HMGB2 (high mobility group box 2) - Rat Genome Database

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Gene: HMGB2 (high mobility group box 2) Chlorocebus sabaeus
Analyze
Symbol: HMGB2
Name: high mobility group box 2
RGD ID: 18790434
Description: ENCODES a protein that exhibits chemoattractant activity (ortholog); cis-regulatory region sequence-specific DNA binding (ortholog); damaged DNA binding (ortholog); INVOLVED IN animal organ regeneration (ortholog); cell chemotaxis (ortholog); cellular response to lipopolysaccharide (ortholog); ASSOCIATED WITH Animal Disease Models (ortholog); genetic disease (ortholog); hepatocellular carcinoma (ortholog); FOUND IN chromatin (ortholog); condensed chromosome (ortholog); cytoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: high mobility group protein B2
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
ChlSab1.17119,440,089 - 119,442,806 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl7119,440,468 - 119,443,578 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603799,454,586 - 99,458,916 (-)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

Biological Process
animal organ regeneration  (ISO)
cell chemotaxis  (ISO)
cellular response to lipopolysaccharide  (ISO)
defense response to Gram-negative bacterium  (ISO)
defense response to Gram-positive bacterium  (ISO)
DNA topological change  (ISO)
double-strand break repair via nonhomologous end joining  (ISO)
extrinsic apoptotic signaling pathway via death domain receptors  (ISO)
immune system process  (IEA)
inflammatory response to antigenic stimulus  (ISO)
innate immune response  (IEA)
male gonad development  (ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of extrinsic apoptotic signaling pathway via death domain receptors  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
nervous system development  (ISO)
nucleosome assembly  (ISO)
positive regulation of DNA metabolic process  (ISO)
positive regulation of DNA-templated transcription  (ISO)
positive regulation of endothelial cell proliferation  (ISO)
positive regulation of erythrocyte differentiation  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of innate immune response  (ISO)
positive regulation of interferon-beta production  (ISO)
positive regulation of megakaryocyte differentiation  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
regulation of neurogenesis  (ISO)
regulation of stem cell proliferation  (ISO)
regulation of transcription by RNA polymerase II  (IEA,ISO)
response to lipopolysaccharide  (ISO)
response to steroid hormone  (ISO)
spermatid nucleus differentiation  (ISO)
spermatogenesis  (ISO)

Cellular Component

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
HMGB2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.17119,440,089 - 119,442,806 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl7119,440,468 - 119,443,578 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603799,454,586 - 99,458,916 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
HMGB2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384173,331,376 - 173,334,358 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4173,331,376 - 173,334,432 (-)EnsemblGRCh38hg38GRCh38
GRCh374174,252,527 - 174,255,509 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364174,489,362 - 174,492,167 (-)NCBINCBI36Build 36hg18NCBI36
Celera4171,577,639 - 171,580,708 (-)NCBICelera
Cytogenetic Map4q34.1NCBI
HuRef4170,000,252 - 170,003,320 (-)NCBIHuRef
CHM1_14174,229,008 - 174,232,076 (-)NCBICHM1_1
T2T-CHM13v2.04176,670,801 - 176,673,783 (-)NCBIT2T-CHM13v2.0
Hmgb2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39857,964,877 - 57,969,033 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl857,964,941 - 57,969,033 (+)EnsemblGRCm39 Ensembl
GRCm38857,511,843 - 57,515,999 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl857,511,907 - 57,515,999 (+)EnsemblGRCm38mm10GRCm38
MGSCv37859,990,640 - 59,994,796 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36860,397,573 - 60,416,101 (+)NCBIMGSCv36mm8
Celera860,152,107 - 60,155,054 (+)NCBICelera
Cytogenetic Map8B2NCBI
cM Map829.9NCBI
Hmgb2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81637,721,374 - 37,723,950 (-)NCBIGRCr8
mRatBN7.21632,710,651 - 32,713,230 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1632,710,658 - 32,713,140 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01636,077,615 - 36,080,191 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1149,708,407 - 49,709,039 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1636,077,617 - 36,080,191 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01635,886,762 - 35,889,338 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41636,131,304 - 36,133,878 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11636,131,383 - 36,133,868 (-)NCBI
Celera1632,658,338 - 32,660,913 (-)NCBICelera
Cytogenetic Map16p11NCBI
Hmgb2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540333,656,300 - 33,659,428 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540333,656,314 - 33,659,115 (+)NCBIChiLan1.0ChiLan1.0
HMGB2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23171,092,148 - 171,094,860 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14171,473,101 - 171,477,425 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04165,559,848 - 165,562,625 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14177,797,457 - 177,800,952 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4177,797,457 - 177,800,952 (-)Ensemblpanpan1.1panPan2
HMGB2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12523,939,024 - 23,941,720 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2523,939,027 - 23,941,606 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2524,589,914 - 24,592,608 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02524,102,383 - 24,105,085 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2524,102,384 - 24,104,971 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12524,048,618 - 24,051,316 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02523,938,971 - 23,941,673 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02524,088,886 - 24,091,584 (-)NCBIUU_Cfam_GSD_1.0
Hmgb2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494324,122,424 - 24,125,034 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365164,534,306 - 4,539,387 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365164,536,664 - 4,539,331 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HMGB2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1416,710,047 - 16,717,101 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11416,709,966 - 16,712,288 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Hmgb2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247694,834,998 - 4,837,111 (-)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 15 38
Low 5 22
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000001127   ⟹   ENSCSAP00000014941
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl7119,440,468 - 119,443,578 (-)Ensembl
RefSeq Acc Id: XM_008000272   ⟹   XP_007998463
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.17119,440,089 - 119,442,806 (-)NCBI
Vero_WHO_p1.0NW_02366603799,454,586 - 99,458,916 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008000274   ⟹   XP_007998465
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.17119,440,089 - 119,442,779 (-)NCBI
Vero_WHO_p1.0NW_02366603799,454,588 - 99,457,289 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007998463 (Get FASTA)   NCBI Sequence Viewer  
  XP_007998465 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000014941
  ENSCSAP00000014941.1
Reference Protein Sequences
RefSeq Acc Id: XP_007998463   ⟸   XM_008000272
- UniProtKB: A0A0D9S252 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007998465   ⟸   XM_008000274
- UniProtKB: A0A0D9S252 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000014941   ⟸   ENSCSAT00000001127


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000003100 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000001127.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.30.10 UniProtKB/TrEMBL
InterPro HMG_box_dom UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/TrEMBL
  HMG_boxA_CS UniProtKB/TrEMBL
KEGG Report csab:103236533 UniProtKB/TrEMBL
NCBI Gene HMGB2 ENTREZGENE
PANTHER HIGH MOBILITY GROUP PROTEIN B2 UniProtKB/TrEMBL
  HIGH MOBILITY GROUP PROTEIN DSP1 UniProtKB/TrEMBL
Pfam HMG_box UniProtKB/TrEMBL
  HMG_box_2 UniProtKB/TrEMBL
PRINTS HIGHMOBLTY12 UniProtKB/TrEMBL
PROSITE HMG_BOX_1 UniProtKB/TrEMBL
  HMG_BOX_2 UniProtKB/TrEMBL
SMART HMG UniProtKB/TrEMBL
Superfamily-SCOP SSF47095 UniProtKB/TrEMBL
UniProt A0A0D9S252 ENTREZGENE, UniProtKB/TrEMBL