HMG20A (high mobility group 20A) - Rat Genome Database

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Gene: HMG20A (high mobility group 20A) Chlorocebus sabaeus
Analyze
Symbol: HMG20A
Name: high mobility group 20A
RGD ID: 18534745
Description: ENCODES a protein that exhibits DNA binding (inferred); identical protein binding (inferred); INVOLVED IN negative regulation of neuron differentiation (ortholog); negative regulation of protein sumoylation (ortholog); negative regulation of transcription by RNA polymerase II (ortholog); ASSOCIATED WITH Bloom syndrome (ortholog); colorectal cancer (ortholog); schizophrenia (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: high mobility group protein 20A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1265,821,356 - 5,891,592 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl265,821,105 - 5,848,688 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048135,858,516 - 135,928,270 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
HMG20A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1265,821,356 - 5,891,592 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl265,821,105 - 5,848,688 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048135,858,516 - 135,928,270 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
HMG20A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381577,420,888 - 77,520,050 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1577,420,412 - 77,485,607 (+)EnsemblGRCh38hg38GRCh38
GRCh371577,713,230 - 77,777,945 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361575,500,298 - 75,565,000 (+)NCBINCBI36Build 36hg18NCBI36
Build 341575,500,297 - 75,564,998NCBI
Celera1554,651,392 - 54,716,096 (+)NCBICelera
Cytogenetic Map15q24.3NCBI
HuRef1554,470,230 - 54,534,879 (+)NCBIHuRef
CHM1_11577,831,289 - 77,896,010 (+)NCBICHM1_1
T2T-CHM13v2.01575,281,332 - 75,380,959 (+)NCBIT2T-CHM13v2.0
Hmg20a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39956,325,891 - 56,404,220 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl956,325,893 - 56,404,220 (+)EnsemblGRCm39 Ensembl
GRCm38956,418,619 - 56,496,936 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl956,418,609 - 56,496,936 (+)EnsemblGRCm38mm10GRCm38
MGSCv37956,266,653 - 56,344,743 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36956,216,983 - 56,295,073 (+)NCBIMGSCv36mm8
Celera953,644,386 - 53,722,292 (+)NCBICelera
Cytogenetic Map9BNCBI
cM Map930.13NCBI
Hmg20a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8865,715,688 - 65,791,663 (+)NCBIGRCr8
mRatBN7.2856,819,673 - 56,895,658 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl856,819,659 - 56,895,656 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx862,349,987 - 62,426,027 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0860,629,009 - 60,705,039 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0858,493,244 - 58,569,288 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0861,080,103 - 61,157,613 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl861,080,103 - 61,157,611 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0859,650,251 - 59,727,761 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4860,014,815 - 60,091,988 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera856,290,122 - 56,366,005 (+)NCBICelera
Cytogenetic Map8q24NCBI
Hmg20a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554502,285,625 - 2,353,978 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554502,285,444 - 2,362,696 (+)NCBIChiLan1.0ChiLan1.0
HMG20A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21666,632,273 - 66,735,325 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11570,798,044 - 70,899,111 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01556,348,298 - 56,413,106 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11572,137,714 - 72,202,149 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1572,137,714 - 72,202,149 (+)Ensemblpanpan1.1panPan2
HMG20A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13038,839,520 - 38,916,952 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3038,845,415 - 38,864,148 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3038,704,201 - 38,781,608 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03039,044,959 - 39,122,382 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3039,044,959 - 39,121,954 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13038,993,452 - 39,070,811 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03039,040,875 - 39,118,253 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03039,277,949 - 39,355,364 (-)NCBIUU_Cfam_GSD_1.0
Hmg20a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640116,990,865 - 117,070,367 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647134,838,587 - 34,918,491 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647134,838,932 - 34,918,407 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HMG20A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl757,504,465 - 57,570,023 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1757,504,048 - 57,570,035 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2762,233,320 - 62,261,716 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Hmg20a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624894878,863 - 962,854 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624894880,863 - 962,734 (-)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 36 6 60
Low 14
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000012829   ⟹   ENSCSAP00000010851
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl265,821,105 - 5,848,688 (-)Ensembl
RefSeq Acc Id: XM_008015754   ⟹   XP_008013945
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1265,821,356 - 5,891,592 (-)NCBI
Vero_WHO_p1.0NW_023666048135,858,516 - 135,928,270 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008015755   ⟹   XP_008013946
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1265,821,356 - 5,891,476 (-)NCBI
Vero_WHO_p1.0NW_023666048135,858,521 - 135,928,270 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038010223   ⟹   XP_037866151
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666048135,858,520 - 135,928,270 (+)NCBI
RefSeq Acc Id: XM_038010224   ⟹   XP_037866152
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666048135,858,532 - 135,928,270 (+)NCBI
Protein Sequences
Protein RefSeqs XP_008013945 (Get FASTA)   NCBI Sequence Viewer  
  XP_008013946 (Get FASTA)   NCBI Sequence Viewer  
  XP_037866151 (Get FASTA)   NCBI Sequence Viewer  
  XP_037866152 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000010851
  ENSCSAP00000010851.1
Reference Protein Sequences
RefSeq Acc Id: XP_008013945   ⟸   XM_008015754
- UniProtKB: A0A0D9RQG2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_008013946   ⟸   XM_008015755
- UniProtKB: A0A0D9RQG2 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000010851   ⟸   ENSCSAT00000012829
RefSeq Acc Id: XP_037866151   ⟸   XM_038010223
- UniProtKB: A0A0D9RQG2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037866152   ⟸   XM_038010224
- UniProtKB: A0A0D9RQG2 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000014734 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000012829.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.30.10 UniProtKB/TrEMBL
InterPro HMG_box_dom UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/TrEMBL
KEGG Report csab:103245270 UniProtKB/TrEMBL
NCBI Gene HMG20A ENTREZGENE
PANTHER HIGH MOBILITY GROUP PROTEIN 2 UniProtKB/TrEMBL
  HIGH MOBILITY GROUP PROTEIN 20A-RELATED UniProtKB/TrEMBL
Pfam HMG_box UniProtKB/TrEMBL
PROSITE HMG_BOX_2 UniProtKB/TrEMBL
SMART HMG UniProtKB/TrEMBL
Superfamily-SCOP SSF47095 UniProtKB/TrEMBL
UniProt A0A0D9RQG2 ENTREZGENE, UniProtKB/TrEMBL