Advanced Search (OLGA)

Gene: Hoxc4 (homeo box C4) Rattus norvegicus

Analyze

Symbol:

Hoxc4

Name:

homeo box C4

RGD ID:

1586210

Description:

Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific; HMG box domain binding activity; and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in cellular response to glial cell derived neurotrophic factor and positive regulation of male germ-line stem cell asymmetric division. Predicted to be located in nucleus. Orthologous to human HOXC4 (homeobox C4); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; ammonium chloride.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

homeo box C4 (mapped); Homeobox gene C4; homeobox protein Hox-C4; homeobox protein R3; Hox3r3; Hoxc4_mapped

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):	HOXC4 (homeobox C4)	HGNC	EggNOG, Ensembl, HomoloGene, NCBI, OMA, OrthoDB, OrthoMCL, PhylomeDB, Treefam
Mus musculus (house mouse):	Hoxc4 (homeobox C4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Hoxc4 (homeobox C4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	HOXC4 (homeobox C4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	HOXC4 (homeobox C4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Hoxc4 (homeobox C4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	HOXC4 (homeobox C4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	HOXC4 (homeobox C4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Hoxc4 (homeobox C4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Hoxc4 (homeobox C4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	RELB (RELB proto-oncogene, NF-kB subunit)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	HOXC4 (homeobox C4)	Alliance	DIOPT (HGNC\|OrthoFinder)
Homo sapiens (human):	HOXC4 (homeobox C4)	Alliance	DIOPT (HGNC\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	hoxc4	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PhylomeDB)

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	7	136,049,059 - 136,051,601 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	7	136,049,059 - 136,051,601 (+)	Ensembl				GRCr8
mRatBN7.2	7	134,135,279 - 134,173,133 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	134,170,591 - 134,173,133 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	7	135,926,005 - 135,928,548 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	138,155,381 - 138,157,924 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	138,141,262 - 138,143,805 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	144,646,605 - 144,652,589 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	144,647,587 - 144,650,129 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	7	142,378,916 - 142,441,486 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	7	141,796,934 - 141,799,476 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	7	130,596,539 - 130,599,081 (+)	NCBI		Celera
Cytogenetic Map	7	q36	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

esophageal atresia (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

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

2,3,7,8-Tetrachlorodibenzofuran (EXP)

2-methylcholine (ISO)

acetaldehyde (ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

amiodarone (ISO)

ammonium chloride (EXP)

amosite asbestos (ISO)

amphetamine (EXP)

antirheumatic drug (ISO)

aristolochic acid A (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

beta-lapachone (ISO)

bisphenol A (EXP,ISO)

chlorpyrifos (ISO)

choline (ISO)

corosolic acid (ISO)

crocidolite asbestos (ISO)

cyproconazole (ISO)

flusilazole (EXP,ISO)

folic acid (ISO)

FR900359 (ISO)

furan (EXP)

gentamycin (EXP)

GSK-J4 (ISO)

hexaconazole (ISO)

hydrogen peroxide (ISO)

L-methionine (ISO)

Licochalcone B (ISO)

methylparaben (ISO)

pirinixic acid (ISO)

sotorasib (ISO)

sulforaphane (ISO)

titanium dioxide (ISO)

trametinib (ISO)

triclosan (ISO)

triphenyl phosphate (ISO)

triptonide (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

anterior/posterior pattern specification (IEA,ISO)

cartilage development (ISO)

cellular response to glial cell derived neurotrophic factor (IEP)

embryonic organ morphogenesis (IEA,ISO)

positive regulation of male germ-line stem cell asymmetric division (IMP)

positive regulation of transcription by RNA polymerase II (IEA,ISO)

regulation of DNA-templated transcription (IEA)

skeletal system development (IEA,ISO)

Cellular Component

nucleoplasm (IEA,ISO)

nucleus (IEA)

Molecular Function

DNA binding (IEA)

DNA-binding transcription activator activity, RNA polymerase II-specific (IEA,ISO)

DNA-binding transcription factor activity (IEA)

DNA-binding transcription factor activity, RNA polymerase II-specific (IEA)

HMG box domain binding (IEA,ISO)

protein binding (ISO)

RNA polymerase II cis-regulatory region sequence-specific DNA binding (IEA,ISO)

sequence-specific double-stranded DNA binding (IEA,ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Expression of homeotic genes Hoxa3, Hoxb3, Hoxd3 and Hoxc4 is decreased in the lungs but not in the hearts of adriamycin-exposed mice.	Calonge WM, etal., Pediatr Surg Int. 2007 May;23(5):419-24.
2.	Chromosomal assignment of seven rat homeobox genes to rat chromosomes 3, 4, 7, and 10.	Chung SY, etal., Mamm Genome 1993 Sep;4(9):537-40.
3.	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.
4.	GOA pipeline	RGD automated data pipeline
5.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
7.	Identification of glial cell line-derived neurotrophic factor-regulated genes important for spermatogonial stem cell self-renewal in the rat.	Schmidt JA, etal., Biol Reprod. 2009 Jul;81(1):56-66. Epub 2009 Apr 1.

Additional References at PubMed

PMID:2907739	PMID:8626021	PMID:8660891	PMID:15252056	PMID:16582099

Genomics

Comparative Map Data

Hoxc4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	136,049,059 - 136,051,601 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	7	136,049,059 - 136,051,601 (+)	Ensembl				GRCr8
mRatBN7.2	7	134,135,279 - 134,173,133 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	134,170,591 - 134,173,133 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	7	135,926,005 - 135,928,548 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	138,155,381 - 138,157,924 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	138,141,262 - 138,143,805 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	144,646,605 - 144,652,589 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	144,647,587 - 144,650,129 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	7	142,378,916 - 142,441,486 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	7	141,796,934 - 141,799,476 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	7	130,596,539 - 130,599,081 (+)	NCBI		Celera
Cytogenetic Map	7	q36	NCBI

HOXC4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	12	54,016,888 - 54,056,030 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	12	54,016,931 - 54,056,030 (+)	Ensembl			hg38	GRCh38
GRCh37	12	54,410,672 - 54,449,814 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	12	52,696,909 - 52,736,081 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	12	52,733,927 - 52,735,630	NCBI
Celera	12	54,060,259 - 54,098,621 (+)	NCBI		Celera
Cytogenetic Map	12	q13.13	NCBI
HuRef	12	51,448,399 - 51,487,572 (+)	NCBI		HuRef
CHM1_1	12	54,377,346 - 54,416,498 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	12	53,982,461 - 54,021,597 (+)	NCBI		T2T-CHM13v2.0

Hoxc4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	102,926,531 - 102,945,281 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	15	102,927,366 - 102,945,278 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	15	103,018,097 - 103,036,856 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	103,018,934 - 103,036,852 (+)	Ensembl			mm10	GRCm38
MGSCv37	15	102,864,826 - 102,867,283 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	15	102,862,429 - 102,864,631 (+)	NCBI		MGSCv36	mm8
Celera	15	105,195,304 - 105,197,761 (+)	NCBI		Celera
Cytogenetic Map	15	F3	NCBI
cM Map	15	58.08	NCBI

Hoxc4
(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_004955458	1,309,119 - 1,313,344 (+)	Ensembl
ChiLan1.0	NW_004955458	1,251,601 - 1,313,291 (+)	NCBI	ChiLan1.0	ChiLan1.0

HOXC4
(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	10	40,130,013 - 40,169,600 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	12	40,126,781 - 40,166,801 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	12	34,699,357 - 34,702,368 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	12	35,487,619 - 35,489,853 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	12	35,487,619 - 35,526,627 (-)	Ensembl			panPan2	panpan1.1

HOXC4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	27	1,209,510 - 1,246,873 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	27	1,172,229 - 1,226,572 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	27	44,981,922 - 45,041,680 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	27	1,211,609 - 1,271,363 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	27	1,211,769 - 1,248,693 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	27	1,229,321 - 1,289,063 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	27	1,210,851 - 1,270,586 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	27	45,385,528 - 45,445,321 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Hoxc4
(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_024404945	61,887,299 - 61,904,863 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936512	11,274,416 - 11,277,531 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936512	11,238,905 - 11,277,531 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

HOXC4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	5	19,265,081 - 19,268,257 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	5	19,250,411 - 19,268,267 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	20,151,903 - 20,169,649 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

HOXC4
(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	11	50,127,573 - 50,167,077 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	11	50,164,980 - 50,166,267 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666037	195,875,175 - 195,914,587 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Hoxc4
(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_female_1.0 Ensembl	NW_004624904	2,092,055 - 2,109,979 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624904	2,104,504 - 2,109,729 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Hoxc4
(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	1	260,046,588 - 260,049,121 (-)	NCBI		Rrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	124
Count of miRNA genes:	84
Interacting mature miRNAs:	114
Transcripts:	ENSRNOT00000022398
Prediction methods:	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
1354582	Stl11	Serum triglyceride level QTL 11	3.42		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	7	121393075	137014596	Rat
634331	Pia17	Pristane induced arthritis QTL 17	4.7		joint integrity trait (VT:0010548)	arthritic paw count (CMO:0001460)	7	132099939	137014596	Rat
731176	Glom5	Glomerulus QTL 5	2.5	0.0035	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	7	98549867	137014596	Rat
61428	Scl3	Serum cholesterol level QTL 3	3.2		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	7	100548246	137014596	Rat
61397	Bw17	Body weight QTL 17	6.3		body mass (VT:0001259)	body weight (CMO:0000012)	7	95485047	137014596	Rat
1358914	Bp266	Blood pressure QTL 266			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	115313999	136544683	Rat
1549899	Stresp8	Stress response QTL 8	4.37	0.0008	stress-related behavior trait (VT:0010451)	defensive burying duration (CMO:0001961)	7	92362341	137014596	Rat
1357339	Stl14	Serum triglyceride level QTL 14	3.45	0.0001	blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	7	135371291	137014596	Rat
1358891	Bp265	Blood pressure QTL 265	2.21		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	71827901	136544683	Rat

Markers in Region

HOX3A

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	134,171,404 - 134,172,100 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	144,648,401 - 144,649,096	NCBI	Rnor6.0
Rnor_5.0	7	142,439,758 - 142,440,453	UniSTS	Rnor5.0
RGSC_v3.4	7	141,797,748 - 141,798,443	UniSTS	RGSC3.4
Celera	7	130,597,353 - 130,598,048	UniSTS
Cytogenetic Map	7	q35	UniSTS

Hoxc4

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	134,171,277 - 134,172,284 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	144,648,274 - 144,649,280	NCBI	Rnor6.0
Rnor_5.0	7	142,439,631 - 142,440,637	UniSTS	Rnor5.0
RGSC_v3.4	7	141,797,621 - 141,798,627	UniSTS	RGSC3.4
Celera	7	130,597,226 - 130,598,232	UniSTS
Cytogenetic Map	7	q35	UniSTS

Hoxc4

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	134,171,411 - 134,172,028 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	144,648,408 - 144,649,024	NCBI	Rnor6.0
Rnor_5.0	7	142,439,765 - 142,440,381	UniSTS	Rnor5.0
Celera	7	130,597,360 - 130,597,976	UniSTS
Cytogenetic Map	7	q35	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
11	12	34	111	63	61	35	83	35	6	301	150	11	90	97	92	26	9	9

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001109884	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC116663	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474035	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000007	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M37567	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000022398 ⟹ ENSRNOP00000022398

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	7	136,049,059 - 136,051,601 (+)	Ensembl
mRatBN7.2 Ensembl	7	134,170,591 - 134,173,133 (+)	Ensembl
Rnor_6.0 Ensembl	7	144,647,587 - 144,650,129 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000157079 ⟹ ENSRNOP00000103190

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	7	136,049,428 - 136,051,600 (+)	Ensembl

RefSeq Acc Id:

NM_001109884 ⟹ NP_001103354

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	7	136,049,059 - 136,051,601 (+)	NCBI
mRatBN7.2	7	134,170,591 - 134,173,133 (+)	NCBI
Rnor_6.0	7	144,647,587 - 144,650,129 (+)	NCBI
Rnor_5.0	7	142,378,916 - 142,441,486 (+)	NCBI
RGSC_v3.4	7	141,796,934 - 141,799,476 (+)	RGD
Celera	7	130,596,539 - 130,599,081 (+)	RGD

Sequence:

show sequence

TGGAAAGGCACTGGAGCCGAGGCCCACCGGGTCCACTGAAGGCCGGAGAGGAGACTCTGGGTGG
GGGCTGAATCACAGCCTACCAACAGCCCCCAATGCCCAGACATTGGAGTCGAGCTGGGAGCCAC
CCATCTTCTGCAAGGGAGGATTGTCAGTCTGGTGGGGTGTGCAATGGTGAGCACCCCAGCTTCT
GCCAGCCATCCCCCCACCCCACCCCCTCAGCAGCAGCAGCACCACACACACAAAAAATTGGATA
CATTTTGAATAAAGCGATTCGGTTCCTTATCCGGGGACTGAGTTGCTCGGTGTGATTGGCCGGC
GGAGTCACATGGTGAAAGTAACTTTACAGGGTCGCTAGCTAGTAGGAGGGCTTTATGGAGCAGA
AAAACGACAAAGCGAGAAAAATTATTTTCCACTCCAGAAATTAATGATCATGAGCTCGTATTTG
ATGGACTCTAACTACATCGATCCGAAATTTCCTCCATGCGAAGAATATTCGCAAAATAGCTACA
TCCCTGAACACAGTCCGGAATATTACGGCCGGACCAGGGAATCGGGATTCCAGCATCACCACCA
GGAGCTGTACCCACCACCGCCTCCGCGCCCTAGCTACCCTGAGCGTCAGTATAGCTGCACCAGT
CTCCAGGGGCCCGGCAATTCGCGAGCCCACGGGCCGGCCCAGGCGGGCCACCACCACCCTGAGA
AATCGCAGCCGCTCTGCGAGCCGGCGCCTCTCTCAGGCGCCTCTGCCTCCCCGTCCCCAGCCCC
GCCAGCCTGCAGCCAGCCAGCCCCTGACCATCCCTCCAGCGCCGCCAGCAAGCAGCCCATAGTC
TACCCTTGGATGAAAAAAATTCACGTTAGCACGGTGAACCCCAATTATAACGGAGGGGAGCCCA
AGCGCTCGAGGACAGCCTACACCCGGCAGCAGGTCCTGGAATTAGAGAAAGAGTTTCATTACAA
CCGCTACCTGACCCGAAGGAGAAGGATCGAGATCGCCCACTCGCTGTGCCTCTCTGAGAGGCAG
ATCAAAATCTGGTTCCAAAACCGTCGCATGAAATGGAAGAAGGACCACCGACTCCCCAACACCA
AAGTGAGGTCAGCGCCCCCGGCCGGCGCTGCACCCAGCACCCTCTCGGCAGCCACCCCCGGCAC
TTCTGAAGACCACTCCCAGAGCGCCACGCCGCCGGAGCAGCAACGGGCAGAGGACATCACCAGG
TTATAAGACATAACTTACACCCCTGCCCCCACCCTGTGCTCCGTGCCCCCTCACACACAAATTG
ACTCTTATTTATAGAATTTAATATATATATATTTTTGGTTCTTTTTTTCTCTCTCTTCCTCCTG
TCTCCTCCCTTGTCAGTTCCAAACAGACAAAACAGATAAACAAACAAGCCCCTTGCCCTTTTCC
CTTTGCTGTTAAGGACCCCTTTAAGCATGTGGTGTTGTCTTAGCATGGTACCTGCTGGGTTTTA
TTTTTTGTTGTTTTGTTTTGTTTTGCTTTGCTTTGCTTTTAAGGCCATTGGGGGGTATTTATTT
TTTAAGGAAAAAAAGCTGCAAAAATTATATATTGCAAGGTGTGATGGTCTGGTTTGGGTGAATT
TCAGGGGAAATGAGGAACAGAAAAAGGAAAGGGAGATTTGTAAGTGGATTCTCATCCTCTCTCC
TCCTCACCCCCCCTCCCTTTCCTTAGGCCTTTTGCATTGAAAATGCACCAGGGGAGGTTAGTGA
GGGGGGGGAGTCATTTTAAGGAGAACAAAGCTATGAAGTTCTTTTGTATTCTTGTGGGGGGGTG
GTAGGAGGGGGGAGGACAGCAAACAAAGCTAAATGCATCTGGAGAGCCTCTGGGAGCTGTTCAG
TTTGAGGAGCCAAAAAATAAATAAATAAATAAAAATGAACTTTCAGTTCAGAGAGGCAGTCTAT
AGGTAGATGCTCCCCTACCCCCATCGTGGTTATTGTGTTTTTGGACTGAATTTACTTGATTATT
GTAAAACTTGCAATAAAGAATTTTAGTGTTGATGTGAAATGCCCCCGTGATCAATAATAAACCA
GTGGCTGTGAATTAGTTTTA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001103354	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA41343	(Get FASTA)	NCBI Sequence Viewer
	EDL86800	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000022398
GenBank Protein	P18865	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_001103354 ⟸ NM_001109884

- UniProtKB:

D3ZK87 (UniProtKB/TrEMBL), A6KCZ2 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MIMSSYLMDSNYIDPKFPPCEEYSQNSYIPEHSPEYYGRTRESGFQHHHQELYPPPPPRPSYPE
RQYSCTSLQGPGNSRAHGPAQAGHHHPEKSQPLCEPAPLSGASASPSPAPPACSQPAPDHPSSA
ASKQPIVYPWMKKIHVSTVNPNYNGGEPKRSRTAYTRQQVLELEKEFHYNRYLTRRRRIEIAHS
LCLSERQIKIWFQNRRMKWKKDHRLPNTKVRSAPPAGAAPSTLSAATPGTSEDHSQSATPPEQQ
RAEDITRL

hide sequence

Ensembl Acc Id:

ENSRNOP00000022398 ⟸ ENSRNOT00000022398

Ensembl Acc Id:

ENSRNOP00000103190 ⟸ ENSRNOT00000157079

Protein Domains

Homeobox

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-P18865-F1-model_v2	AlphaFold	P18865	1-76	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1586210	AgrOrtholog
BioCyc Gene	G2FUF-31911	BioCyc
Ensembl Genes	ENSRNOG00000016613	Ensembl, ENTREZGENE
Ensembl Transcript	ENSRNOT00000022398	ENTREZGENE
Gene3D-CATH	Homeodomain-like	UniProtKB/Swiss-Prot
InterPro	Antp_homeobox_Deformed_sf	UniProtKB/Swiss-Prot
	Homeobox-like_sf	UniProtKB/Swiss-Prot
	Homeobox_CS	UniProtKB/Swiss-Prot
	Homeobox_dom	UniProtKB/Swiss-Prot
	Homeobox_metazoa	UniProtKB/Swiss-Prot
NCBI Gene	24459	ENTREZGENE
PANTHER	HOMEOBOX PROTEIN HOX-C4	UniProtKB/Swiss-Prot
	HOMEOTIC PROTEIN DEFORMED	UniProtKB/Swiss-Prot
Pfam	Homeodomain	UniProtKB/Swiss-Prot
PhenoGen	Hoxc4	PhenoGen
PRINTS	HOMEOBOX	UniProtKB/Swiss-Prot
PROSITE	HOMEOBOX_1	UniProtKB/Swiss-Prot
	HOMEOBOX_2	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000016613	RatGTEx
SMART	HOX	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF46689	UniProtKB/Swiss-Prot
UniProt	A0ABK0LI65_RAT	UniProtKB/TrEMBL
	A6KCZ2	ENTREZGENE, UniProtKB/TrEMBL
	D3ZK87	ENTREZGENE, UniProtKB/TrEMBL
	HXC4_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2007-04-13		homeo box C4	Hoxc4	homeo box C4 (mapped)	Name updated	737654	APPROVED
2007-04-11	Hoxc4	homeo box C4 (mapped)	Hoxc4_mapped	homeo box C4 (mapped)	Data merged from RGD:2820	737654	APPROVED
2006-11-19	Hoxc4	homeo box C4 (mapped)			Symbol and Name status set to provisional	70820	PROVISIONAL
2005-11-17	Hoxc4_mapped	homeo box C4 (mapped)			Symbol and Name updated	1556543	APPROVED
2002-06-10	Hoxc4	Homeobox gene C4			Symbol and Name status set to approved	70586	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)

Send us a Message