Irx4 (iroquois homeobox 4) - Rat Genome Database

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Gene: Irx4 (iroquois homeobox 4) Heterocephalus glaber
Analyze
Symbol: Irx4
Name: iroquois homeobox 4
RGD ID: 18913151
Description: ENCODES a protein that exhibits DNA binding (inferred); DNA-binding transcription factor activity, RNA polymerase II-specific (inferred); RNA polymerase II cis-regulatory region sequence-specific DNA binding (inferred); INVOLVED IN establishment of animal organ orientation (ortholog); heart development (ortholog); negative regulation of transcription by RNA polymerase II (ortholog); ASSOCIATED WITH adenoid cystic carcinoma (ortholog); autosomal dominant dyskeratosis congenita 2 (ortholog); Cardiomegaly (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: iroquois-class homeodomain protein IRX-4
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_004624751913,691 - 916,842 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624751913,127 - 916,583 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Irx4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624751913,691 - 916,842 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624751913,127 - 916,583 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
IRX4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3851,877,413 - 1,887,179 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl51,877,413 - 1,887,236 (-)EnsemblGRCh38hg38GRCh38
GRCh3751,877,527 - 1,887,293 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3651,930,549 - 1,935,880 (-)NCBINCBI36Build 36hg18NCBI36
Build 3451,930,548 - 1,935,880NCBI
Celera51,914,716 - 1,920,055 (-)NCBICelera
Cytogenetic Map5p15.33NCBI
HuRef51,859,971 - 1,869,709 (-)NCBIHuRef
CHM1_151,877,411 - 1,887,153 (-)NCBICHM1_1
T2T-CHM13v2.051,794,071 - 1,803,829 (-)NCBIT2T-CHM13v2.0
Irx4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391373,407,708 - 73,417,741 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1373,408,598 - 73,417,727 (+)EnsemblGRCm39 Ensembl
GRCm381373,259,589 - 73,269,622 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1373,260,479 - 73,269,608 (+)EnsemblGRCm38mm10GRCm38
MGSCv371373,397,945 - 73,407,068 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361373,726,801 - 73,735,598 (+)NCBIMGSCv36mm8
Celera1375,588,186 - 75,597,409 (+)NCBICelera
Cytogenetic Map13C1NCBI
cM Map1339.64NCBI
Irx4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8131,859,101 - 31,868,089 (-)NCBIGRCr8
mRatBN7.2130,030,561 - 30,039,549 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl130,030,561 - 30,039,549 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx129,832,663 - 29,841,651 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0135,831,585 - 35,840,573 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0130,031,431 - 30,040,421 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0132,634,774 - 32,645,151 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl132,634,796 - 32,643,771 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0134,059,592 - 34,069,967 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.417106,225 - 116,183 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.117106,237 - 115,891 (-)NCBI
Celera128,670,547 - 28,679,535 (-)NCBICelera
Cytogenetic Map1p11NCBI
Irx4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955504937,621 - 940,787 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955504937,152 - 940,842 (-)NCBIChiLan1.0ChiLan1.0
IRX4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v242,149,654 - 2,159,181 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15303,263 - 312,790 (-)NCBINHGRI_mPanPan1
PanPan1.1 Ensembl51,929,977 - 1,939,622 (-)Ensemblpanpan1.1panPan2
IRX4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13410,926,042 - 10,929,142 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3410,923,097 - 10,929,164 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3415,436,562 - 15,441,344 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03410,827,001 - 10,831,785 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3410,825,113 - 10,831,773 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13410,878,209 - 10,882,991 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03410,857,416 - 10,862,195 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03411,068,071 - 11,072,857 (+)NCBIUU_Cfam_GSD_1.0
Irx4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213243,929,469 - 243,932,853 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493681590,942 - 94,147 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493681590,707 - 94,138 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IRX4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1678,937,566 - 78,945,269 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11678,940,033 - 78,944,855 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21685,558,917 - 85,563,495 (+)NCBISscrofa10.2Sscrofa10.2susScr3
IRX4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.141,712,382 - 1,723,284 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl41,718,737 - 1,723,403 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606427,033,339 - 27,043,099 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_013072345 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AHKG01031273 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSHGLT00000010494   ⟹   ENSHGLP00000010379
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_004624751913,691 - 916,842 (-)Ensembl
RefSeq Acc Id: XM_013072345   ⟹   XP_012927799
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624751913,127 - 916,583 (-)NCBI
Protein Sequences
Protein RefSeqs XP_012927799 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_012927799   ⟸   XM_013072345
- UniProtKB: G5BPI6 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000010379   ⟸   ENSHGLT00000010494


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000007449 Ensembl
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Homeobox-like_sf UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeobox_dom UniProtKB/TrEMBL
  Homeobox_KN_domain UniProtKB/TrEMBL
  Iroquois_homeo UniProtKB/TrEMBL
NCBI Gene Irx4 ENTREZGENE
PANTHER IROQUOIS-CLASS HOMEODOMAIN PROTEIN IRX UniProtKB/TrEMBL
  IROQUOIS-CLASS HOMEODOMAIN PROTEIN IRX-4 UniProtKB/TrEMBL
Pfam Homeobox_KN UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
SMART HOX UniProtKB/TrEMBL
  IRO UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain-like UniProtKB/TrEMBL
UniProt G5BPI6 ENTREZGENE, UniProtKB/TrEMBL