Hoxc4 (homeobox C4) - Rat Genome Database

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Gene: Hoxc4 (homeobox C4) Heterocephalus glaber
Analyze
Symbol: Hoxc4
Name: homeobox C4
RGD ID: 18922022
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); cartilage development (ortholog); cellular response to glial cell derived neurotrophic factor (ortholog); ASSOCIATED WITH esophageal atresia (ortholog); Neurodevelopmental Disorders (ortholog); FOUND IN nucleoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: Homeobox protein Hox-C4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249042,092,055 - 2,109,979 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249042,104,504 - 2,109,729 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:21993625   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Hoxc4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249042,092,055 - 2,109,979 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249042,104,504 - 2,109,729 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
HOXC4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381254,016,888 - 54,056,030 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1254,016,931 - 54,056,030 (+)EnsemblGRCh38hg38GRCh38
GRCh371254,410,672 - 54,449,814 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361252,696,909 - 52,736,081 (+)NCBINCBI36Build 36hg18NCBI36
Build 341252,733,927 - 52,735,630NCBI
Celera1254,060,259 - 54,098,621 (+)NCBICelera
Cytogenetic Map12q13.13NCBI
HuRef1251,448,399 - 51,487,572 (+)NCBIHuRef
CHM1_11254,377,346 - 54,416,498 (+)NCBICHM1_1
T2T-CHM13v2.01253,982,461 - 54,021,597 (+)NCBIT2T-CHM13v2.0
Hoxc4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915102,926,531 - 102,945,281 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl15102,927,366 - 102,945,278 (+)EnsemblGRCm39 Ensembl
GRCm3815103,018,097 - 103,036,856 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15103,018,934 - 103,036,852 (+)EnsemblGRCm38mm10GRCm38
MGSCv3715102,864,826 - 102,867,283 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3615102,862,429 - 102,864,631 (+)NCBIMGSCv36mm8
Celera15105,195,304 - 105,197,761 (+)NCBICelera
Cytogenetic Map15F3NCBI
cM Map1558.08NCBI
Hoxc4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87136,049,059 - 136,051,601 (+)NCBIGRCr8
mRatBN7.27134,135,279 - 134,173,133 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7134,170,591 - 134,173,133 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7135,926,005 - 135,928,548 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07138,155,381 - 138,157,924 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07138,141,262 - 138,143,805 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07144,646,605 - 144,652,589 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7144,647,587 - 144,650,129 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07142,378,916 - 142,441,486 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47141,796,934 - 141,799,476 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera7130,596,539 - 130,599,081 (+)NCBICelera
Cytogenetic Map7q36NCBI
Hoxc4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554581,309,119 - 1,313,344 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554581,251,601 - 1,313,291 (+)NCBIChiLan1.0ChiLan1.0
HOXC4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21040,130,013 - 40,169,600 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11240,126,781 - 40,166,801 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01234,699,357 - 34,702,368 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11235,487,619 - 35,489,853 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1235,487,619 - 35,526,627 (-)Ensemblpanpan1.1panPan2
HOXC4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1271,209,510 - 1,246,873 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl271,172,229 - 1,226,572 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2744,981,922 - 45,041,680 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0271,211,609 - 1,271,363 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl271,211,769 - 1,248,693 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1271,229,321 - 1,289,063 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0271,210,851 - 1,270,586 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02745,385,528 - 45,445,321 (+)NCBIUU_Cfam_GSD_1.0
Hoxc4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494561,887,299 - 61,904,863 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493651211,274,416 - 11,277,531 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493651211,238,905 - 11,277,531 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HOXC4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl519,265,081 - 19,268,257 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1519,250,411 - 19,268,267 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2520,151,903 - 20,169,649 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HOXC4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11150,127,573 - 50,167,077 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1150,164,980 - 50,166,267 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037195,875,175 - 195,914,587 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000003713   ⟹   ENSHGLP00000003658
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046249042,092,055 - 2,109,979 (+)Ensembl
Ensembl Acc Id: ENSHGLT00000003714   ⟹   ENSHGLP00000003659
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046249042,092,055 - 2,109,979 (+)Ensembl
Ensembl Acc Id: ENSHGLT00000003715   ⟹   ENSHGLP00000003660
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046249042,106,364 - 2,109,979 (+)Ensembl
RefSeq Acc Id: XM_004872783   ⟹   XP_004872840
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046249042,104,504 - 2,109,729 (+)NCBI
RefSeq Acc Id: XM_021250616   ⟹   XP_021106275
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046249042,104,504 - 2,109,729 (+)NCBI
RefSeq Acc Id: XM_021250617   ⟹   XP_021106276
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046249042,104,504 - 2,109,729 (+)NCBI
RefSeq Acc Id: XM_021250618   ⟹   XP_021106277
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046249042,104,504 - 2,109,729 (+)NCBI
Protein Sequences
Protein RefSeqs XP_004872840 (Get FASTA)   NCBI Sequence Viewer  
  XP_021106275 (Get FASTA)   NCBI Sequence Viewer  
  XP_021106276 (Get FASTA)   NCBI Sequence Viewer  
  XP_021106277 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EHB09051 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000003658
  ENSHGLP00000003660
GenBank Protein JAN99120 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_004872840   ⟸   XM_004872783
- UniProtKB: G5BIE0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021106275   ⟸   XM_021250616
- UniProtKB: G5BIE0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021106277   ⟸   XM_021250618
- UniProtKB: G5BIE0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021106276   ⟸   XM_021250617
- UniProtKB: G5BIE0 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000003658   ⟸   ENSHGLT00000003713
Ensembl Acc Id: ENSHGLP00000003659   ⟸   ENSHGLT00000003714
Ensembl Acc Id: ENSHGLP00000003660   ⟸   ENSHGLT00000003715


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000002699 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000003713 ENTREZGENE
  ENSHGLT00000003715 ENTREZGENE
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Antp_homeobox_Deformed_sf UniProtKB/TrEMBL
  Homeobox-like_sf UniProtKB/TrEMBL
  Homeobox_antennapedia UniProtKB/TrEMBL
  Homeobox_Antennapedia_CS UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeobox_dom UniProtKB/TrEMBL
  Homeobox_metazoa UniProtKB/TrEMBL
KEGG Report hgl:101709280 UniProtKB/TrEMBL
NCBI Gene Hoxc4 ENTREZGENE
PANTHER HOMEOBOX PROTEIN HOX-C4 UniProtKB/TrEMBL
  HOMEOTIC PROTEIN DEFORMED UniProtKB/TrEMBL
Pfam Homeodomain UniProtKB/TrEMBL
PRINTS ANTENNAPEDIA UniProtKB/TrEMBL
  HOMEOBOX UniProtKB/TrEMBL
PROSITE ANTENNAPEDIA UniProtKB/TrEMBL
  HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/TrEMBL
UniProt G5BIE0 ENTREZGENE, UniProtKB/TrEMBL