Best2 (bestrophin 2) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: Best2 (bestrophin 2) Mus musculus
Analyze
Symbol: Best2
Name: bestrophin 2
RGD ID: 1313369
MGI Page MGI
Description: Exhibits chloride channel activity. Involved in chloride transmembrane transport; membrane depolarization; and sensory perception of smell. Localizes to chloride channel complex and cilium. Orthologous to human BEST2 (bestrophin 2); INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; ethanol.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: bestrophin-2; vitelliform macular dystrophy 2-like protein 1; Vmd2; Vmd2l1
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
GRCm39885,733,831 - 85,741,160 (-)NCBIGRCm39mm39
GRCm38885,007,202 - 85,014,531 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl885,007,202 - 85,014,531 (-)EnsemblGRCm38mm10GRCm38
MGSCv37887,531,101 - 87,538,307 (-)NCBIGRCm37mm9NCBIm37
MGSCv36887,897,307 - 87,903,696 (-)NCBImm8
Celera889,301,588 - 89,309,323 (-)NCBICelera
Cytogenetic Map8C3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Additional References at PubMed
PMID:12032738   PMID:12477932   PMID:15218265   PMID:15489334   PMID:16707793   PMID:16912113   PMID:18385076   PMID:18400985   PMID:18652850   PMID:18936135   PMID:19262692   PMID:19480000  
PMID:19622610   PMID:20177062   PMID:20407206   PMID:21873635   PMID:21994938   PMID:27721237  


Genomics

Comparative Map Data
Best2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39885,733,831 - 85,741,160 (-)NCBIGRCm39mm39
GRCm38885,007,202 - 85,014,531 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl885,007,202 - 85,014,531 (-)EnsemblGRCm38mm10GRCm38
MGSCv37887,531,101 - 87,538,307 (-)NCBIGRCm37mm9NCBIm37
MGSCv36887,897,307 - 87,903,696 (-)NCBImm8
Celera889,301,588 - 89,309,323 (-)NCBICelera
Cytogenetic Map8C3NCBI
BEST2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1912,751,702 - 12,758,458 (+)EnsemblGRCh38hg38GRCh38
GRCh381912,751,791 - 12,758,458 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371912,862,600 - 12,869,272 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361912,724,407 - 12,730,272 (+)NCBINCBI36hg18NCBI36
Build 341912,724,471 - 12,730,269NCBI
Celera1912,753,118 - 12,758,983 (+)NCBI
Cytogenetic Map19p13.13NCBI
HuRef1912,436,343 - 12,442,209 (+)NCBIHuRef
CHM1_11912,863,870 - 12,869,735 (+)NCBICHM1_1
Best2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01926,122,869 - 26,129,619 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1926,122,881 - 26,129,619 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01937,098,504 - 37,105,242 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41924,797,882 - 24,804,670 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11924,802,507 - 24,809,499 (+)NCBI
Celera1922,699,556 - 22,706,219 (+)NCBICelera
Cytogenetic Map19q11NCBI
Best2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541531,846,047 - 31,851,962 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541531,846,053 - 31,851,628 (+)NCBIChiLan1.0ChiLan1.0
BEST2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11913,060,133 - 13,066,033 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1913,060,133 - 13,066,033 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01912,314,252 - 12,321,051 (+)NCBIMhudiblu_PPA_v0panPan3
BEST2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2049,384,966 - 49,388,755 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12049,384,595 - 49,388,758 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Best2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366591,862,075 - 1,867,021 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BEST2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl266,243,100 - 66,247,782 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1266,242,820 - 66,248,908 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2266,472,047 - 66,478,116 (+)NCBISscrofa10.2Sscrofa10.2susScr3
BEST2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1611,438,981 - 11,447,952 (+)NCBI
ChlSab1.1 Ensembl611,441,380 - 11,448,629 (+)Ensembl
Best2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624901372,181 - 377,411 (+)NCBI


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
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
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
1558890Lith18_mlithogenic gene 18 (mouse)Not determined875675517109675623Mouse
1357470Obq16_mobesity QTL 16 (mouse)Not determined875685348109685497Mouse
1301808Nhdlq1_mnon-HDL QTL 1 (mouse)Not determined875685348109685497Mouse
1301874Hdlq16_mHDL QTL 16 (mouse)Not determined875685348109685497Mouse
10412234Nhdlq14_mnon-HDL QTL 14 (mouse)Not determined875685348109685497Mouse
1301099Cbm2_mcerebellum weight 2 (mouse)Not determined878518613112518703Mouse
1301581Char2_mP. chabaudi malaria resistance QTL 2 (mouse)Not determined879082178113082403Mouse
12904012Cfq10_mconditioned fear QTL 10 (mouse)88006677589014359Mouse
10755530Wbc2_mwhite blood cell count 2 (mouse)881092664115092664Mouse
10755519Wbc1_mwhite blood cell count 1 (mouse)881619151115619151Mouse
1301766Desp1_mdespair 1 (mouse)Not determined884759576118759741Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:193
Count of miRNA genes:153
Interacting mature miRNAs:166
Transcripts:ENSMUST00000059072
Prediction methods: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


Reference Sequences
RefSeq Acc Id: ENSMUST00000059072   ⟹   ENSMUSP00000053408
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl885,007,202 - 85,014,408 (-)Ensembl
RefSeq Acc Id: ENSMUST00000209322   ⟹   ENSMUSP00000147580
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl885,007,202 - 85,013,591 (-)Ensembl
RefSeq Acc Id: ENSMUST00000209421   ⟹   ENSMUSP00000147837
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl885,007,202 - 85,014,531 (-)Ensembl
RefSeq Acc Id: NM_001130194   ⟹   NP_001123666
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39885,733,831 - 85,741,037 (-)NCBI
GRCm38885,007,202 - 85,014,408 (-)NCBI
MGSCv37887,531,101 - 87,538,307 (-)RGD
Celera889,301,588 - 89,309,446 (-)NCBI
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: NR_052011
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39885,733,831 - 85,741,160 (-)NCBI
GRCm38885,007,202 - 85,014,531 (-)NCBI
Celera889,301,588 - 89,309,446 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006530820   ⟹   XP_006530883
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39885,733,831 - 85,740,991 (-)NCBI
GRCm38885,007,202 - 85,014,362 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011248341   ⟹   XP_011246643
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39885,733,860 - 85,740,118 (-)NCBI
GRCm38885,007,231 - 85,013,489 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001123666   ⟸   NM_001130194
- UniProtKB: Q8BGM5 (UniProtKB/Swiss-Prot),   A0A0R4J0P0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006530883   ⟸   XM_006530820
- Peptide Label: isoform X1
- UniProtKB: Q8BGM5 (UniProtKB/Swiss-Prot),   A0A0R4J0P0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011246643   ⟸   XM_011248341
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSMUSP00000053408   ⟸   ENSMUST00000059072
RefSeq Acc Id: ENSMUSP00000147837   ⟸   ENSMUST00000209421
RefSeq Acc Id: ENSMUSP00000147580   ⟸   ENSMUST00000209322

Promoters
RGD ID:8667727
Promoter ID:EPDNEW_M11895
Type:multiple initiation site
Name:Best2_1
Description:Mus musculus bestrophin 2 , transcript variant 2, non-codingRNA.
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
GRCm38885,014,390 - 85,014,450EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2387588 AgrOrtholog
Ensembl Genes ENSMUSG00000052819 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000053408 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUSP00000147580 UniProtKB/TrEMBL
  ENSMUSP00000147837 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000059072 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUST00000209322 UniProtKB/TrEMBL
  ENSMUST00000209421 ENTREZGENE, UniProtKB/TrEMBL
InterPro Bestrophin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Bestrophin/UPF0187 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:212989 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:2387588 ENTREZGENE
NCBI Gene 212989 ENTREZGENE
PANTHER PTHR10736 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Bestrophin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Best2 PhenoGen
UniGene Mm.215154 ENTREZGENE
UniProt A0A0R4J0P0 ENTREZGENE, UniProtKB/TrEMBL
  BEST2_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q6H1U9 UniProtKB/Swiss-Prot
  Q8VCM0 UniProtKB/Swiss-Prot