Hmgb2 (high mobility group box 2) - Rat Genome Database

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Gene: Hmgb2 (high mobility group box 2) Rattus norvegicus
Analyze
Symbol: Hmgb2
Name: high mobility group box 2
RGD ID: 69291
Description: Enables lipid binding activity. Involved in animal organ regeneration; nervous system development; and positive regulation of nucleobase-containing compound metabolic process. Predicted to be located in chromosome; extracellular space; and perinuclear region of cytoplasm. Predicted to be part of protein-containing complex. Predicted to be active in nucleus. Orthologous to human HMGB2 (high mobility group box 2); INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: high mobility group protein 2; high mobility group protein B2; HMG-2; Hmg2; MGC108899; MGC125103
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Hmgb2-ps6  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81637,721,374 - 37,723,950 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1637,721,379 - 37,723,860 (-)EnsemblGRCr8
mRatBN7.21632,710,651 - 32,713,230 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1632,710,658 - 32,713,140 (-)EnsemblmRatBN7.2
mRatBN7.2 Ensembl119,409,539 - 19,410,168 (-)EnsemblmRatBN7.2
Rnor_6.01636,077,615 - 36,080,191 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1149,708,407 - 49,709,039 (-)Ensemblrn6Rnor6.0
Rnor_6.0 Ensembl1636,077,617 - 36,080,191 (-)Ensemblrn6Rnor6.0
Rnor_5.01635,886,762 - 35,889,338 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41636,131,304 - 36,133,878 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1632,658,338 - 32,660,913 (-)NCBICelera
RGSC_v3.11636,131,383 - 36,133,868 (-)NCBI
Cytogenetic Map16p11NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,4'-trichlorobiphenyl  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-hydroxypropanoic acid  (ISO)
2-methoxyethanol  (EXP)
2-nitrofluorene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (ISO)
acetamide  (EXP)
aflatoxin B1  (EXP,ISO)
alachlor  (EXP)
all-trans-retinoic acid  (ISO)
alpha-Zearalanol  (EXP)
aminoglutethimide  (ISO)
amiodarone  (EXP)
amitriptyline  (EXP)
ammonium chloride  (EXP)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
azathioprine  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bexarotene  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
buspirone  (EXP)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
capsaicin  (EXP)
carbon nanotube  (ISO)
carbonyl sulfide  (EXP)
chlorpyrifos  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clomipramine  (EXP)
clozapine  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
corticosterone  (EXP)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
CU-O LINKAGE  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
DDE  (ISO)
dexamethasone  (EXP,ISO)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
dibenz[a,h]anthracene  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
diethyl phthalate  (ISO)
diethylstilbestrol  (EXP)
diisobutyl phthalate  (ISO)
diisononyl phthalate  (ISO)
diuron  (ISO)
doxorubicin  (ISO)
Enterolactone  (ISO)
enzyme inhibitor  (ISO)
epoxiconazole  (ISO)
ethanol  (EXP)
finasteride  (EXP)
flavonoids  (EXP)
folic acid  (ISO)
FR900359  (ISO)
furan  (EXP)
genistein  (EXP,ISO)
gentamycin  (EXP)
geraniol  (ISO)
glycerol 2-phosphate  (ISO)
glycidol  (EXP)
glycine betaine  (EXP)
gold atom  (ISO)
gold(0)  (ISO)
GSK-J4  (ISO)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
imipramine  (EXP)
indole-3-methanol  (EXP)
indometacin  (ISO)
ivermectin  (ISO)
ketoconazole  (EXP)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
leflunomide  (EXP)
levofloxacin  (EXP)
lidocaine  (EXP)
lipopolysaccharide  (ISO)
lucanthone  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methapyrilene  (EXP)
methotrexate  (ISO)
miconazole  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monobenzyl phthalate  (ISO)
Monobutylphthalate  (ISO)
monoethyl phthalate  (ISO)
N-acetyl-L-cysteine  (EXP)
N-methyl-4-phenylpyridinium  (EXP)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-methyl-N-nitrosourea  (EXP)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
nimesulide  (EXP)
nitrosobis(2-oxopropyl)amine  (EXP)
ochratoxin A  (ISO)
ozone  (ISO)
palbociclib  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
PCB138  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP,ISO)
phenobarbital  (EXP,ISO)
PhIP  (EXP)
piperonyl butoxide  (EXP)
pirinixic acid  (EXP,ISO)
potassium nitrate  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (EXP,ISO)
propanal  (ISO)
quercetin  (ISO)
quercitrin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
succimer  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (ISO)
Tributyltin oxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (ISO)
troglitazone  (ISO)
trovafloxacin  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vincaleukoblastine  (ISO)
vinclozolin  (EXP)
zinc atom  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
animal organ regeneration  (IEP)
cell chemotaxis  (ISO)
cellular response to lipopolysaccharide  (ISO)
chemotaxis  (IEA)
chromatin remodeling  (IBA)
defense response to Gram-negative bacterium  (ISO,ISS)
defense response to Gram-positive bacterium  (ISO,ISS)
DNA recombination  (IEA)
DNA topological change  (ISO,ISS)
DNA-templated transcription  (IEA)
double-strand break repair via nonhomologous end joining  (ISO)
immune system process  (IEA)
inflammatory response  (IEA)
inflammatory response to antigenic stimulus  (ISO,ISS)
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,ISS)
negative regulation of transcription by RNA polymerase II  (ISO)
nervous system development  (IDA)
nucleosome assembly  (ISO)
positive chemotaxis  (IEA)
positive regulation of DNA metabolic process  (IMP)
positive regulation of DNA-templated transcription  (IMP,ISO)
positive regulation of endothelial cell proliferation  (ISO)
positive regulation of erythrocyte differentiation  (ISO)
positive regulation of gene expression  (ISO,ISS)
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,ISS)
regulation of stem cell proliferation  (ISO,ISS)
regulation of transcription by RNA polymerase II  (ISO,ISS)
response to lipopolysaccharide  (ISO,ISS)
response to steroid hormone  (ISO)
spermatid nucleus differentiation  (ISO)
spermatogenesis  (ISO)

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. HMG-2 protein in developing rat brain cells. Angelova A, etal., Int J Biochem. 1993 Jan;25(1):37-41.
2. [Effect of HMG proteins and their phosphorylated forms on the process of transcription in neuronal nuclei of the rat brain (data from an immunochemical analysis)]. Beliavtseva LM, etal., Biokhimiia. 1992 Feb;57(2):214-9.
3. Non-random reconstitution of HMG1 and HMG2 in chromatin. Determination of the histone contacts. Bernues J and Querol E, Biochim Biophys Acta. 1989 Jun 1;1008(1):52-61.
4. Identity of nuclear high-mobility-group protein, HMG-1, and sulfoglucuronyl carbohydrate-binding protein, SBP-1, in brain. Chou DK, etal., J Neurochem 2001 Apr;77(1):120-31.
5. 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.
6. Synthesis of high mobility group proteins in regenerating rat liver. Kuehl L J Biol Chem. 1979 Aug 10;254(15):7276-81.
7. Tissue specificity of nucleo-cytoplasmic distribution of HMG1 and HMG2 proteins and their probable functions. Mosevitsky MI, etal., Eur J Biochem. 1989 Nov 6;185(2):303-10.
8. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
9. GOA pipeline RGD automated data pipeline
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Aging-related loss of the chromatin protein HMGB2 in articular cartilage is linked to reduced cellularity and osteoarthritis. Taniguchi N, etal., Proc Natl Acad Sci U S A. 2009 Jan 27;106(4):1181-6. doi: 10.1073/pnas.0806062106. Epub 2009 Jan 12.
12. Repression of cell cycle progression by antisense HMG2 RNA. Yamazaki F, etal., Biochem Biophys Res Commun. 1995 May 25;210(3):1045-51.
Additional References at PubMed
PMID:978439   PMID:2465778   PMID:3571199   PMID:7720710   PMID:7797075   PMID:8226934   PMID:8339930   PMID:9010268   PMID:9600082   PMID:9636147   PMID:11262228   PMID:11275566  
PMID:11754747   PMID:11909973   PMID:12477932   PMID:12925773   PMID:15005629   PMID:15489334   PMID:15496585   PMID:16765935   PMID:19223331   PMID:19811285   PMID:19890330   PMID:19965638  
PMID:22658674   PMID:22681889   PMID:23495099   PMID:23877675   PMID:24391977   PMID:25306442   PMID:29942000   PMID:36503880   PMID:38572649  


Genomics

Comparative Map Data
Hmgb2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81637,721,374 - 37,723,950 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1637,721,379 - 37,723,860 (-)EnsemblGRCr8
mRatBN7.21632,710,651 - 32,713,230 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1632,710,658 - 32,713,140 (-)EnsemblmRatBN7.2
mRatBN7.2 Ensembl119,409,539 - 19,410,168 (-)EnsemblmRatBN7.2
Rnor_6.01636,077,615 - 36,080,191 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1149,708,407 - 49,709,039 (-)Ensemblrn6Rnor6.0
Rnor_6.0 Ensembl1636,077,617 - 36,080,191 (-)Ensemblrn6Rnor6.0
Rnor_5.01635,886,762 - 35,889,338 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41636,131,304 - 36,133,878 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1632,658,338 - 32,660,913 (-)NCBICelera
RGSC_v3.11636,131,383 - 36,133,868 (-)NCBI
Cytogenetic Map16p11NCBI
HMGB2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384173,331,376 - 173,334,358 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4173,331,376 - 173,334,456 (-)Ensemblhg38GRCh38
GRCh374174,252,527 - 174,255,509 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364174,489,362 - 174,492,167 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm38857,511,843 - 57,515,999 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl857,511,907 - 57,515,999 (+)Ensemblmm10GRCm38
MGSCv37859,990,640 - 59,994,796 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36860,397,573 - 60,416,101 (+)NCBIMGSCv36mm8
Celera860,152,107 - 60,155,054 (+)NCBICelera
Cytogenetic Map8B2NCBI
cM Map829.9NCBI
Hmgb2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540333,656,300 - 33,659,428 (+)Ensembl
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 (-)EnsemblpanPan2panpan1.1
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2524,589,914 - 24,592,608 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02524,102,383 - 24,105,085 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (-)EnsemblSpeTri2.0 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 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11416,709,966 - 16,712,288 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366603799,454,586 - 99,458,916 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hmgb2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247694,834,998 - 4,837,111 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Hmgb2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11331,370,465 - 31,373,070 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Hmgb2
15 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:32
Count of miRNA genes:32
Interacting mature miRNAs:32
Transcripts:ENSRNOT00000017635
Prediction methods:Miranda, Rnahybrid
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
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16435482249354822Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)1638712345387123Rat
1549842Bp248Blood pressure QTL 2480.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1638712345387123Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16423421249757901Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)163692878281928782Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16423421266955197Rat
2302057Pia29Pristane induced arthritis QTL 293.60.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)162846870173468701Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139568015Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139568015Rat
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)163236104377361043Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16423421253708481Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)163105803976058039Rat
1298529Arunc1Aerobic running capacity QTL 14exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)163439829479398294Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683908666195506Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16474422249744222Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338679049757901Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683908666195506Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)163188527176885271Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683908666195506Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161773081872536785Rat
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)161590580260905802Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683908652786090Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683908666195506Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16330168348301683Rat


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
25 22 116 278 178 176 114 117 114 12 567 289 11 237 124 152 62 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000017635   ⟹   ENSRNOP00000017635
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1637,721,379 - 37,723,860 (-)Ensembl
mRatBN7.2 Ensembl1632,710,658 - 32,713,140 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000046874   ⟹   ENSRNOP00000039358
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1160,721,444 - 60,723,088 (-)Ensembl
mRatBN7.2 Ensembl1147,252,569 - 47,253,669 (-)Ensembl
RefSeq Acc Id: NM_017187   ⟹   NP_058883
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81637,721,374 - 37,723,950 (-)NCBI
mRatBN7.21632,710,653 - 32,713,230 (-)NCBI
Rnor_6.01636,077,617 - 36,080,191 (-)NCBI
Rnor_5.01635,886,762 - 35,889,338 (-)NCBI
RGSC_v3.41636,131,304 - 36,133,878 (-)RGD
Celera1632,658,338 - 32,660,913 (-)RGD
Sequence:
RefSeq Acc Id: XM_017600052   ⟹   XP_017455541
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81637,721,378 - 37,723,839 (-)NCBI
mRatBN7.21632,710,651 - 32,713,159 (-)NCBI
Rnor_6.01636,077,615 - 36,080,186 (-)NCBI
Sequence:
RefSeq Acc Id: NP_058883   ⟸   NM_017187
- UniProtKB: Q5FVP0 (UniProtKB/Swiss-Prot),   P52925 (UniProtKB/Swiss-Prot),   A6KIU7 (UniProtKB/TrEMBL),   D3ZN59 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455541   ⟸   XM_017600052
- Peptide Label: isoform X1
- UniProtKB: Q5FVP0 (UniProtKB/Swiss-Prot),   P52925 (UniProtKB/Swiss-Prot),   A6KIU7 (UniProtKB/TrEMBL),   D3ZN59 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000039358   ⟸   ENSRNOT00000046874
Ensembl Acc Id: ENSRNOP00000017635   ⟸   ENSRNOT00000017635
Protein Domains
HMG box

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P52925-F1-model_v2 AlphaFold P52925 1-210 view protein structure

Transcriptome

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

Promoters
RGD ID:13700080
Promoter ID:EPDNEW_R10599
Type:initiation region
Name:Hmgb2l1_1
Description:high mobility group box 2-like 1
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_6.01636,080,129 - 36,080,189EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69291 AgrOrtholog
BioCyc Gene G2FUF-11536 BioCyc
Ensembl Genes ENSRNOG00000013167 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00000026462 Ensembl
  ENSRNOG00000033321 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000017635 ENTREZGENE
  ENSRNOT00000017635.7 UniProtKB/Swiss-Prot
  ENSRNOT00000046874.3 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.30.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7114119 IMAGE-MGC_LOAD
  IMAGE:7377505 IMAGE-MGC_LOAD
  IMAGE:7380208 IMAGE-MGC_LOAD
InterPro HMG_box_dom UniProtKB/Swiss-Prot
  HMG_box_dom_sf UniProtKB/Swiss-Prot
  HMG_boxA_CS UniProtKB/Swiss-Prot
  HMGB UniProtKB/Swiss-Prot
KEGG Report rno:29395 UniProtKB/Swiss-Prot
  rno:498072 UniProtKB/Swiss-Prot
MGC_CLONE MGC:108899 IMAGE-MGC_LOAD
  MGC:125103 IMAGE-MGC_LOAD
  MGC:93531 IMAGE-MGC_LOAD
NCBI Gene 29395 ENTREZGENE
PANTHER HIGH MOBILITY GROUP PROTEIN B2 UniProtKB/Swiss-Prot
  HIGH MOBILITY GROUP PROTEIN DSP1 UniProtKB/Swiss-Prot
Pfam HMG_box UniProtKB/Swiss-Prot
  HMG_box_2 UniProtKB/Swiss-Prot
PhenoGen Hmgb2 PhenoGen
PRINTS HIGHMOBLTY12 UniProtKB/Swiss-Prot
PROSITE HMG_BOX_1 UniProtKB/Swiss-Prot
  HMG_BOX_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000013167 RatGTEx
  ENSRNOG00000026462 RatGTEx
  ENSRNOG00000033321 RatGTEx
SMART HMG UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47095 UniProtKB/Swiss-Prot
UniProt A6KIU7 ENTREZGENE, UniProtKB/TrEMBL
  D3ZN59 ENTREZGENE
  HMGB2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q5FVP0 ENTREZGENE
UniProt Secondary Q5FVP0 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Hmgb2  high mobility group box 2      Name updated 70584 APPROVED
2002-02-27 Hmgb2  high mobility group box 2      Symbol and Name updated to reflect Human and Mouse nomenclature 70292 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction binds to sulfated glycolipids, sulfoglucuronylglycolipids, sulfatides and seminolipids 734534
gene_process promotes neurite outgrowth in cerebellar cells 734534