HMGA1 (high mobility group AT-hook 1) - Rat Genome Database

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Gene: HMGA1 (high mobility group AT-hook 1) Chlorocebus sabaeus
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Symbol: HMGA1
Name: high mobility group AT-hook 1
RGD ID: 18570121
Description: ENCODES a protein that exhibits 5'-deoxyribose-5-phosphate lyase activity (ortholog); chromatin binding (ortholog); cis-regulatory region sequence-specific DNA binding (ortholog); INVOLVED IN autophagy (ortholog); B cell differentiation (ortholog); base-excision repair (ortholog); PARTICIPATES IN interleukin-4 signaling pathway; ASSOCIATED WITH genetic disease (ortholog); hyperglycemia (ortholog); Insulin Resistance (ortholog); FOUND IN cytoplasm (ortholog); male germ cell nucleus (ortholog); mitochondrion (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: high mobility group protein HMG-I/HMG-Y
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11737,848,110 - 37,857,835 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1737,849,412 - 37,853,880 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604434,150,889 - 34,160,977 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
HMGA1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11737,848,110 - 37,857,835 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1737,849,412 - 37,853,880 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604434,150,889 - 34,160,977 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
HMGA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38634,236,873 - 34,246,231 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl634,236,873 - 34,246,231 (+)EnsemblGRCh38hg38GRCh38
GRCh37634,204,650 - 34,214,008 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36634,312,628 - 34,321,986 (+)NCBINCBI36Build 36hg18NCBI36
Build 34634,314,545 - 34,321,986NCBI
Celera635,758,945 - 35,768,381 (+)NCBICelera
Cytogenetic Map6p21.31NCBI
HuRef633,927,318 - 33,936,673 (+)NCBIHuRef
CHM1_1634,207,231 - 34,216,597 (+)NCBICHM1_1
T2T-CHM13v2.0634,060,576 - 34,069,936 (+)NCBIT2T-CHM13v2.0
Hmga1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391727,774,798 - 27,782,649 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1727,775,471 - 27,782,648 (+)EnsemblGRCm39 Ensembl
GRCm381727,556,574 - 27,563,672 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1727,556,497 - 27,563,674 (+)EnsemblGRCm38mm10GRCm38
GRCm38.p6 Ensembl11120,762,794 - 120,764,419 (+)EnsemblGRCm38mm10GRCm38
MGSCv371727,693,519 - 27,700,617 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361727,284,171 - 27,291,260 (+)NCBIMGSCv36mm8
Celera1728,108,639 - 28,115,776 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1714.5NCBI
Hmga1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8205,612,902 - 5,620,596 (+)NCBIGRCr8
mRatBN7.2205,611,088 - 5,618,755 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl205,611,694 - 5,618,752 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx206,327,117 - 6,330,067 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0205,688,869 - 5,691,819 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0206,169,005 - 6,171,956 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0207,132,501 - 7,140,155 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl207,136,007 - 7,138,980 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0209,334,866 - 9,342,510 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4205,769,052 - 5,772,269 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1205,769,278 - 5,772,496 (+)NCBI
Celera207,177,471 - 7,180,533 (+)NCBICelera
Cytogenetic Map20p12NCBI
Hmga1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554372,478,414 - 2,486,809 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554372,478,414 - 2,486,809 (+)NCBIChiLan1.0ChiLan1.0
HMGA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2548,712,783 - 48,722,294 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1644,580,061 - 44,589,567 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0633,807,171 - 33,816,603 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1634,914,923 - 34,920,482 (+)NCBIpanpan1.1PanPan1.1panPan2
HMGA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1123,528,818 - 3,538,533 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl123,533,102 - 3,538,533 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha123,544,725 - 3,554,094 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0123,865,251 - 3,874,712 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl123,865,303 - 3,888,352 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1123,527,697 - 3,537,024 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0123,609,068 - 3,618,412 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0123,707,513 - 3,716,880 (+)NCBIUU_Cfam_GSD_1.0
Hmga1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494639,156,880 - 39,164,376 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647624,795,877 - 24,801,567 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647624,795,854 - 24,803,138 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HMGA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl730,320,410 - 30,329,408 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1730,320,090 - 30,329,413 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2734,981,570 - 34,990,089 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap7q11NCBI
Hmga1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475422,892,226 - 22,898,807 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475422,888,052 - 22,900,685 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 35 19 60
Low 1 1
Below cutoff

Sequence


RefSeq Acc Id: ENSCSAT00000007859   ⟹   ENSCSAP00000006023
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1737,849,412 - 37,853,880 (-)Ensembl
RefSeq Acc Id: XM_007972893   ⟹   XP_007971084
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11737,848,110 - 37,857,835 (-)NCBI
Vero_WHO_p1.0NW_02366604434,150,889 - 34,160,977 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007972894   ⟹   XP_007971085
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11737,848,110 - 37,857,782 (-)NCBI
Vero_WHO_p1.0NW_02366604434,151,284 - 34,160,977 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007972895   ⟹   XP_007971086
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11737,848,110 - 37,856,960 (-)NCBI
Vero_WHO_p1.0NW_02366604434,152,038 - 34,160,977 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007972897   ⟹   XP_007971088
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11737,848,110 - 37,857,835 (-)NCBI
Vero_WHO_p1.0NW_02366604434,151,250 - 34,160,977 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007972898   ⟹   XP_007971089
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11737,848,110 - 37,857,835 (-)NCBI
Vero_WHO_p1.0NW_02366604434,151,281 - 34,160,977 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007972899   ⟹   XP_007971090
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11737,848,110 - 37,856,877 (-)NCBI
Vero_WHO_p1.0NW_02366604434,152,276 - 34,160,977 (+)NCBI
Sequence:
RefSeq Acc Id: XP_007971089   ⟸   XM_007972898
- Peptide Label: isoform X2
RefSeq Acc Id: XP_007971088   ⟸   XM_007972897
- Peptide Label: isoform X2
RefSeq Acc Id: XP_007971084   ⟸   XM_007972893
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RBN4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007971085   ⟸   XM_007972894
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RBN4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007971086   ⟸   XM_007972895
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RBN4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007971090   ⟸   XM_007972899
- Peptide Label: isoform X2
RefSeq Acc Id: ENSCSAP00000006023   ⟸   ENSCSAT00000007859


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000009775 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000007859.1 UniProtKB/TrEMBL
InterPro AT_hook_DNA-bd_motif UniProtKB/TrEMBL
  HMGA UniProtKB/TrEMBL
  HMGI/Y_DNA-bd_CS UniProtKB/TrEMBL
KEGG Report csab:103221639 UniProtKB/TrEMBL
NCBI Gene HMGA1 ENTREZGENE
PANTHER HIGH MOBILITY GROUP PROTEIN HMG-I/HMG-Y UniProtKB/TrEMBL
  HIGH MOBILITY GROUP PROTEINS HMG-A AND C UniProtKB/TrEMBL
PRINTS ATHOOK UniProtKB/TrEMBL
  HIGHMOBLTYIY UniProtKB/TrEMBL
PROSITE HMGI_Y UniProtKB/TrEMBL
SMART AT_hook UniProtKB/TrEMBL
UniProt A0A0D9RBN4 ENTREZGENE, UniProtKB/TrEMBL