Hoxc11 (homeobox C11) - Rat Genome Database

Name: Hoxc11
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Hoxc11 (homeobox C11) Rattus norvegicus

Analyze

Symbol:

Hoxc11

Name:

homeobox C11

RGD ID:

6489991

Description:

Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including embryonic morphogenesis; organ induction; and regionalization. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in nucleus. Orthologous to human HOXC11 (homeobox C11); INTERACTS WITH (+)-catechin (ortholog); 17beta-estradiol (ortholog); 2,3,7,8-tetrachlorodibenzodioxine (ortholog).

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

homeobox protein Hox-C11; homeobox protein Hox-C11-like; LOC100911859; RGD1305450

RGD Orthologs

Alliance Genes

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):	HOXC11 (homeobox C11)	HGNC	EggNOG, Ensembl, HomoloGene, NCBI, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Hoxc11 (homeobox C11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Hoxc11 (homeobox C11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	HOXC11 (homeobox C11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	HOXC11 (homeobox C11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Hoxc11 (homeobox C11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	HOXC11 (homeobox C11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LOC103238414 (uncharacterized LOC103238414)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Hoxc11 (homeobox C11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	TLE4 (TLE family member 4, transcriptional corepressor)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	HOXC11 (homeobox C11)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Hoxc11 (homeobox C11)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	hoxc11a (homeobox C11a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	hoxc11b (homeobox C11b)	Alliance	DIOPT (InParanoid\|OMA\|OrthoInspector\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	hoxc11	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER\|PhylomeDB)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	135,969,707 - 135,973,222 (+)	NCBI		GRCr8
mRatBN7.2	7	134,091,224 - 134,094,738 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	134,091,552 - 134,094,738 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	7	135,846,891 - 135,850,122 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	138,076,265 - 138,079,496 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	138,062,254 - 138,065,485 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	144,565,392 - 144,568,580 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	144,565,392 - 144,567,580 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	142,356,703 - 142,358,942 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	7	130,517,972 - 130,520,959 (+)	NCBI		Celera
Cytogenetic Map	7	q36	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

Neurodevelopmental Disorders (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-catechin (ISO)

17beta-estradiol (ISO)

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

2-hydroxypropanoic acid (ISO)

3-methylcholanthrene (ISO)

5-fluorouracil (ISO)

aflatoxin B1 (ISO)

amosite asbestos (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

chlorpyrifos (ISO)

choline (ISO)

crocidolite asbestos (ISO)

folic acid (ISO)

L-methionine (ISO)

nickel atom (ISO)

rac-lactic acid (ISO)

serpentine asbestos (ISO)

sodium arsenite (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

anterior/posterior pattern specification (ISO)

embryonic digit morphogenesis (ISO)

embryonic skeletal joint morphogenesis (ISO)

metanephros development (ISO)

organ induction (ISO)

positive regulation of transcription by RNA polymerase II (ISO)

proximal/distal pattern formation (ISO)

regulation of transcription by RNA polymerase II (IBA)

skeletal system development (ISO)

Cellular Component

cytosol (IEA,ISO)

nucleoplasm (IEA,ISO)

nucleus (IBA)

Molecular Function

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

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

protein binding (ISO)

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

sequence-specific double-stranded DNA 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:9582375	PMID:12050119	PMID:12869760	PMID:20978074

Genomics

Comparative Map Data

Hoxc11
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	135,969,707 - 135,973,222 (+)	NCBI		GRCr8
mRatBN7.2	7	134,091,224 - 134,094,738 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	134,091,552 - 134,094,738 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	7	135,846,891 - 135,850,122 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	138,076,265 - 138,079,496 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	138,062,254 - 138,065,485 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	144,565,392 - 144,568,580 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	144,565,392 - 144,567,580 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	142,356,703 - 142,358,942 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	7	130,517,972 - 130,520,959 (+)	NCBI		Celera
Cytogenetic Map	7	q36	NCBI

HOXC11
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	12	53,973,126 - 53,977,643 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	12	53,973,126 - 53,977,643 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	12	54,366,910 - 54,371,427 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	12	52,653,177 - 52,656,470 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	12	52,653,195 - 52,656,468	NCBI
Celera	12	54,016,511 - 54,019,822 (+)	NCBI		Celera
Cytogenetic Map	12	q13.13	NCBI
HuRef	12	51,404,138 - 51,407,449 (+)	NCBI		HuRef
CHM1_1	12	54,333,599 - 54,336,910 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	12	53,938,618 - 53,943,153 (+)	NCBI		T2T-CHM13v2.0

Hoxc11
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	102,862,961 - 102,865,136 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	15	102,862,862 - 102,866,143 (+)	Ensembl		GRCm39 Ensembl
GRCm38	15	102,954,526 - 102,956,701 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	102,954,427 - 102,957,708 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	15	102,784,957 - 102,787,132 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	15	102,782,560 - 102,784,735 (+)	NCBI		MGSCv36	mm8
Celera	15	105,115,456 - 105,117,632 (+)	NCBI		Celera
Cytogenetic Map	15	F3	NCBI
cM Map	15	58.02	NCBI

Hoxc11
(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	1,231,445 - 1,234,798 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955458	1,231,625 - 1,234,785 (+)	NCBI	ChiLan1.0	ChiLan1.0

HOXC11
(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	40,209,471 - 40,213,236 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	12	40,201,196 - 40,209,548 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	12	34,777,790 - 34,782,104 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	12	35,567,093 - 35,570,396 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	12	35,567,093 - 35,570,396 (-)	Ensembl	panpan1.1		panPan2

HOXC11
(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	1,287,326 - 1,289,577 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	27	1,287,380 - 1,289,372 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	27	44,960,239 - 44,962,245 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	27	1,291,036 - 1,293,043 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	27	1,291,044 - 1,293,036 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	27	1,308,728 - 1,310,736 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	27	1,290,305 - 1,292,309 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	27	45,363,845 - 45,365,853 (+)	NCBI		UU_Cfam_GSD_1.0

Hoxc11
(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	61,967,514 - 61,970,059 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936512	11,194,876 - 11,197,316 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936512	11,194,876 - 11,197,316 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

HOXC11
(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	19,178,619 - 19,189,013 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	5	19,181,580 - 19,189,031 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	19,685,024 - 19,687,605 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LOC103238414
(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	50,076,648 - 50,087,084 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	11	50,083,893 - 50,086,060 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666037	195,964,311 - 195,965,531 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Hoxc11
(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	2,027,993 - 2,030,148 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624904	2,027,792 - 2,030,148 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Hoxc11
2 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	14
Count of miRNA genes:	12
Interacting mature miRNAs:	14
Transcripts:	ENSRNOT00000021589
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 (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	43747012	135012528	Rat
70173	Niddm19	Non-insulin dependent diabetes mellitus QTL 19	4.33	0.00005	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	7	64002457	135012528	Rat
1358891	Bp265	Blood pressure QTL 265	2.21		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	83591953	134666232	Rat
1358914	Bp266	Blood pressure QTL 266			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	83591953	134666232	Rat
1549899	Stresp8	Stress response QTL 8	4.37	0.0008	stress-related behavior trait (VT:0010451)	defensive burying duration (CMO:0001961)	7	90482196	135012528	Rat
2299163	Iddm34	Insulin dependent diabetes mellitus QTL 34	2.71		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	7	91281130	135012528	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	96670164	135012528	Rat
731174	Uae23	Urinary albumin excretion QTL 23	2.4	0.0042	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	7	104603555	135012528	Rat
2306821	Bp335	Blood pressure QTL 335		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	106571501	135012528	Rat
631663	Bw6	Body weight QTL 6	3.4		body mass (VT:0001259)	body weight (CMO:0000012)	7	111075573	134976056	Rat
1300112	Bp183	Blood pressure QTL 183	3.51		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	7	111182207	135012528	Rat
1354582	Stl11	Serum triglyceride level QTL 11	3.42		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	7	119513385	135012528	Rat

Markers in Region

Hoxc11

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	134,093,510 - 134,093,848 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	144,567,353 - 144,567,690	NCBI	Rnor6.0
Rnor_5.0	7	142,358,710 - 142,359,047	UniSTS	Rnor5.0
Celera	7	130,519,732 - 130,520,069	UniSTS

Hoxc11

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	134,091,833 - 134,091,901 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	144,565,674 - 144,565,741	NCBI	Rnor6.0
Rnor_5.0	7	142,357,031 - 142,357,098	UniSTS	Rnor5.0
Celera	7	130,518,254 - 130,518,321	UniSTS

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

	integumental system	musculoskeletal system	renal system	reproductive system	appendage
High
Medium			8	3
Low	8	11	21	16	8
Below cutoff			6	7

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001308639	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039078238	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CB741145	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000007	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000021589 ⟹ ENSRNOP00000021589

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	134,091,552 - 134,094,738 (+)	Ensembl
Rnor_6.0 Ensembl	7	144,565,392 - 144,567,580 (+)	Ensembl

RefSeq Acc Id:

NM_001308639 ⟹ NP_001295568

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	7	135,969,989 - 135,973,222 (+)	NCBI
mRatBN7.2	7	134,091,505 - 134,094,738 (+)	NCBI
Rnor_6.0	7	144,565,392 - 144,568,580 (+)	NCBI
Celera	7	130,517,972 - 130,520,959 (+)	NCBI

Sequence:

show sequence

ATGTTTAACTCGGTCAACCTGGGCAACTTCTGCTCGCCTTCGCGCAAGGAGAGGGGCGCTGACT
TCGGCGAGCGAGGGAGCTGCACCTCCAACCTCTATCTGCCCAGTTGCACTTACTACGTGCCCGA
GTTCTCCACCGTCTCCTCCTTCCTGCCCCAGGCCCCCTCTCGTCAGATTTCTTATCCCTACTCA
GCCCAAGTGCCCCCGGTCCGGGAGGTCTCCTACGGCCTGGAACCGTCCGGGAAGTGGCACCATC
GGAACAGCTACTCGTCTTGTTATGCGGCGGCCGACGAGCTTATGCACCGGGAGTGCCTGCCTCC
TTCCACAGTCACTGAGATCCTCATGAAAAATGAAGGCTCCTACGGCGGCCACCACCACCCCAGC
GCCCCGCACGCGGCACCCGCCGGTTTCTACTCCTCAGTGAACAAGAACAGCGTCTTGCCCCAAG
CCTTCGACCGCTTCTTCGACAACGCCTACTGCGGTGGCGGAGATGCACCCGCCGAGCCCCCCTG
CTCCGGCAAGGGCGAGGCCAAGGGGGAGCCTGAGGCGCCCCCCGCCTCGGGACTTGCGTCCCGG
GCAGAGGCCGGTGCTGAGGCCGAGGCCGAGGAGGAGAACACGAATCCCAGCTCGTCCGGTTCTT
CCCATTCGGCGACCAAGGAGCCGGCCAAGGGAGCCGCCCCCAACGCCCCCCGAACCCGCAAGAA
GCGCTGCCCTTATTCGAAATTCCAGATCCGGGAACTGGAGCGAGAGTTTTTCTTCAACGTGTAC
ATCAACAAAGAGAAGCGGCTGCAGCTGTCCCGCATGCTGAACCTGACAGACCGACAAGTGAAAA
TTTGGTTTCAGAACAGAAGAATGAAAGAAAAAAAACTGAGCAGAGACCGGCTGCAGTATTTTTC
AGGAAATCCGCTGCTGTAACTGCAGACTTGACCCTTTGGGGTGGGAGGGAGGGAAAGCGGGAAA
TTTATTTTATTTTATTTTATTTTTAATTTTCTAACTCTTTTTTTTCCGCGGGTGGAAAACTGGA
CTGTGGCCAGGGCTGGCCCCCCACTGCCGTTACTGGCACTTCCTTCTAGAACTTCCTTGGCCTC
GAGTCTAATTCACTGTAGGGGACAGAGACCCGGCCTGGAAAAAGGGGTGAGGGAAGTGTCTGAC
CCGTGGTTAGTGGACCCTGTTGGCGCCAAGGCCCCAAGACTGTTTATTTAAAAGAAAATACACC
TTGCAACAAAACCTTGCTGCTCCGATTCGGTGAGAGGAGGGGCGGGCACAGTGGGCGCCAGAGC
CGAACAATCCTTGAACTCAAGCTTTCCCTAGCCCAAGTGAAAAGATCCACTGAGCCACCTTGTC
TGCGAGACCTCCCAGGCTCCCCGCCCCCACCCTACCATGCCCCTCGGTTAGGGGCCAGCTAAAT
GTGATCCTGCCTTGCTGTGAAATTCCTGTACGTTTGACCTGGTGTTAGGTGTGCAAAGTCCAAG
TCCTACCTCCGTCTGCGCCTGGCCCCGCCTGAGCCTAGCTGTTCTCACCCTAAATATGTAGACC
CTTCTTTTGAAAACTCCTACCTGGTGCGTTGAGTTGTCTGAACCTTTCCCTAGGAAGTGTCTTG
CCCCCACCCCTGAGGATTTATTGCTAGTCTATGCAGTTCTTACCTCTTTTAAAAAGAAACAGGA
TTGAGGTAGAAGGGGTATGGGAAGATGGGGTTGGACACCTCCCTCTAGCTGGGGTCTGCGTTTA
TGTAAATATTTTTCATAAGCCTCTCTACCTGGAGAGGAAGGGGGAGGTTGAGCTGGAGTGAGAT
TCTAATCACTCATCCATGTGCGTGAGTGCGTGTGTATGTGTGCAATCCCCACCCTACTTCTGTC
TCTGAGGGATTGTGTGAATTTTTTTGGTGGCAAATAAAGATATTTCACTCTGTTCAATA

hide sequence

RefSeq Acc Id:

XM_039078238 ⟹ XP_038934166

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	7	135,969,707 - 135,973,220 (+)	NCBI
mRatBN7.2	7	134,091,224 - 134,094,736 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001295568	(Get FASTA)	NCBI Sequence Viewer
	XP_038934166	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000021589
	ENSRNOP00000021589.4

RefSeq Acc Id:

NP_001295568 ⟸ NM_001308639

- UniProtKB:

D4ACL0 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MFNSVNLGNFCSPSRKERGADFGERGSCTSNLYLPSCTYYVPEFSTVSSFLPQAPSRQISYPYS
AQVPPVREVSYGLEPSGKWHHRNSYSSCYAAADELMHRECLPPSTVTEILMKNEGSYGGHHHPS
APHAAPAGFYSSVNKNSVLPQAFDRFFDNAYCGGGDAPAEPPCSGKGEAKGEPEAPPASGLASR
AEAGAEAEAEEENTNPSSSGSSHSATKEPAKGAAPNAPRTRKKRCPYSKFQIRELEREFFFNVY
INKEKRLQLSRMLNLTDRQVKIWFQNRRMKEKKLSRDRLQYFSGNPLL

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RefSeq Acc Id:

ENSRNOP00000021589 ⟸ ENSRNOT00000021589

RefSeq Acc Id:	XP_038934166 ⟸ XM_039078238
- Peptide Label:	isoform X1
- UniProtKB:	A6KCY4 (UniProtKB/TrEMBL)

Protein Domains

DUF3528 Homeobox

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D4ACL0-F1-model_v2	AlphaFold	D4ACL0	1-304	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:6489991	AgrOrtholog
BioCyc Gene	G2FUF-31920	BioCyc
Ensembl Genes	ENSRNOG00000016141	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000021589	ENTREZGENE
	ENSRNOT00000021589.5	UniProtKB/TrEMBL
Gene3D-CATH	Homeodomain-like	UniProtKB/TrEMBL
InterPro	DUF3528	UniProtKB/TrEMBL
	Homeobox_CS	UniProtKB/TrEMBL
	Homeobox_metazoa	UniProtKB/TrEMBL
	Homeodomain	UniProtKB/TrEMBL
	Homeodomain-like	UniProtKB/TrEMBL
KEGG Report	rno:100911859	UniProtKB/TrEMBL
NCBI Gene	LOC100911859	ENTREZGENE
PANTHER	HOMEOBOX PROTEIN HOX-A11-RELATED	UniProtKB/TrEMBL
	HOMEOBOX PROTEIN HOX-C11	UniProtKB/TrEMBL
Pfam	DUF3528	UniProtKB/TrEMBL
	Homeobox	UniProtKB/TrEMBL
PhenoGen	Hoxc11	PhenoGen
PRINTS	HOMEOBOX	UniProtKB/TrEMBL
PROSITE	HOMEOBOX_1	UniProtKB/TrEMBL
	HOMEOBOX_2	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000016141	RatGTEx
SMART	HOX	UniProtKB/TrEMBL
Superfamily-SCOP	Homeodomain_like	UniProtKB/TrEMBL
UniProt	A6KCY4	ENTREZGENE, UniProtKB/TrEMBL
	D4ACL0	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2015-05-18	Hoxc11	homeobox C11	Hoxc11	homeobox C11	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2015-05-18	Hoxc11	homeobox C11	LOC100911859	homeobox protein Hox-C11-like	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-07-05	LOC100911859	homeobox protein Hox-C11-like			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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Imported Disease Annotations - ClinVar