Dbx2 (developing brain homeobox 2) - Rat Genome Database

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Gene: Dbx2 (developing brain homeobox 2) Mus musculus
Analyze
Symbol: Dbx2
Name: developing brain homeobox 2
RGD ID: 1612423
MGI Page MGI
Description: Predicted to be involved in regulation of transcription by RNA polymerase II. Is expressed in several structures, including central nervous system; limb; limb bud; sensory organ; and tooth mesenchyme. Orthologous to human DBX2 (developing brain homeobox 2).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 9430056A22Rik; 9630005K15; AI846217; Gm1229; homeobox protein DBX2
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391595,521,444 - 95,552,838 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1595,521,444 - 95,553,841 (-)EnsemblGRCm39 Ensembl
GRCm381595,623,563 - 95,654,771 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1595,623,563 - 95,655,960 (-)EnsemblGRCm38mm10GRCm38
MGSCv371595,453,994 - 95,485,202 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361595,453,994 - 95,485,202 (-)NCBIMGSCv36mm8
Celera1597,769,717 - 97,800,856 (-)NCBICelera
Cytogenetic Map15E3NCBI
cM Map1550.47NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8798145   PMID:8889548   PMID:10349636   PMID:10399918   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11239429   PMID:11567614   PMID:12062039   PMID:12435629   PMID:12466851  
PMID:12571110   PMID:12874134   PMID:14534138   PMID:14681479   PMID:14973276   PMID:15075292   PMID:15215207   PMID:15618518   PMID:15629701   PMID:15629702   PMID:15789444   PMID:15930101  
PMID:16141072   PMID:16141073   PMID:16357211   PMID:17321515   PMID:18287559   PMID:18701439   PMID:19258013   PMID:19286674   PMID:19592574   PMID:20081190   PMID:21267068   PMID:21677750  
PMID:21873635   PMID:23288605   PMID:23827310   PMID:24952961   PMID:25936505   PMID:27198226   PMID:29504228   PMID:30177510   PMID:31291587   PMID:31336385   PMID:33497014   PMID:34145365  
PMID:37605090  


Genomics

Comparative Map Data
Dbx2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391595,521,444 - 95,552,838 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1595,521,444 - 95,553,841 (-)EnsemblGRCm39 Ensembl
GRCm381595,623,563 - 95,654,771 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1595,623,563 - 95,655,960 (-)EnsemblGRCm38mm10GRCm38
MGSCv371595,453,994 - 95,485,202 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361595,453,994 - 95,485,202 (-)NCBIMGSCv36mm8
Celera1597,769,717 - 97,800,856 (-)NCBICelera
Cytogenetic Map15E3NCBI
cM Map1550.47NCBI
DBX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381245,014,672 - 45,051,099 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1245,014,672 - 45,051,099 (-)EnsemblGRCh38hg38GRCh38
GRCh371245,408,455 - 45,444,882 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361243,694,806 - 43,731,149 (-)NCBINCBI36Build 36hg18NCBI36
Celera1244,211,912 - 44,248,577 (-)NCBICelera
Cytogenetic Map12q12NCBI
HuRef1242,436,496 - 42,473,246 (-)NCBIHuRef
CHM1_11245,373,560 - 45,409,894 (-)NCBICHM1_1
T2T-CHM13v2.01244,973,282 - 45,009,708 (-)NCBIT2T-CHM13v2.0
Dbx2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87128,651,603 - 128,681,886 (-)NCBIGRCr8
mRatBN7.27126,772,389 - 126,802,625 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7126,772,227 - 126,802,564 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.07136,966,879 - 136,997,104 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7136,967,200 - 136,997,050 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07136,606,113 - 136,636,311 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47134,212,949 - 134,243,282 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17134,289,385 - 134,297,367 (-)NCBI
Celera7123,282,070 - 123,312,294 (-)NCBICelera
Cytogenetic Map7q35NCBI
Dbx2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555004,213,183 - 4,231,844 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555004,212,848 - 4,238,727 (-)NCBIChiLan1.0ChiLan1.0
DBX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21049,126,883 - 49,167,284 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11249,123,668 - 49,164,042 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01243,688,140 - 43,728,531 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11244,556,961 - 44,593,152 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1244,556,531 - 44,593,152 (+)Ensemblpanpan1.1panPan2
DBX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1279,232,489 - 9,255,666 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl279,119,535 - 9,251,354 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2737,057,992 - 37,095,951 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0279,407,774 - 9,444,849 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl279,407,808 - 9,443,351 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1279,214,034 - 9,251,972 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0279,253,744 - 9,290,746 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02737,296,100 - 37,334,062 (-)NCBIUU_Cfam_GSD_1.0
Dbx2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494569,788,219 - 69,823,531 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365123,345,549 - 3,376,577 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365123,345,334 - 3,376,721 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DBX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl575,945,871 - 75,980,496 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1575,945,866 - 75,983,466 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2578,874,750 - 78,875,486 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DBX2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11141,190,840 - 41,230,057 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666037205,228,432 - 205,268,945 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Dbx2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248167,285,920 - 7,318,461 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248167,285,905 - 7,323,265 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Dbx2
1150 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:352
Count of miRNA genes:280
Interacting mature miRNAs:300
Transcripts:ENSMUST00000054244
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
26884442Sklq6_mskull length QTL 6, 5 week (mouse)156129481100797881Mouse
1357526Hyplip2_mhyperlipidemia 2 (mouse)Not determined1512402203102896555Mouse
26884425Cvht2_mcranial vault height 2, 5 week (mouse)1528800146102008435Mouse
1558985Eae32_mexperimental allergic encephalomyelitis susceptibility 32 (mouse)Not determined1532578416103425899Mouse
26884397Humsd5_mhumerus midshaft diameter 5, 10 week (mouse)154836339698397881Mouse
26884399Humsd1_mhumerus midshaft diameter 1, 5 week (mouse)1548363396101708435Mouse
1302074Bmd4_mbone mineral density 4 (mouse)Not determined1556186708103425899Mouse
12880420V25Dq8_mvitamin D inactive form serum level QTL 8 (mouse)156158420095584200Mouse
1301601Faq9_mfluctuating asymmetry QTL 9 (mouse)Not determined156316390397163995Mouse
1302197Bhr2_mbronchial hyperresponsiveness 2 (mouse)Not determined1564306334103425899Mouse
4141135Cia35_mcollagen induced arthritis 35 (mouse)Not determined156481182698811946Mouse
1301119Drb7_mdopamine receptor binding 7 (mouse)Not determined156533657899341028Mouse
1301171Brm2_mbrachyury modifier 2 (mouse)Not determined156552537699525499Mouse
4141921Pstc3_mperiosteal circumference 3 (mouse)Not determined1567270698101270847Mouse
1300627Sluc26_msusceptibility to lung cancer 26 (mouse)Not determined1570345653104073951Mouse
1300648Dbsty4_mdiabesity 4 (mouse)Not determined1570349271104073951Mouse
1300726Pitm4_mprion incubation time 4 (mouse)Not determined1570349271104073951Mouse
14747011Mancz13_mmandible centroid size 13 (mouse)1572382669104073951Mouse
12791003Aath8_maortic arch atherosclerosis 8 (mouse)1573430144104073951Mouse
1300851Heal4_mwound healing/regeneration 4 (mouse)Not determined1577527592104073951Mouse
4142060W3q6_mweight 3 weeks QTL 6 (mouse)Not determined78601103102901704Mouse
1357894Epfpq3_mepididymal fat percentage QTL 3 (mouse)Not determined1578601103102901704Mouse
14928306Manh79_mmandible shape 79 (mouse)1578847557104073951Mouse
12880411V125Dq11_mvitamin D active form serum level QTL 11 (mouse)1578897881104073951Mouse
10402490Dipa5_mdrug induced psychomotor activation 5 (mouse)Not determined1579163411104073951Mouse
4141897Imrfq2_mimmune response to Factor IX QTL 2 (mouse)Not determined79908940104073951Mouse
1301284Cosz3_mcocaine seizure 3 (mouse)Not determined1580313634104073951Mouse
4141902Cia37_mcollagen induced arthritis 37 (mouse)Not determined1580884933104073951Mouse
1300974Pgia9_mproteoglycan induced arthritis 9 (mouse)Not determined1580884933104073951Mouse
4141511Gdcr1_mglycerolphosphate dehydrogenase regulator 1 (mouse)Not determined82615474104073951Mouse
11530037Sluc34a_msusceptibility to lung cancer 34a (mouse)1585896437104073951Mouse
11530038Sluc34b_msusceptibility to lung cancer 34b (mouse)1585896437104073951Mouse
1357614Bmca_mbile mucin accumulation (mouse)Not determined1585896437104073951Mouse
1301918Skull22_mskull morphology 22 (mouse)Not determined1585901546104073951Mouse
4141581Dshv1_mdorsal hippocampal volume 1 (mouse)Not determined92788640103425899Mouse

Markers in Region
AI846217  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381595,624,454 - 95,624,587UniSTSGRCm38
MGSCv371595,454,885 - 95,455,018UniSTSGRCm37
Celera1597,770,609 - 97,770,742UniSTS
Cytogenetic Map15F1UniSTS
cM Map1571.1UniSTS
Whitehead/MRC_RH15852.54UniSTS
D15Jpk2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381595,625,414 - 95,625,618UniSTSGRCm38
MGSCv371595,455,845 - 95,456,049UniSTSGRCm37
Celera1597,771,567 - 97,771,749UniSTS
Cytogenetic Map15F1UniSTS
cM Map1574.6UniSTS
cM Map1571.1UniSTS
UniSTS:494404  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381595,653,211 - 95,654,675UniSTSGRCm38
MGSCv371595,483,642 - 95,485,106UniSTSGRCm37
Celera1597,799,295 - 97,800,760UniSTS
Cytogenetic Map15F1UniSTS
cM Map1571.1UniSTS
Dbx2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map15F1UniSTS
cM Map1571.1UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000054244   ⟹   ENSMUSP00000060424
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1595,521,444 - 95,553,841 (-)Ensembl
GRCm38.p6 Ensembl1595,623,563 - 95,655,960 (-)Ensembl
RefSeq Acc Id: ENSMUST00000229611
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1595,522,619 - 95,530,709 (-)Ensembl
GRCm38.p6 Ensembl1595,624,738 - 95,632,828 (-)Ensembl
RefSeq Acc Id: NM_207533   ⟹   NP_997416
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391595,521,444 - 95,552,652 (-)NCBI
GRCm381595,623,563 - 95,654,771 (-)ENTREZGENE
MGSCv371595,453,994 - 95,485,202 (-)RGD
Celera1597,769,717 - 97,800,856 (-)RGD
cM Map15 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_036159373   ⟹   XP_036015266
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391595,522,093 - 95,552,838 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_997416 (Get FASTA)   NCBI Sequence Viewer  
  XP_036015266 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAC29191 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000060424
  ENSMUSP00000060424.7
Reference Protein Sequences
RefSeq Acc Id: NP_997416   ⟸   NM_207533
- UniProtKB: F8VQH7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000060424   ⟸   ENSMUST00000054244
RefSeq Acc Id: XP_036015266   ⟸   XM_036159373
- Peptide Label: isoform X1
Protein Domains
Homeobox

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F8VQH7-F1-model_v2 AlphaFold F8VQH7 1-377 view protein structure

Promoters
RGD ID:8684828
Promoter ID:EPDNEW_M20444
Type:multiple initiation site
Name:Dbx2_1
Description:Mus musculus developing brain homeobox 2 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381595,654,706 - 95,654,766EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:107445 AgrOrtholog
Ensembl Genes ENSMUSG00000045608 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000054244 ENTREZGENE
  ENSMUST00000054244.7 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Homeobox UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeobox_eu UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
  HTH_motif UniProtKB/TrEMBL
KEGG Report mmu:223843 UniProtKB/TrEMBL
MGD MGI:107445 ENTREZGENE
NCBI Gene 223843 ENTREZGENE
PANTHER DBX UniProtKB/TrEMBL
  HOMEOBOX PROTEIN DBX2 UniProtKB/TrEMBL
Pfam Homeobox UniProtKB/TrEMBL
PhenoGen Dbx2 PhenoGen
PRINTS HOMEOBOX UniProtKB/TrEMBL
  HTHREPRESSR UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt F8VQH7 ENTREZGENE, UniProtKB/TrEMBL
  Q8BZD0_MOUSE UniProtKB/TrEMBL