental allergic uveoretinitis QTL 1		0.0003	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	4	26234499	134199155	Rat
70167	Bw22	Body weight QTL 22	3.1		body mass (VT:0001259)	body weight (CMO:0000012)	4	74233320	119233320	Rat
731165	Uae21	Urinary albumin excretion QTL 21	2.4	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	4	108206096	153206096	Rat
737821	Hcar9	Hepatocarcinoma resistance QTL 9	3.7		liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	4	106848959	168870974	Rat
1549839	Bw52	Body weight QTL 52		0.0001	body mass (VT:0001259)	body weight gain (CMO:0000420)	4	71647492	116647492	Rat
1549832	Bss3	Bone structure and strength QTL 3	11		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	4	111383604	156383604	Rat
70177	Xhs1	X-ray hypersensitivity QTL 1	25.1		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	82944895	154403548	Rat
6909128	Pancm4	Pancreatic morphology QTL 4	11.35		pancreas mass (VT:0010144)	pancreas wet weight (CMO:0000626)	4	27862204	126119996	Rat
61476	Aia3	Adjuvant induced arthritis QTL 3	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	75939858	140508796	Rat
1641919	Alc22	Alcohol consumption QTL 22		0.0005	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	65060960	127749483	Rat
1354660	Salc1	Saline consumption QTL 1	11.26		drinking behavior trait (VT:0001422)	saline drink intake rate (CMO:0001627)	4	45429897	149763204	Rat
1578670	Bss14	Bone structure and strength QTL 14	16.4		femur morphology trait (VT:0000559)	bone trabecular cross-sectional area (CMO:0002311)	4	88883695	133883695	Rat
70201	Gcr1	Gastric cancer resistance QTL 1	2.7		stomach morphology trait (VT:0000470)	stomach tumor susceptibility score (CMO:0002043)	4	103834277	148834277	Rat
1300139	Hrtrt6	Heart rate QTL 6	2.85		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	4	40490442	117737312	Rat
70200	Alc18	Alcohol consumption QTL 18	9.2		drinking behavior trait (VT:0001422)	ethanol intake volume to total fluid intake volume ratio (CMO:0001591)	4	57613339	151163960	Rat
2316958	Gluco58	Glucose level QTL 58	10		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	12212457	182430611	Rat
1578662	Bss15	Bone structure and strength QTL 15	19.6		femur width (VT:1000666)	femoral neck width (CMO:0001695)	4	88883695	133883695	Rat
2302049	Pia32	Pristane induced arthritis QTL 32	5.1	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)	4	107346299	152346299	Rat
6478763	Anxrr46	Anxiety related response QTL 46		0.07428	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	112427331	157427331	Rat
6478760	Anxrr45	Anxiety related response QTL 45		0.06717	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	112427331	157427331	Rat
738009	Sach4	Saccharine consumption QTL 4	4.9	0.000016	consumption behavior trait (VT:0002069)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	4	60916264	184426481	Rat
2306545	Iddm39	Insulin dependent diabetes mellitus QTL 39			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	78687630	123687630	Rat
7207480	Bss105	Bone structure and strength QTL 105	8.1		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	4	111383604	156383604	Rat
634335	Anxrr16	Anxiety related response QTL 16	7.22		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	4	94638356	168870820	Rat
631646	Stl4	Serum triglyceride level QTL 4	6.5	0.0001	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	4	74169813	134199155	Rat
634334	Xhs3	X-ray hypersensitivity QTL 3	10		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	86058928	131411333	Rat
61406	Scwia1	Streptococcal cell wall induced arthritis QTL 1	2.3		joint integrity trait (VT:0010548)	experimental arthritis severity measurement (CMO:0001459)	4	75939858	140508796	Rat
1354612	Foco1	Food consumption QTL 1	8.87		eating behavior trait (VT:0001431)	food intake rate (CMO:0000427)	4	45429897	149763204	Rat
2303168	Bp330	Blood pressure QTL 330	4.25	0.017	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	5889999	148002343	Rat
738031	Alc14	Alcohol consumption QTL 14	7.6	0.00003	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	60916264	174095838	Rat
1576316	Ept5	Estrogen-induced pituitary tumorigenesis QTL 5	3.8		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	4	100752691	179366077	Rat
631662	Hcar2	Hepatocarcinoma resistance QTL 2	3.1	0.0003	liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	4	84349032	129349032	Rat
1576305	Emca6	Estrogen-induced mammary cancer QTL 6	5.8		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	4	45429709	157555683	Rat
61418	Pia5	Pristane induced arthritis QTL 5	4.5		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	63245026	129846354	Rat
738016	Alc16	Alcohol consumption QTL 16	3.6	0.00015	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	60916264	184426481	Rat
1358202	Gluco11	Glucose level QTL 11	2.4	0.02	adipocyte glucose uptake trait (VT:0004185)	absolute change in adipocyte glucose uptake (CMO:0000873)	4	86709649	168870974	Rat
1641833	Alc21	Alcohol consumption QTL 21	8.6	0.0001	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	57664252	127749483	Rat
2306899	Bp338	Blood pressure QTL 338		0.071	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	82336765	127336765	Rat
2293840	Kiddil9	Kidney dilation QTL 9	2.9		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	4	113634167	149763391	Rat
631674	Iddm14	Insulin dependent diabetes mellitus QTL 14			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	4	65495851	159259805	Rat
12798523	Anxrr56	Anxiety related response QTL 56	2.83	0.05	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	86583980	131583980	Rat
12798520	Anxrr55	Anxiety related response QTL 55	4.45	0.01	locomotor behavior trait (VT:0001392)	number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)	4	33538597	116185060	Rat

Markers in Region

RH137791

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	4	114,514,729 - 114,514,948 (+)	MAPPER	mRatBN7.2
Rnor_6.0	4	112,695,947 - 112,696,165	NCBI	Rnor6.0
Rnor_5.0	4	177,383,701 - 177,383,919	UniSTS	Rnor5.0
RGSC_v3.4	4	116,200,448 - 116,200,666	UniSTS	RGSC3.4
Celera	4	103,513,121 - 103,513,339	UniSTS
RH 3.4 Map	4	661.8	UniSTS
Cytogenetic Map	4	q34	UniSTS

RH138391

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	4	114,518,648 - 114,518,811 (+)	MAPPER	mRatBN7.2
Rnor_6.0	4	112,699,866 - 112,700,028	NCBI	Rnor6.0
Rnor_5.0	4	177,387,620 - 177,387,782	UniSTS	Rnor5.0
RGSC_v3.4	4	116,204,367 - 116,204,529	UniSTS	RGSC3.4
Celera	4	103,517,040 - 103,517,202	UniSTS
Cytogenetic Map	4	q34	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	163	91	90	59	92	59	6	356	192	11	142	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001134554	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001443675	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006236702	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006236703	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039107583	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039107584	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063286052	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005503212	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005503213	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005503214	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473957	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000004	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000009104 ⟹ ENSRNOP00000009104

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	4	116,039,495 - 116,076,324 (+)	Ensembl
mRatBN7.2 Ensembl	4	114,481,664 - 114,518,494 (+)	Ensembl
Rnor_6.0 Ensembl	4	112,662,609 - 112,699,711 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000109874 ⟹ ENSRNOP00000092144

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	4	116,039,433 - 116,077,152 (+)	Ensembl
mRatBN7.2 Ensembl	4	114,481,607 - 114,518,494 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000109942 ⟹ ENSRNOP00000087910

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	4	116,039,433 - 116,077,119 (+)	Ensembl
mRatBN7.2 Ensembl	4	114,481,607 - 114,519,962 (+)	Ensembl

RefSeq Acc Id:

NM_001134554 ⟹ NP_001128026

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	116,039,495 - 116,076,324 (+)	NCBI
mRatBN7.2	4	114,481,664 - 114,518,494 (+)	NCBI
Rnor_6.0	4	112,662,609 - 112,699,711 (+)	NCBI
Rnor_5.0	4	177,350,321 - 177,390,090 (+)	NCBI
RGSC_v3.4	4	116,167,383 - 116,204,212 (+)	RGD
Celera	4	103,480,083 - 103,516,885 (+)	RGD

Sequence:

show sequence

AACATGGCACTCAGGCCTCAGAGGACTTTCAGGCGGCGCCAGGTCGATTCCAGCGATAGCGATA
GCGACGGCACGAAGGAGCAGAGTGCTGAGGAGCCAGCGGAGTCAGGCAGGCCGTCTGCAGGCGG
CCGAACAGAGGGAGCGGAGCGGCCGCGCGGGGCCCGCAGCGCCCGGGGCCGAGGTCGTGTCTGG
GCGAGTTCCCGGCGCAGCCCGGGAGCTGCTTCCCGAGGGGACGGAGGCGCAGTTAAGATCCCTG
ATGCAGCTTTTATTCAGGCAGCCCGCAGAAAACGTGAGCTGGCCAGGACCCCGGGGGACTATAT
TTCACTGGATGTAAACCATCCCTCCACCACTTCTGAGAGTAAGAGAAGCAATGGCGAGGACTCG
GAGAGCGATCCTGATGACCACGAAAAAAGAATACTATTTACCCCAAAGCCTCAAACACTCCGAC
AGAGAATGGCTGAGGAATCATCAATCAGGAATGAAGACTCGAGTGAAGAGAGTCAGGAAGATGA
AAGCCAAGACACCTGGGAGCAGCAGCAGATGAGGAAAGCCGTCAGGATCACAGAGGGACAAAGT
ATAGACCTTCTCCACAGCAGTAAGTCTCAGACACTGAAGAAGTTTGATAGTTCCATTTCATTTG
CACCAGTAAACTTGGAAATTATAAAGAAACAGTTAAATAGTAGATTAACATTACTACAGGATTC
TCATCGCTCACACCAGAGAGAATATGAAAAATATGAACAAGACATCAAGAGTTCAAAGACAGCT
ATTGAGAAGCTTGAGAGTGGACCAGATCAAGCCCTAAACTACAAATTCTACAAAGGCATGAAAA
TTTATGTGGAAAATATAATTGATTGTCTAAATGAAAAGATTAGCAGCATTGTGGAACTAGAGTC
ATCCATGTACACACTGCTTTTAAAACACTCAGAAGCACTTTTGAAACGCAGGCAAGATGAGCTA
AAATGTGAATCCTCATATTTGCAACAGTTATCACGCAAAGATGAGACATTGGCAAGTGGAAGCT
TGGCTCTGGATGAAAAGGATCAACGGATTTTAGAAGAGATTGAAGCTCGAAGGGTGCAGAGAAG
ACAGGCAAGGGTGCTGTCGGGCAACTGTGACCATCAGGAGGGGACATCCAGTGATGAAGAGCTG
TCTCCTGCAGAGATGACTAACTTCCACAAGCGCCAAGGTGACATTTTACAGGATTGTAAGAAAG
TTTTTGAAGATGTGCATGATGATTTTTGTAACGTCCAGAATATTTTATTGAAATTTCAGCAGTG
GCGAGAAAAGTTTCCTGATTCCTACTACGAAGCCTTCGTTGGTTTCTGCTTACCAAAGCTTTTA
AGTCCCCTGATACGAGTTCAGTTGCTTGATTGGAATCCTCTTAAGATGGACTCCATGGGTCTAG
ACAGGATGCCCTGGTTCACAGCCATAACAGAGTTTATGGAGAGCGGCATGGAAGATGTAGGAAA
AGAAGATGGTTCCGATAAAAAAATCTTGTCTGCTGTCATCAACAAAACAGTTGTTCCCCGCCTC
ACAGATTTTGTAGAGATGATCTGGGATCCCCTGTCAACCTCGCAGACAAGAATTTTAACAGTGC
ACTGCAGAGTGGCTTTTGAACAGTTTGCTTCTGAAACTGAAGTCAGTAAAAGCAAACAGGATTT
ACTTAAATCTGTTGCTGCAAGAATGAAGAAGTCAATAGAAGATGATGTTTTTATTCCTCTATAC
CCAAAGAGCTCTGAAGAAGGAAAAATGTCACCACACTCCAAGTTCCAAGAAAGACAGTTCTGGG
GAGCTCTAAAGCTCTTCGGAAATATTCTTCTTTGGAATGGACTTCTCCCAGATGACATCTTGCA
AAATCTGGGACTGGGGAAGCTGCTGAATCGCTACCTTATCATTGCTCTTACTAACGCCATCCCT
GGACCAGATGTTGTTAAAAAGTGCAGCCAGATAGCAGCATGTCTGCCAGACAAATGGTTTGAGA
ACTCTGCTATGAGGACATCACTTCCCCAGCTAGAAAACTTCGTTCAGTTTTTGTTGCAGTCTGC
ACGCAAATTATCCACAACTGAATTCAGGAATGAACTCAATGGAATAATTCTTATCCTGGTGAAG
GTAAAGGCTCTGAGTCAAGCTGAATCCCTCACAGAGGAGCATCGCCTGGAGCCCCTCACAGCCC
AGACGGCAGGTGTGTGAGCGTGCTGTACAGAGGTCCATGATGAGAGTGGACAGCGCCTTTCCTG
TATATAGATGACGCCTCCTGTCCGCTGTGCCCACCGTGGCTGTGTGGAAAGCTTCCTGCTGCTG
TGTGTCTGAGGGAAGTACATGCATGAGGCGGCTGGCGCTCAGTGTGCTTCTCTTTTATTCTCTC
TCAGTCTGAGAAGATGATGAGGAAATCTGACACACAGAAGCATGCCCCGCGTCAAAACCACCTT
CAACAGACTCCAACTGTTTACAAATCAGCTAATGAGGGAAAAACTTTCTATCTCTTGATTTCTT
TTGTCTTATTCTTTTGTGGAGACTGGGTCTCATTCTGAAGTGTAAGAAATTGCTTATTAATATT
AAATGGTTAATACATTTTTATAC

hide sequence

RefSeq Acc Id:

XM_006236702 ⟹ XP_006236764

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	116,039,434 - 116,076,330 (+)	NCBI
mRatBN7.2	4	114,481,613 - 114,518,928 (+)	NCBI
Rnor_6.0	4	112,662,556 - 112,700,145 (+)	NCBI
Rnor_5.0	4	177,350,321 - 177,390,090 (+)	NCBI

Sequence:

show sequence

GATTGCGCACGCGCCGAACACCAAGCCTTAGGAGACACGCCAATCCTGCTTGGAACATGGCACT
CAGGCCTCAGAGGACTTTCAGGCGGCGCCAGGTCGATTCCAGCGATAGCGATAGCGACGGCACG
AAGGAGCAGAGTGCTGAGGAGCCAGCGGAGTCAGGCAGGCCGTCTGCAGGCGGCCGAACAGAGG
GAGCGGAGCGGCCGCGCGGGGCCCGCAGCGCCCGGGGCCGAGGTCGTGTCTGGGCGAGTTCCCG
GCGCAGCCCGGGAGCTGCTTCCCGAGGGGACGGAGGCGCAGAATGCAGAACAGCCGATCTCTCA
ACGGATGAAGAGGAAGGAGAACTTCCCTTGCCAGAAAATAAGGATGATGAGAGTCCGTCCTCGG
ATAGCTCTTGCTCTCTGGAAGAAAAAGAAGTCTCACCCATAGTTAAGATCCCTGATGCAGCTTT
TATTCAGGCAGCCCGCAGAAAACGTGAGCTGGCCAGGACCCCGGGGGACTATATTTCACTGGAT
GTAAACCATCCCTCCACCACTTCTGAGAGTAAGAGAAGCAATGGCGAGGACTCGGAGAGCGATC
CTGATGACCACGAAAAAAGAATACTATTTACCCCAAAGCCTCAAACACTCCGACAGAGAATGGC
TGAGGAATCATCAATCAGGAATGAAGACTCGAGTGAAGAGAGTCAGGAAGATGAAAGCCAAGAC
ACCTGGGAGCAGCAGCAGATGAGGAAAGCCGTCAGGATCACAGAGGGACAAAGTATAGACCTTC
TCCACAGCAGTAAGTCTCAGACACTGAAGAAGTTTGATAGTTCCATTTCATTTGCACCAGTAAA
CTTGGAAATTATAAAGAAACAGTTAAATAGTAGATTAACATTACTACAGGATTCTCATCGCTCA
CACCAGAGAGAATATGAAAAATATGAACAAGACATCAAGAGTTCAAAGACAGCTATTGAGAAGC
TTGAGAGTGGACCAGATCAAGCCCTAAACTACAAATTCTACAAAGGCATGAAAATTTATGTGGA
AAATATAATTGATTGTCTAAATGAAAAGATTAGCAGCATTGTGGAACTAGAGTCATCCATGTAC
ACACTGCTTTTAAAACACTCAGAAGCACTTTTGAAACGCAGGCAAGATGAGCTAAAATGTGAAT
CCTCATATTTGCAACAGTTATCACGCAAAGATGAGACATTGGCAAGTGGAAGCTTGGCTCTGGA
TGAAAAGGATCAACGGATTTTAGAAGAGATTGAAGCTCGAAGGGTGCAGAGAAGACAGGCAAGG
GTGCTGTCGGGCAACTGTGACCATCAGGAGGGGACATCCAGTGATGAAGAGCTGTCTCCTGCAG
AGATGACTAACTTCCACAAGCGCCAAGGTGACATTTTACAGGATTGTAAGAAAGTTTTTGAAGA
TGTGCATGATGATTTTTGTAACGTCCAGAATATTTTATTGAAATTTCAGCAGTGGCGAGAAAAG
TTTCCTGATTCCTACTACGAAGCCTTCGTTGGTTTCTGCTTACCAAAGCTTTTAAGTCCCCTGA
TACGAGTTCAGTTGCTTGATTGGAATCCTCTTAAGATGGACTCCATGGGTCTAGACAGGATGCC
CTGGTTCACAGCCATAACAGAGTTTATGGAGAGCGGCATGGAAGATGTAGGAAAAGAAGATGGT
TCCGATAAAAAAATCTTGTCTGCTGTCATCAACAAAACAGTTGTTCCCCGCCTCACAGATTTTG
TAGAGATGATCTGGGATCCCCTGTCAACCTCGCAGACAAGAATTTTAACAGTGCACTGCAGAGT
GGCTTTTGAACAGTTTGCTTCTGAAACTGAAGTCAGTAAAAGCAAACAGGATTTACTTAAATCT
GTTGCTGCAAGAATGAAGAAGTCAATAGAAGATGATGTTTTTATTCCTCTATACCCAAAGAGCT
CTGAAGAAGGAAAAATGTCACCACACTCCAAGTTCCAAGAAAGACAGTTCTGGGGAGCTCTAAA
GCTCTTCGGAAATATTCTTCTTTGGAATGGACTTCTCCCAGATGACATCTTGCAAAATCTGGGA
CTGGGGAAGCTGCTGAATCGCTACCTTATCATTGCTCTTACTAACGCCATCCCTGGACCAGATG
TTGTTAAAAAGTGCAGCCAGATAGCAGCATGTCTGCCAGACAAATGGTTTGAGAACTCTGCTAT
GAGGACATCACTTCCCCAGCTAGAAAACTTCGTTCAGTTTTTGTTGCAGTCTGCACGCAAATTA
TCCACAACTGAATTCAGGAATGAACTCAATGGAATAATTCTTATCCTGGTGAAGGTAAAGGCTC
TGAGTCAAGCTGAATCCCTCACAGAGGAGCATCGCCTGGAGCCCCTCACAGCCCAGACGGCAGG
TGTGTGAGCGTGCTGTACAGAGGTCCATGATGAGAGTGGACAGCGCCTTTCCTGTATATAGATG
ACGCCTCCTGTCCGCTGTGCCCACCGTGGCTGTGTGGAAAGCTTCCTGCTGCTGTGTGTCTGAG
GGAAGTACATGCATGAGGCGGCTGGCGCTCAGTGTGCTTCTCTTTTATTCTCTCTCAGTCTGAG
AAGATGATGAGGAAATCTGACACACAGAAGCATGCCCCGCGTCAAAACCACCTTCAACAGACTC
CAACTGTTTACAAATCAGCTAATGAGGGAAAAACTTTCTATCTCTTGATTTCTTTTGTCTTATT
CTTTTGTGGAGACTGGGTCTCATTCTGAAGTGTAAGAAATTGCTTATTAATATTAAATGGTTAA
TACATTTTTATACAAATTATCCTTTCAAAATCTGTACTGATTGATTGATGAACTTAGGTTAAGA
GAGCGCGAGTGAGTCTCCAGATTTTAATTCATTGACAATTTATTAAGAAAAAAATTTTTGAAAA
GAAGGTATATTTTTATATGTTTGCTTATGTATGTTCCTGGGTTTAGCACTGCGTCCATGTAGGG
GCCAGAAGGCATTAGATCTCCTAGAACTGGATTCCAGGAGGTTGTGGGCCACCTGATGTGCTGG
GAACCAAACCCAGGTCCTCAGAAGGGATCTTAACCACTGTGCTGTTCTCCAGCCCGTTGAAGAA
TGAAGATGTGTCGGTTTGGGTCACCTATAATTCTTTTTGAAGTGTCCATCTTTTTCTACAGGAA
TACTGATCTTTTGCCTATGTTCTGACAAGTAGCTTTTCAGAAAACTGACCACTTTTCTTTAAA

hide sequence

RefSeq Acc Id:

XM_006236703 ⟹ XP_006236765

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	116,039,434 - 116,076,330 (+)	NCBI
mRatBN7.2	4	114,481,613 - 114,519,268 (+)	NCBI
Rnor_6.0	4	112,662,556 - 112,700,505 (+)	NCBI
Rnor_5.0	4	177,350,321 - 177,390,090 (+)	NCBI

Sequence:

show sequence

GATTGCGCACGCGCCGAACACCAAGCCTTAGGAGACACGCCAATCCTGCTTGGAACATGGCACT
CAGGCCTCAGAGGACTTTCAGGCGGCGCCAGGTCGATTCCAGCGATAGCGATAGCGACGGCACG
AAGGAGCAGAGTGCTGAGGAGCCAGCGGAGTCAGGCAGGCCGTCTGCAGGCGGCCGAACAGAGG
GAGCGGAGCGGCCGCGCGGGGCCCGCAGCGCCCGGGGCCGAGGTCGTGTCTGGGCGAGTTCCCG
GCGCAGCCCGGGAGCTGCTTCCCGAGGGGACGGAGGCGCAGAATGCAGAACAGCCGATCTCTCA
ACGGATGAAGAGGAAGGAGAACTTCCCTTGCCAGAAAATAAGGATGATGAGAGTCCGTCCTCGG
ATAGCTCTTGCTCTCTGGAAGAAAAAGAAGTCTCACCCATAGTTAAGATCCCTGATGCAGCTTT
TATTCAGGCAGCCCGCAGAAAACGTGAGCTGGCCAGGACCCCGGGGGACTATATTTCACTGGAT
GTAAACCATCCCTCCACCACTTCTGAGAGTAAGAGAAGCAATGGCGAGGACTCGGAGAGCGATC
CTGATGACCACGAAAAAAGAATACTATTTACCCCAAAGCCTCAAACACTCCGACAGAGAATGGC
TGAGGAATCATCAATCAGGAATGAAGACTCGAGTGAAGAGAGTCAGGAAGATGAAAGCCAAGAC
ACCTGGGAGCAGCAGCAGATGAGGAAAGCCGTCAGGATCACAGAGGGACAAAGTATAGACCTTC
TCCACAGCAGTAAGTCTCAGACACTGAAGAAGTTTGATAGTTCCATTTCATTTGCACCAGTAAA
CTTGGAAATTATAAAGAAACAGTTAAATAGTAGATTAACATTACTACAGGATTCTCATCGCTCA
CACCAGAGAGAATATGAAAAATATGAACAAGACATCAAGAGTTCAAAGACAGCTATTGAGAAGC
TTGAGAGTGGACCAGATCAAGCCCTAAACTACAAATTCTACAAAGGCATGAAAATTTATGTGGA
AAATATAATTGATTGTCTAAATGAAAAGATTAGCAGCATTGTGGAACTAGAGTCATCCATGTAC
ACACTGCTTTTAAAACACTCAGAAGCACTTTTGAAACGCAGGCAAGATGAGCTAAAATGTGAAT
CCTCATATTTGCAACAGTTATCACGCAAAGATGAGACATTGGCAAGTGGAAGCTTGGCTCTGGA
TGAAAAGGATCAACGGATTTTAGAAGAGATTGAAGCTCGAAGGGTGCAGAGAAGACAGGCAAGG
GTGCTGTCGGGCAACTGTGACCATCAGGAGGGGACATCCAGTGATGAAGAGCTGTCTCCTGCAG
AGATGACTAACTTCCACAAGCGCCAAGGTGACATTTTACAGGATTGTAAGAAAGTTTTTGAAGA
TGTGCATGATGATTTTTGTAACGTCCAGAATATTTTATTGAAATTTCAGCAGTGGCGAGAAAAG
TTTCCTGATTCCTACTACGAAGCCTTCGTTGGTTTCTGCTTACCAAAGCTTTTAAGTCCCCTGA
TACGAGTTCAGTTGCTTGATTGGAATCCTCTTAAGATGGACTCCATGGGTCTAGACAGGATGCC
CTGGTTCACAGCCATAACAGAGTTTATGGAGAGCGGCATGGAAGATGTAGGAAAAGAAGATGGT
TCCGATAAAAAAATCTTGTCTGCTGTCATCAACAAAACAGTTGTTCCCCGCCTCACAGATTTTG
TAGAGATGATCTGGGATCCCCTGTCAACCTCGCAGACAAGAATTTTAACAGTGCACTGCAGAGT
GGCTTTTGAACAGTTTGCTTCTGAAACTGAAGTCAGTAAAAGCAAACAGGATTTACTTAAATCT
GTTGCTGCAAGAATGAAGAAGTCAATAGAAGATGATGTTTTTATTCCTCTATACCCAAAGAGCT
CTGAAGAAGGAAAAATGTCACCACACTCCAAGTTCCAAGAAAGACAGTTCTGGGGAGCTCTAAA
GCTCTTCGGAAATATTCTTCTTTGGAATGGACTTCTCCCAGATGACATCTTGCAAAATCTGGGA
CTGGGGAAGCTGCTGAATCGCTACCTTATCATTGCTCTTACTAACGCCATCCCTGGACCAGATG
TTGTTAAAAAGTGCAGCCAGATAGCAGCATGTCTGCCAGACAAATGGTTTGAGAACTCTGCTAT
GAGGACATCACTTCCCCAGCTAGAAAACTTCGTTCAGTTTTTGTTGCAGTCTGCACGCAAATTA
TCCACAACTGAATTCAGGAATGAACTCAATGGAATAATTCTTATCCTGGTGAAGGTAAAGGCTC
TGAGTCAAGCTGAATCCCTCACAGAGGAGCATCGCCTGGAGCCCCTCACAGCCCAGACGGCAGT
CTGAGAAGATGATGAGGAAATCTGACACACAGAAGCATGCCCCGCGTCAAAACCACCTTCAACA
GACTCCAACTGTTTACAAATCAGCTAATGAGGGAAAAACTTTCTATCTCTTGATTTCTTTTGTC
TTATTCTTTTGTGGAGACTGGGTCTCATTCTGAAGTGTAAGAAATTGCTTATTAATATTAAATG
GTTAATACATTTTTATACAAATTATCCTTTCAAAATCTGTACTGATTGATTGATGAACTTAGGT
TAAGAGAGCGCGAGTGAGTCTCCAGATTTTAATTCATTGACAATTTATTAAGAAAAAAATTTTT
GAAAAGAAGGTATATTTTTATATGTTTGCTTATGTATGTTCCTGGGTTTAGCACTGCGTCCATG
TAGGGGCCAGAAGGCATTAGATCTCCTAGAACTGGATTCCAGGAGGTTGTGGGCCACCTGATGT
GCTGGGAACCAAACCCAGGTCCTCAGAAGGGATCTTAACCACTGTGCTGTTCTCCAGCCCGTTG
AAGAATGAAGATGTGTCGGTTTGGGTCACCTATAATTCTTTTTGAAGTGTCCATCTTTTTCTAC
AGGAATACTGATCTTTTGCCTATGTTCTGACAAGTAGCTTTTCAGAAAACTGACCACTTTTCTT
TAAATTTTGTGTAAGATTTTTTTGGTAACAAAGTTATCAGCTGGTAGCAAGTGAGGCTTTTTTG
CTGTTTTGTGTGGTTCGTGGTAGGATTAAGAAGGCCATTGCTATTTTAAATACAGAATTGTAAA
GTATTTGTCCAATTAAGGTAGTCTGAGCCAAAGTTATTAAGAAATTAAGAACTTTTCTCCAAAT
GATTTTATTAGTATTCTTAAGTATACTTGTTAAGCAACTCAATGATGGCCCTATATTTATTTTT
CCATGTTGCCATTTTAGACATTTGCTCATTACAAAAGCATGTGTATATGTGTCCAGAAAGTTTT
GTATATAAATTGGCAGAGACTTTATTACATATGAATTTTCTAAA

hide sequence

RefSeq Acc Id:

XM_039107583 ⟹ XP_038963511

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	116,039,434 - 116,075,975 (+)	NCBI
mRatBN7.2	4	114,481,613 - 114,518,928 (+)	NCBI

RefSeq Acc Id:

XM_039107584 ⟹ XP_038963512

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	116,053,195 - 116,076,330 (+)	NCBI
mRatBN7.2	4	114,495,369 - 114,518,928 (+)	NCBI

RefSeq Acc Id:

XM_063286052 ⟹ XP_063142122

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	116,039,432 - 116,056,572 (+)	NCBI

RefSeq Acc Id:

XR_005503212

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	116,039,434 - 116,076,330 (+)	NCBI
mRatBN7.2	4	114,481,613 - 114,519,268 (+)	NCBI

RefSeq Acc Id:

XR_005503213

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	116,039,434 - 116,064,480 (+)	NCBI
mRatBN7.2	4	114,481,613 - 114,506,642 (+)	NCBI

RefSeq Acc Id:

XR_005503214

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	116,039,434 - 116,064,480 (+)	NCBI
mRatBN7.2	4	114,481,613 - 114,506,642 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001128026	(Get FASTA)	NCBI Sequence Viewer
	NP_001430604	(Get FASTA)	NCBI Sequence Viewer
	XP_006236764	(Get FASTA)	NCBI Sequence Viewer
	XP_006236765	(Get FASTA)	NCBI Sequence Viewer
	XP_038963511	(Get FASTA)	NCBI Sequence Viewer
	XP_038963512	(Get FASTA)	NCBI Sequence Viewer
	XP_063142122	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL91089	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000009104
	ENSRNOP00000009104.5
	ENSRNOP00000087910
	ENSRNOP00000087910.1
	ENSRNOP00000092144
	ENSRNOP00000092144.2

RefSeq Acc Id:

NP_001128026 ⟸ NM_001134554

- UniProtKB:

D4A3Z4 (UniProtKB/TrEMBL), A6IAH1 (UniProtKB/TrEMBL), A0A8I6AVA2 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MALRPQRTFRRRQVDSSDSDSDGTKEQSAEEPAESGRPSAGGRTEGAERPRGARSARGRGRVWA
SSRRSPGAASRGDGGAVKIPDAAFIQAARRKRELARTPGDYISLDVNHPSTTSESKRSNGEDSE
SDPDDHEKRILFTPKPQTLRQRMAEESSIRNEDSSEESQEDESQDTWEQQQMRKAVRITEGQSI
DLLHSSKSQTLKKFDSSISFAPVNLEIIKKQLNSRLTLLQDSHRSHQREYEKYEQDIKSSKTAI
EKLESGPDQALNYKFYKGMKIYVENIIDCLNEKISSIVELESSMYTLLLKHSEALLKRRQDELK
CESSYLQQLSRKDETLASGSLALDEKDQRILEEIEARRVQRRQARVLSGNCDHQEGTSSDEELS
PAEMTNFHKRQGDILQDCKKVFEDVHDDFCNVQNILLKFQQWREKFPDSYYEAFVGFCLPKLLS
PLIRVQLLDWNPLKMDSMGLDRMPWFTAITEFMESGMEDVGKEDGSDKKILSAVINKTVVPRLT
DFVEMIWDPLSTSQTRILTVHCRVAFEQFASETEVSKSKQDLLKSVAARMKKSIEDDVFIPLYP
KSSEEGKMSPHSKFQERQFWGALKLFGNILLWNGLLPDDILQNLGLGKLLNRYLIIALTNAIPG
PDVVKKCSQIAACLPDKWFENSAMRTSLPQLENFVQFLLQSARKLSTTEFRNELNGIILILVKV
KALSQAESLTEEHRLEPLTAQTAGV

hide sequence

RefSeq Acc Id:	XP_006236764 ⟸ XM_006236702
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6AVA2 (UniProtKB/TrEMBL)
- Sequence:	show sequence MALRPQRTFRRRQVDSSDSDSDGTKEQSAEEPAESGRPSAGGRTEGAERPRGARSARGRGRVWA SSRRSPGAASRGDGGAECRTADLSTDEEEGELPLPENKDDESPSSDSSCSLEEKEVSPIVKIPD AAFIQAARRKRELARTPGDYISLDVNHPSTTSESKRSNGEDSESDPDDHEKRILFTPKPQTLRQ RMAEESSIRNEDSSEESQEDESQDTWEQQQMRKAVRITEGQSIDLLHSSKSQTLKKFDSSISFA PVNLEIIKKQLNSRLTLLQDSHRSHQREYEKYEQDIKSSKTAIEKLESGPDQALNYKFYKGMKI YVENIIDCLNEKISSIVELESSMYTLLLKHSEALLKRRQDELKCESSYLQQLSRKDETLASGSL ALDEKDQRILEEIEARRVQRRQARVLSGNCDHQEGTSSDEELSPAEMTNFHKRQGDILQDCKKV FEDVHDDFCNVQNILLKFQQWREKFPDSYYEAFVGFCLPKLLSPLIRVQLLDWNPLKMDSMGLD RMPWFTAITEFMESGMEDVGKEDGSDKKILSAVINKTVVPRLTDFVEMIWDPLSTSQTRILTVH CRVAFEQFASETEVSKSKQDLLKSVAARMKKSIEDDVFIPLYPKSSEEGKMSPHSKFQERQFWG ALKLFGNILLWNGLLPDDILQNLGLGKLLNRYLIIALTNAIPGPDVVKKCSQIAACLPDKWFEN SAMRTSLPQLENFVQFLLQSARKLSTTEFRNELNGIILILVKVKALSQAESLTEEHRLEPLTAQ TAGV hide sequence

RefSeq Acc Id:	XP_006236765 ⟸ XM_006236703
- Peptide Label:	isoform X2
- UniProtKB:	A0A8I6AHL1 (UniProtKB/TrEMBL), A0A8I6AVA2 (UniProtKB/TrEMBL)
- Sequence:	show sequence MALRPQRTFRRRQVDSSDSDSDGTKEQSAEEPAESGRPSAGGRTEGAERPRGARSARGRGRVWA SSRRSPGAASRGDGGAECRTADLSTDEEEGELPLPENKDDESPSSDSSCSLEEKEVSPIVKIPD AAFIQAARRKRELARTPGDYISLDVNHPSTTSESKRSNGEDSESDPDDHEKRILFTPKPQTLRQ RMAEESSIRNEDSSEESQEDESQDTWEQQQMRKAVRITEGQSIDLLHSSKSQTLKKFDSSISFA PVNLEIIKKQLNSRLTLLQDSHRSHQREYEKYEQDIKSSKTAIEKLESGPDQALNYKFYKGMKI YVENIIDCLNEKISSIVELESSMYTLLLKHSEALLKRRQDELKCESSYLQQLSRKDETLASGSL ALDEKDQRILEEIEARRVQRRQARVLSGNCDHQEGTSSDEELSPAEMTNFHKRQGDILQDCKKV FEDVHDDFCNVQNILLKFQQWREKFPDSYYEAFVGFCLPKLLSPLIRVQLLDWNPLKMDSMGLD RMPWFTAITEFMESGMEDVGKEDGSDKKILSAVINKTVVPRLTDFVEMIWDPLSTSQTRILTVH CRVAFEQFASETEVSKSKQDLLKSVAARMKKSIEDDVFIPLYPKSSEEGKMSPHSKFQERQFWG ALKLFGNILLWNGLLPDDILQNLGLGKLLNRYLIIALTNAIPGPDVVKKCSQIAACLPDKWFEN SAMRTSLPQLENFVQFLLQSARKLSTTEFRNELNGIILILVKVKALSQAESLTEEHRLEPLTAQ TAV hide sequence

Ensembl Acc Id:

ENSRNOP00000009104 ⟸ ENSRNOT00000009104

RefSeq Acc Id:	XP_038963511 ⟸ XM_039107583
- Peptide Label:	isoform X3
- UniProtKB:	A0A8I6AVA2 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038963512 ⟸ XM_039107584
- Peptide Label:	isoform X4

Ensembl Acc Id:

ENSRNOP00000092144 ⟸ ENSRNOT00000109874

Ensembl Acc Id:

ENSRNOP00000087910 ⟸ ENSRNOT00000109942

RefSeq Acc Id:	XP_063142122 ⟸ XM_063286052
- Peptide Label:	isoform X5

Protein Domains

GCF C-terminal

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D4A3Z4-F1-model_v2	AlphaFold	D4A3Z4	1-729	view protein structure

Transcriptome

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

Promoters

RGD ID:

13693157

Promoter ID:

EPDNEW_R3681

Type:

initiation region

Name:

Gcfc2_1

Description:

GC-rich sequence DNA-binding factor 2

SO ACC ID:

SO:0000170

Source:

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

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	4	112,662,585 - 112,662,645	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1304792	AgrOrtholog
BioCyc Gene	G2FUF-44055	BioCyc
Ensembl Genes	ENSRNOG00000006888	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000009104	ENTREZGENE
	ENSRNOT00000009104.7	UniProtKB/TrEMBL
	ENSRNOT00000109874	ENTREZGENE
	ENSRNOT00000109874.2	UniProtKB/TrEMBL
	ENSRNOT00000109942	ENTREZGENE
	ENSRNOT00000109942.2	UniProtKB/TrEMBL
InterPro	GCFC	UniProtKB/TrEMBL
	GCFC_dom	UniProtKB/TrEMBL
KEGG Report	rno:312474	UniProtKB/TrEMBL
NCBI Gene	312474	ENTREZGENE
PANTHER	GCFC	UniProtKB/TrEMBL
	INTRON LARGE COMPLEX COMPONENT GCFC2	UniProtKB/TrEMBL
Pfam	GCFC	UniProtKB/TrEMBL
PhenoGen	Gcfc2	PhenoGen
RatGTEx	ENSRNOG00000006888	RatGTEx
UniProt	A0A8I6AHL1	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6AVA2	ENTREZGENE, UniProtKB/TrEMBL
	A6IAH1	ENTREZGENE, UniProtKB/TrEMBL
	D4A3Z4	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2011-12-06	Gcfc2	GC-rich sequence DNA-binding factor 2	RGD1304792	similar to chromosome 2 open reading frame 3; transcription factor 9 (binds GC-rich sequences)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	RGD1304792	similar to chromosome 2 open reading frame 3; transcription factor 9 (binds GC-rich sequences)	RGD1304792_predicted	similar to chromosome 2 open reading frame 3; transcription factor 9 (binds GC-rich sequences) (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-20	RGD1304792_predicted	similar to chromosome 2 open reading frame 3; transcription factor 9 (binds GC-rich sequences) (predicted)	LOC312474_predicted		Symbol and Name status set to approved	1331353	APPROVED
2005-01-12	LOC312474_predicted	similar to chromosome 2 open reading frame 3; transcription factor 9 (binds GC-rich sequences) (predicted)			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)

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