HOXC11 (homeobox C11) - Rat Genome Database

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Gene: HOXC11 (homeobox C11) Sus scrofa
Analyze
Symbol: HOXC11
Name: homeobox C11
RGD ID: 14130460
Description: ENCODES a protein that exhibits DNA binding (inferred); DNA-binding transcription activator activity, RNA polymerase II-specific (inferred); DNA-binding transcription factor activity, RNA polymerase II-specific (inferred); INVOLVED IN anterior/posterior pattern specification (ortholog); embryonic digit morphogenesis (ortholog); embryonic skeletal joint morphogenesis (ortholog); ASSOCIATED WITH genetic disease (ortholog); Neurodevelopmental Disorders (ortholog); FOUND IN cytosol (inferred); nucleoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: homeobox protein Hox-C11
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl519,178,619 - 19,189,013 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1519,181,580 - 19,189,031 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2519,685,024 - 19,687,605 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
HOXC11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl519,178,619 - 19,189,013 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1519,181,580 - 19,189,031 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2519,685,024 - 19,687,605 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HOXC11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381253,973,126 - 53,977,643 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1253,973,126 - 53,977,643 (+)EnsemblGRCh38hg38GRCh38
GRCh371254,366,910 - 54,371,427 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361252,653,177 - 52,656,470 (+)NCBINCBI36Build 36hg18NCBI36
Build 341252,653,195 - 52,656,468NCBI
Celera1254,016,511 - 54,019,822 (+)NCBICelera
Cytogenetic Map12q13.13NCBI
HuRef1251,404,138 - 51,407,449 (+)NCBIHuRef
CHM1_11254,333,599 - 54,336,910 (+)NCBICHM1_1
T2T-CHM13v2.01253,938,618 - 53,943,153 (+)NCBIT2T-CHM13v2.0
Hoxc11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915102,862,961 - 102,865,136 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl15102,862,862 - 102,866,143 (+)EnsemblGRCm39 Ensembl
GRCm3815102,954,526 - 102,956,701 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15102,954,427 - 102,957,708 (+)EnsemblGRCm38mm10GRCm38
MGSCv3715102,784,957 - 102,787,132 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3615102,782,560 - 102,784,735 (+)NCBIMGSCv36mm8
Celera15105,115,456 - 105,117,632 (+)NCBICelera
Cytogenetic Map15F3NCBI
cM Map1558.02NCBI
Hoxc11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87135,969,707 - 135,973,222 (+)NCBIGRCr8
mRatBN7.27134,091,224 - 134,094,738 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7134,091,552 - 134,094,738 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7135,846,891 - 135,850,122 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07138,076,265 - 138,079,496 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07138,062,254 - 138,065,485 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07144,565,392 - 144,568,580 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7144,565,392 - 144,567,580 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07142,356,703 - 142,358,942 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera7130,517,972 - 130,520,959 (+)NCBICelera
Cytogenetic Map7q36NCBI
Hoxc11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554581,231,445 - 1,234,798 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554581,231,625 - 1,234,785 (+)NCBIChiLan1.0ChiLan1.0
HOXC11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21040,209,471 - 40,213,236 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11240,201,196 - 40,209,548 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01234,777,790 - 34,782,104 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11235,567,093 - 35,570,396 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1235,567,093 - 35,570,396 (-)Ensemblpanpan1.1panPan2
HOXC11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1271,287,326 - 1,289,577 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl271,287,380 - 1,289,372 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2744,960,239 - 44,962,245 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0271,291,036 - 1,293,043 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl271,291,044 - 1,293,036 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1271,308,728 - 1,310,736 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0271,290,305 - 1,292,309 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02745,363,845 - 45,365,853 (+)NCBIUU_Cfam_GSD_1.0
Hoxc11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494561,967,514 - 61,970,059 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493651211,194,876 - 11,197,316 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493651211,194,876 - 11,197,316 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC103238414
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11150,076,648 - 50,087,084 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1150,083,893 - 50,086,060 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037195,964,311 - 195,965,531 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hoxc11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249042,027,993 - 2,030,148 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249042,027,792 - 2,030,148 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in HOXC11
113 total Variants

Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_021091724 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AEMK02000028 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSSCT00000030009   ⟹   ENSSSCP00000025770
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl519,178,619 - 19,189,013 (+)Ensembl
RefSeq Acc Id: XM_021091724   ⟹   XP_020947383
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1519,181,580 - 19,189,031 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020947383   ⟸   XM_021091724
- UniProtKB: I3LNU5 (UniProtKB/TrEMBL),   A0A4X1W4U9 (UniProtKB/TrEMBL),   A0A8D1FDL8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000025770   ⟸   ENSSSCT00000030009
Protein Domains
Homeobox


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000028104 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015038441 UniProtKB/TrEMBL
  ENSSSCG00030039206 UniProtKB/TrEMBL
  ENSSSCG00035016149 UniProtKB/TrEMBL
  ENSSSCG00040059709 UniProtKB/TrEMBL
  ENSSSCG00045000683 UniProtKB/TrEMBL
  ENSSSCG00050002676 UniProtKB/TrEMBL
  ENSSSCG00055014513 UniProtKB/TrEMBL
  ENSSSCG00060059920 UniProtKB/TrEMBL
  ENSSSCG00065017348 UniProtKB/TrEMBL
  ENSSSCG00070030002 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000030009 ENTREZGENE
  ENSSSCT00000030009.4 UniProtKB/TrEMBL
  ENSSSCT00015051132.1 UniProtKB/TrEMBL
  ENSSSCT00030054589.1 UniProtKB/TrEMBL
  ENSSSCT00035020613.1 UniProtKB/TrEMBL
  ENSSSCT00040081168.1 UniProtKB/TrEMBL
  ENSSSCT00045000964.1 UniProtKB/TrEMBL
  ENSSSCT00050003379.1 UniProtKB/TrEMBL
  ENSSSCT00055028626.1 UniProtKB/TrEMBL
  ENSSSCT00060081746.1 UniProtKB/TrEMBL
  ENSSSCT00065023049.1 UniProtKB/TrEMBL
  ENSSSCT00070060299.1 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro DUF3528 UniProtKB/TrEMBL
  Homeobox-like_sf UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeobox_dom UniProtKB/TrEMBL
  Homeobox_metazoa UniProtKB/TrEMBL
NCBI Gene HOXC11 ENTREZGENE
PANTHER HOMEOBOX PROTEIN HOX-A11-RELATED UniProtKB/TrEMBL
  HOMEOBOX PROTEIN HOX-C11 UniProtKB/TrEMBL
Pfam DUF3528 UniProtKB/TrEMBL
  Homeodomain UniProtKB/TrEMBL
PRINTS HOMEOBOX UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/TrEMBL
UniProt A0A4X1W4U9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1FDL8 ENTREZGENE, UniProtKB/TrEMBL
  I3LNU5 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:103287 ENTREZGENE