Higd1a (HIG1 hypoxia inducible domain family, member 1A) - Rat Genome Database

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Gene: Higd1a (HIG1 hypoxia inducible domain family, member 1A) Rattus norvegicus
Analyze
Symbol: Higd1a
Name: HIG1 hypoxia inducible domain family, member 1A
RGD ID: 620215
Description: Predicted to be involved in mitochondrial respirasome assembly and negative regulation of apoptotic process. Predicted to act upstream of or within cellular response to glucose starvation; cellular response to hypoxia; and negative regulation of release of cytochrome c from mitochondria. Predicted to be located in mitochondrial inner membrane and nucleus. Predicted to be active in mitochondrion. Orthologous to human HIGD1A (HIG1 hypoxia inducible domain family member 1A); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Hig1; HIG1 domain family member 1A; HIG1 domain family member 1A, mitochondrial; HIG1 domain family, member 1A; Hig1-pending; hypoxia induced gene 1; hypoxia-inducible gene 1 protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88130,391,658 - 130,400,888 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8130,391,661 - 130,400,888 (-)EnsemblGRCr8
mRatBN7.28121,514,152 - 121,523,382 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8121,514,156 - 121,523,443 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx8127,105,945 - 127,115,180 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08125,305,019 - 125,314,252 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08123,134,248 - 123,143,486 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.08130,482,492 - 130,491,888 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8130,482,493 - 130,491,998 (-)Ensemblrn6Rnor6.0
Rnor_5.08129,660,254 - 129,669,650 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48127,076,654 - 127,085,885 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera8120,638,935 - 120,648,165 (-)NCBICelera
RGSC_v3.18127,096,390 - 127,105,621 (+)NCBI
Cytogenetic Map8q32NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-diaminotoluene  (ISO)
2,4-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5-triiodo-L-thyronine  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
aflatoxin B1  (ISO)
alpha-Zearalanol  (EXP)
ammonium chloride  (EXP)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
beta-lapachone  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bufotalin  (ISO)
butanal  (ISO)
Butylbenzyl phthalate  (EXP)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
chloropicrin  (ISO)
chlorpyrifos  (ISO)
clozapine  (ISO)
cobalt dichloride  (EXP)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
Dibutyl phosphate  (ISO)
dicrotophos  (ISO)
dioxygen  (ISO)
diuron  (EXP)
doxorubicin  (ISO)
epoxiconazole  (ISO)
finasteride  (EXP)
fluoranthene  (ISO)
flutamide  (EXP)
gentamycin  (EXP)
glafenine  (EXP)
haloperidol  (ISO)
ivermectin  (ISO)
methapyrilene  (EXP)
methotrexate  (ISO)
methylmercury chloride  (ISO)
mifepristone  (ISO)
nefazodone  (EXP)
nickel dichloride  (EXP,ISO)
nimesulide  (EXP)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (EXP,ISO)
perfluorooctanoic acid  (EXP)
phenylephrine  (EXP)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
quercetin  (EXP)
rac-lactic acid  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sulindac  (EXP)
tamoxifen  (ISO)
Tesaglitazar  (EXP)
tetrachloromethane  (ISO)
thiram  (ISO)
tolcapone  (EXP)
topotecan  (EXP)
triclosan  (ISO)
triptonide  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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. cDNA microarray analysis of changes in gene expression induced by neuronal hypoxia in vitro. Jin K, etal., Neurochem Res 2002 Oct;27(10):1105-12.
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Information Derived from GenBank Report RGD, Sept. 2003
Additional References at PubMed
PMID:12477932   PMID:15489334   PMID:15968589   PMID:16815968   PMID:18614015   PMID:21856340   PMID:22350989   PMID:23646141   PMID:25683712   PMID:30302618  


Genomics

Comparative Map Data
Higd1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88130,391,658 - 130,400,888 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8130,391,661 - 130,400,888 (-)EnsemblGRCr8
mRatBN7.28121,514,152 - 121,523,382 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8121,514,156 - 121,523,443 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx8127,105,945 - 127,115,180 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08125,305,019 - 125,314,252 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08123,134,248 - 123,143,486 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.08130,482,492 - 130,491,888 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8130,482,493 - 130,491,998 (-)Ensemblrn6Rnor6.0
Rnor_5.08129,660,254 - 129,669,650 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48127,076,654 - 127,085,885 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera8120,638,935 - 120,648,165 (-)NCBICelera
RGSC_v3.18127,096,390 - 127,105,621 (+)NCBI
Cytogenetic Map8q32NCBI
HIGD1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38342,782,908 - 42,804,490 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl342,782,908 - 42,804,527 (-)Ensemblhg38GRCh38
GRCh37342,824,400 - 42,845,982 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36342,799,404 - 42,821,031 (-)NCBIBuild 36Build 36hg18NCBI36
Celera342,764,774 - 42,783,944 (-)NCBICelera
Cytogenetic Map3p22.1NCBI
HuRef342,870,039 - 42,889,209 (-)NCBIHuRef
CHM1_1342,775,554 - 42,796,009 (-)NCBICHM1_1
T2T-CHM13v2.0342,800,951 - 42,820,082 (-)NCBIT2T-CHM13v2.0
Higd1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399121,677,623 - 121,686,862 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9121,677,629 - 121,687,428 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm389121,848,557 - 121,857,796 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9121,848,563 - 121,858,362 (-)Ensemblmm10GRCm38
MGSCv379121,757,678 - 121,767,118 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv369121,697,261 - 121,706,324 (-)NCBIMGSCv36mm8
Celera9122,323,317 - 122,332,728 (-)NCBICelera
Cytogenetic Map9F4NCBI
cM Map972.67NCBI
Higd1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542028,045,410 - 28,049,758 (+)Ensembl
ChiLan1.0NW_00495542028,040,320 - 28,050,723 (+)NCBIChiLan1.0ChiLan1.0
HIGD1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2242,749,904 - 42,767,683 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1342,754,666 - 42,772,445 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0342,692,771 - 42,710,654 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1343,754,154 - 43,773,553 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl343,754,154 - 43,773,460 (-)EnsemblpanPan2panpan1.1
HIGD1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12311,893,117 - 11,903,934 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2311,869,318 - 11,878,310 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02312,184,523 - 12,193,595 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2312,183,390 - 12,193,459 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12311,986,828 - 11,995,831 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02312,129,102 - 12,138,150 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02312,132,754 - 12,141,746 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Higd1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118199,978,953 - 199,989,050 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366952,330,465 - 2,341,681 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366952,330,939 - 2,341,387 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HIGD1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1326,278,208 - 26,286,202 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11326,278,202 - 26,286,334 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21328,946,329 - 28,954,443 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HIGD1A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1224,239,323 - 4,255,547 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666041162,946,069 - 162,961,671 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Higd1a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473076,944,785 - 76,954,873 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Higd1a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v18113,005,097 - 113,013,829 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:153
Count of miRNA genes:118
Interacting mature miRNAs:137
Transcripts:ENSRNOT00000064114
Prediction methods:Miranda, 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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)8102413464132782436Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)8105462581132782436Rat
634332Pia18Pristane induced arthritis QTL 184joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)884192326132782436Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)879394435132782436Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)891340911131690273Rat

Markers in Region
RH132084  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28121,514,180 - 121,514,330 (+)MAPPERmRatBN7.2
Rnor_6.08130,482,521 - 130,482,670NCBIRnor6.0
Rnor_5.08129,660,283 - 129,660,432UniSTSRnor5.0
RGSC_v3.48127,085,707 - 127,085,856UniSTSRGSC3.4
Celera8120,638,964 - 120,639,113UniSTS
RH 3.4 Map81255.9UniSTS
Cytogenetic Map8q32UniSTS
AW049839  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28121,518,616 - 121,518,702 (+)MAPPERmRatBN7.2
mRatBN7.2X68,228,991 - 68,229,077 (+)MAPPERmRatBN7.2
Rnor_6.0X74,057,679 - 74,057,764NCBIRnor6.0
Rnor_6.08130,486,957 - 130,487,042NCBIRnor6.0
Rnor_5.08129,664,719 - 129,664,804UniSTSRnor5.0
Rnor_5.0X74,862,526 - 74,862,611UniSTSRnor5.0
RGSC_v3.4X91,184,148 - 91,184,233UniSTSRGSC3.4
RGSC_v3.48127,081,334 - 127,081,419UniSTSRGSC3.4
Celera8120,643,400 - 120,643,485UniSTS
CeleraX69,597,281 - 69,597,366UniSTS
Cytogenetic Map8q32UniSTS


Expression

RNA-SEQ Expression

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
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000064114   ⟹   ENSRNOP00000061362
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8130,391,661 - 130,400,888 (-)Ensembl
mRatBN7.2 Ensembl8121,514,156 - 121,523,443 (-)Ensembl
Rnor_6.0 Ensembl8130,482,493 - 130,491,998 (-)Ensembl
RefSeq Acc Id: NM_080902   ⟹   NP_543178
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88130,391,658 - 130,400,888 (-)NCBI
mRatBN7.28121,514,152 - 121,523,382 (-)NCBI
Rnor_6.08130,482,492 - 130,491,888 (-)NCBI
Rnor_5.08129,660,254 - 129,669,650 (-)NCBI
RGSC_v3.48127,076,654 - 127,085,885 (+)RGD
Celera8120,638,935 - 120,648,165 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_543178 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH59118 (Get FASTA)   NCBI Sequence Viewer  
  AAL38979 (Get FASTA)   NCBI Sequence Viewer  
  EDL76814 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000061362
  ENSRNOP00000061362.1
GenBank Protein Q8VH49 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_543178   ⟸   NM_080902
- UniProtKB: Q6PCV5 (UniProtKB/Swiss-Prot),   Q8VH49 (UniProtKB/Swiss-Prot),   A6I463 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000061362   ⟸   ENSRNOT00000064114
Protein Domains
HIG1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8VH49-F1-model_v2 AlphaFold Q8VH49 1-93 view protein structure

Transcriptome

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

Promoters
RGD ID:13696392
Promoter ID:EPDNEW_R6917
Type:multiple initiation site
Name:Higd1a_1
Description:HIG1 hypoxia inducible domain family, member 1A
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08130,491,885 - 130,491,945EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620215 AgrOrtholog
BioCyc Gene G2FUF-28677 BioCyc
Ensembl Genes ENSRNOG00000019428 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000064114 ENTREZGENE
  ENSRNOT00000064114.4 UniProtKB/Swiss-Prot
Gene3D-CATH 6.10.140.1320 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:6890532 IMAGE-MGC_LOAD
InterPro Hypoxia_induced_domain UniProtKB/Swiss-Prot
  RCF1 UniProtKB/Swiss-Prot
KEGG Report rno:140937 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72714 IMAGE-MGC_LOAD
NCBI Gene 140937 ENTREZGENE
PANTHER HIG1 DOMAIN FAMILY MEMBER 1A, MITOCHONDRIAL UniProtKB/Swiss-Prot
  HYPOXIA-INDUCBILE GENE 1 HIG1 -RELATED UniProtKB/Swiss-Prot
Pfam HIG_1_N UniProtKB/Swiss-Prot
PhenoGen Higd1a PhenoGen
PROSITE HIG1 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000019428 RatGTEx
UniProt A6I463 ENTREZGENE, UniProtKB/TrEMBL
  HIG1A_RAT UniProtKB/Swiss-Prot
  Q6PCV5 ENTREZGENE
  Q8VH49 ENTREZGENE
UniProt Secondary Q6PCV5 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-05-18 Higd1a  HIG1 hypoxia inducible domain family, member 1A  Higd1a  HIG1 domain family, member 1A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-12-20 Higd1a  HIG1 domain family, member 1A  Hig1  hypoxia induced gene 1  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2002-08-07 Hig1  hypoxia induced gene 1      Symbol and Name status set to provisional 70820 PROVISIONAL