Hmgxb4 (HMG box domain containing 4) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: Hmgxb4 (HMG box domain containing 4) Mus musculus
Analyze
Symbol: Hmgxb4
Name: HMG box domain containing 4
RGD ID: 1314022
MGI Page MGI
Description: Predicted to have identical protein binding activity. Predicted to localize to NURF complex. Is expressed in several structures, including brain; early conceptus; gonad; thymus; and ureter. Orthologous to human HMGXB4 (HMG-box containing 4); INTERACTS WITH 1,2-dichloroethane; 1,2-dimethylhydrazine; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 4733401K04Rik; AI316803; E430025G12; high mobility group box 2-like 1; HMG domain-containing protein 4; Hmgb2l; Hmgb2l1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39875,720,262 - 75,758,606 (+)NCBIGRCm39mm39
GRCm38874,993,650 - 75,031,978 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl874,993,356 - 75,031,978 (+)EnsemblGRCm38mm10GRCm38
MGSCv37877,517,602 - 77,555,871 (+)NCBIGRCm37mm9NCBIm37
MGSCv36877,889,775 - 77,928,044 (+)NCBImm8
Celera879,293,778 - 79,332,024 (+)NCBICelera
Cytogenetic Map8C1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
NURF complex  (ISO)

Molecular Function

References

Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10725249   PMID:11042159   PMID:11076861   PMID:12477932   PMID:12520002   PMID:14610273   PMID:16141072   PMID:16141073   PMID:18287559   PMID:18799693  
PMID:20412781   PMID:20511232   PMID:20657840   PMID:20932939   PMID:21677750   PMID:24952961   PMID:26919559  


Genomics

Comparative Map Data
Hmgxb4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39875,720,262 - 75,758,606 (+)NCBIGRCm39mm39
GRCm38874,993,650 - 75,031,978 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl874,993,356 - 75,031,978 (+)EnsemblGRCm38mm10GRCm38
MGSCv37877,517,602 - 77,555,871 (+)NCBIGRCm37mm9NCBIm37
MGSCv36877,889,775 - 77,928,044 (+)NCBImm8
Celera879,293,778 - 79,332,024 (+)NCBICelera
Cytogenetic Map8C1NCBI
HMGXB4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2235,257,452 - 35,295,807 (+)EnsemblGRCh38hg38GRCh38
GRCh382235,256,697 - 35,295,807 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372235,653,445 - 35,691,800 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362233,983,489 - 34,021,800 (+)NCBINCBI36hg18NCBI36
Build 342233,978,042 - 34,016,353NCBI
Celera2219,456,143 - 19,494,488 (+)NCBI
Cytogenetic Map22q12.3NCBI
HuRef2218,614,585 - 18,652,914 (+)NCBIHuRef
CHM1_12235,611,632 - 35,649,991 (+)NCBICHM1_1
Hmgxb4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01914,352,644 - 14,390,499 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1914,352,411 - 14,390,478 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01925,465,000 - 25,503,030 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41913,849,919 - 13,888,570 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11913,854,655 - 13,891,682 (+)NCBI
Celera1913,234,389 - 13,272,937 (+)NCBICelera
Cytogenetic Map19p11NCBI
Hmgxb4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540543,062,093 - 43,091,784 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540543,058,768 - 43,088,592 (+)NCBIChiLan1.0ChiLan1.0
HMGXB4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12234,108,030 - 34,146,282 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2234,112,944 - 34,144,132 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02216,264,268 - 16,302,597 (+)NCBIMhudiblu_PPA_v0panPan3
HMGXB4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1028,828,362 - 28,857,458 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11028,826,760 - 28,857,473 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Hmgxb4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049364925,106,230 - 5,139,784 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HMGXB4
(Sus scrofa - pig)
No map positions available.
HMGXB4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11918,020,514 - 18,058,769 (+)NCBI
ChlSab1.1 Ensembl1918,020,614 - 18,060,515 (+)Ensembl
Hmgxb4
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624750382,057 - 409,259 (-)NCBI

Position Markers
RH136122  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38875,002,179 - 75,002,383UniSTSGRCm38
MGSCv37877,526,078 - 77,526,282UniSTSGRCm37
Celera879,302,254 - 79,302,458UniSTS
Cytogenetic Map8C1UniSTS
D8Mit180  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38875,007,384 - 75,007,530UniSTSGRCm38
MGSCv37877,531,283 - 77,531,429UniSTSGRCm37
Celera879,307,461 - 79,307,597UniSTS
Cytogenetic Map8C1UniSTS
cM Map834.0UniSTS
Whitehead Genetic836.1UniSTS
Whitehead_YAC8 UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832016544117238700Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined834642776114837007Mouse
1301013Capsq4_mcapsaicin sensitivity related QTL 4 (mouse)Not determined83616300092728652Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837400000109600000Mouse
12904744Carcdq1_mcardiac collagen deposition QTL 1 (mouse)83970925694689598Mouse
1301544Iba3_minduction of brown adipocytes 3 (mouse)Not determined84429488078295025Mouse
1301717Adip4_madiposity 4 (mouse)Not determined84763703081637146Mouse
10766453Char11_mP. chabaudi malaria resistance QTL 11 (mouse)84763703081637146Mouse
1301441Skull11_mskull morphology 11 (mouse)Not determined84773713481737254Mouse
1357715Alaa3_malopecia areata 3 (mouse)Not determined84879293982793021Mouse
14746987Manh64_mmandible shape 64 (mouse)85005330684053306Mouse
14747005Mancz7_mmandible centroid size 7 (mouse)85005330684053306Mouse
14700686Civq3_mcerebral infarct volume QTL 3 (mouse)85188219185882191Mouse
1301506Aevm1_mautoimmune extremity vasculitis in MRL mice 1 (mouse)Not determined85428781788287993Mouse
1301952Im3_mimmunoregulatory 3 (mouse)Not determined85470661488706763Mouse
10412287Carg3_mCandida albicans resistance gene 3 (mouse)Not determined85554502889545028Mouse
11353828Gf7_mgonadal fat pad weight 7 (mouse)85820147992201479Mouse
10043975Obq31_mobesity QTL 31 (mouse)Not determined85840977692409776Mouse
1301688Orch6_mautoimmune orchitis resistance 6 (mouse)Not determined86078685094786976Mouse
4141285Tgq18_mtriglyceride QTL 18 (mouse)Not determined6346010797460107Mouse
4141797Skmw16_mskeletal muscle weight 16 (mouse)Not determined86393954797939696Mouse
1357787Vtbt5_mvertebral trabecular bone trait 5 (mouse)Not determined86535776899357920Mouse
10043992Hbnr11_mHeligmosomoides bakeri nematode resistance 11 (mouse)Not determined86560020799600347Mouse
10766466Char12_mP. chabaudi malaria resistance QTL 12 (mouse)86826982782600347Mouse
1301767Fcsa2_mfemoral cross-sectional area 2 (mouse)Not determined870305375104305495Mouse
4142283Imraq2_mimmune response to AAV2 QTL 2 (mouse)Not determined870305375104305495Mouse
1558780Idd22_minsulin dependent diabetes susceptibility 22 (mouse)Not determined871102903105103009Mouse
4141395Char2a_mP. chabaudi malaria resistance QTL 2a (mouse)Not determined7113678390202598Mouse
4142023W3q5_mweight 3 weeks QTL 5 (mouse)Not determined71287817123895615Mouse
1357708Orq1_movulation rate QTL 1 (mouse)Not determined871287817123895615Mouse
1301872Cd4ts3_mCD4 T cell subset 3 (mouse)Not determined871396181105396393Mouse
1300920Pitm3_mprion incubation time 3 (mouse)Not determined873202495107202598Mouse
27095912Pglq14_mpelvic girdle length QTL 14, 16 week (mouse)873400000126100000Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:3389
Count of miRNA genes:830
Interacting mature miRNAs:1111
Transcripts:ENSMUST00000041759, ENSMUST00000109940, ENSMUST00000129391, ENSMUST00000133585, ENSMUST00000134126, ENSMUST00000145919, ENSMUST00000151062
Prediction methods:Microtar, Miranda, Rnahybrid, 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.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001316753 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001316754 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_178017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006531362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006531364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AK014640 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK088758 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK156670 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL603864 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC006036 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC023167 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC023721 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC048188 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC049800 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY035054 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CN456159 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000041759   ⟹   ENSMUSP00000045126
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl874,993,356 - 75,031,972 (+)Ensembl
RefSeq Acc Id: ENSMUST00000109940   ⟹   ENSMUSP00000105566
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl875,016,222 - 75,031,913 (+)Ensembl
RefSeq Acc Id: ENSMUST00000129391
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl875,022,855 - 75,024,076 (+)Ensembl
RefSeq Acc Id: ENSMUST00000133585
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl874,993,712 - 75,000,784 (+)Ensembl
RefSeq Acc Id: ENSMUST00000134126
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl874,993,691 - 74,999,220 (+)Ensembl
RefSeq Acc Id: ENSMUST00000145919   ⟹   ENSMUSP00000133586
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl874,993,679 - 75,031,978 (+)Ensembl
RefSeq Acc Id: ENSMUST00000151062
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl874,993,679 - 74,999,798 (+)Ensembl
RefSeq Acc Id: ENSMUST00000211863   ⟹   ENSMUSP00000148561
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl874,993,695 - 75,000,878 (+)Ensembl
RefSeq Acc Id: ENSMUST00000212372
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl874,999,869 - 75,001,308 (+)Ensembl
RefSeq Acc Id: NM_001316753   ⟹   NP_001303682
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39875,720,278 - 75,758,606 (+)NCBI
GRCm38874,993,650 - 75,031,978 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001316754   ⟹   NP_001303683
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39875,742,850 - 75,758,606 (+)NCBI
GRCm38875,016,222 - 75,031,978 (+)NCBI
Sequence:
RefSeq Acc Id: NM_178017   ⟹   NP_821136
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39875,720,278 - 75,758,606 (+)NCBI
GRCm38874,993,650 - 75,031,978 (+)NCBI
MGSCv37877,517,602 - 77,555,871 (+)RGD
Celera879,293,778 - 79,332,024 (+)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006531362   ⟹   XP_006531425
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39875,720,294 - 75,758,606 (+)NCBI
GRCm38874,993,666 - 75,031,978 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006531364   ⟹   XP_006531427
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39875,720,262 - 75,758,606 (+)NCBI
GRCm38874,993,673 - 75,031,978 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_821136   ⟸   NM_178017
- Peptide Label: isoform 1
- UniProtKB: Q80Y32 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006531425   ⟸   XM_006531362
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006531427   ⟸   XM_006531364
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: NP_001303682   ⟸   NM_001316753
- Peptide Label: isoform 2
- UniProtKB: Q80Y32 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001303683   ⟸   NM_001316754
- Peptide Label: isoform 3
- UniProtKB: Q80Y32 (UniProtKB/TrEMBL),   Q8BTT5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000148561   ⟸   ENSMUST00000211863
RefSeq Acc Id: ENSMUSP00000133586   ⟸   ENSMUST00000145919
RefSeq Acc Id: ENSMUSP00000105566   ⟸   ENSMUST00000109940
RefSeq Acc Id: ENSMUSP00000045126   ⟸   ENSMUST00000041759
Protein Domains
DUF4171   HMG box

Promoters
RGD ID:8667497
Promoter ID:EPDNEW_M11780
Type:multiple initiation site
Name:Hmgxb4_1
Description:Mus musculus HMG box domain containing 4 , transcript variant3, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M11781  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38874,993,685 - 74,993,745EPDNEW
RGD ID:8667499
Promoter ID:EPDNEW_M11781
Type:initiation region
Name:Hmgxb4_2
Description:Mus musculus HMG box domain containing 4 , transcript variant3, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M11780  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38875,016,240 - 75,016,300EPDNEW
RGD ID:6843322
Promoter ID:MM_KWN:54892
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   ES_Cell,   Lung,   MEF_B4,   Spleen
Transcripts:OTTMUST00000042001,   OTTMUST00000042002,   OTTMUST00000042004,   OTTMUST00000042005,   OTTMUST00000042006,   UC009MGW.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36877,517,376 - 77,517,876 (+)MPROMDB
RGD ID:6843314
Promoter ID:MM_KWN:54893
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:ES_Cell
Transcripts:UC009MGZ.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36877,539,871 - 77,540,371 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1918073 AgrOrtholog
Ensembl Genes ENSMUSG00000034518 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000045126 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUSP00000105566 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUSP00000133586 UniProtKB/TrEMBL
  ENSMUSP00000148561 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000041759 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUST00000109940 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUST00000145919 UniProtKB/TrEMBL
  ENSMUST00000211863 UniProtKB/TrEMBL
Gene3D-CATH 1.10.30.10 UniProtKB/TrEMBL
InterPro DUF4171 UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/TrEMBL
  HMG_superfamily UniProtKB/TrEMBL
  HMGXB4 UniProtKB/TrEMBL
KEGG Report mmu:70823 UniProtKB/TrEMBL
MGD MGI:1918073 ENTREZGENE
NCBI Gene 70823 ENTREZGENE
PANTHER PTHR46584 UniProtKB/TrEMBL
Pfam DUF4171 UniProtKB/TrEMBL
  HMG_box UniProtKB/TrEMBL
PhenoGen Hmgxb4 PhenoGen
PROSITE HMG_BOX_2 UniProtKB/TrEMBL
SMART HMG UniProtKB/TrEMBL
Superfamily-SCOP HMG-box UniProtKB/TrEMBL
UniGene Mm.261739 ENTREZGENE
UniProt A0A1D5RLZ2_MOUSE UniProtKB/TrEMBL
  G3UX81_MOUSE UniProtKB/TrEMBL
  Q3U0Q0_MOUSE UniProtKB/TrEMBL
  Q80Y32 ENTREZGENE, UniProtKB/TrEMBL
  Q8BTT5 ENTREZGENE, UniProtKB/TrEMBL
  Q8CGJ8_MOUSE UniProtKB/TrEMBL
  Q8R579_MOUSE UniProtKB/TrEMBL
  Q9D639_MOUSE UniProtKB/TrEMBL