Best4 (bestrophin 4) - Rat Genome Database

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Gene: Best4 (bestrophin 4) Rattus norvegicus
Analyze
Symbol: Best4
Name: bestrophin 4
RGD ID: 1596200
Description: Predicted to enable bicarbonate channel activity and intracellularly calcium-gated chloride channel activity. Predicted to be involved in chloride transmembrane transport. Predicted to be located in membrane. Predicted to be part of chloride channel complex. Predicted to be active in plasma membrane. Orthologous to human BEST4 (bestrophin 4); INTERACTS WITH 17beta-estradiol 3-benzoate; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: bestrophin-4; LOC689103; similar to vitelliform macular dystrophy 2-like 2
RGD Orthologs
Human
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85135,858,774 - 135,865,624 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl5135,860,018 - 135,863,707 (+)EnsemblGRCr8
mRatBN7.25130,622,194 - 130,629,045 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5130,623,438 - 130,627,099 (+)EnsemblmRatBN7.2
Rnor_6.05136,013,978 - 136,017,742 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5136,014,017 - 136,017,677 (+)Ensemblrn6Rnor6.0
Rnor_5.05139,806,969 - 139,810,707 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45137,459,781 - 137,463,519 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5129,144,974 - 129,148,738 (+)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Best4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85135,858,774 - 135,865,624 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl5135,860,018 - 135,863,707 (+)EnsemblGRCr8
mRatBN7.25130,622,194 - 130,629,045 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5130,623,438 - 130,627,099 (+)EnsemblmRatBN7.2
Rnor_6.05136,013,978 - 136,017,742 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5136,014,017 - 136,017,677 (+)Ensemblrn6Rnor6.0
Rnor_5.05139,806,969 - 139,810,707 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45137,459,781 - 137,463,519 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5129,144,974 - 129,148,738 (+)NCBICelera
Cytogenetic Map5q36NCBI
BEST4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38144,781,840 - 44,792,828 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl144,781,836 - 44,791,550 (-)Ensemblhg38GRCh38
GRCh37145,249,257 - 45,253,842 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36145,021,844 - 45,026,013 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34144,918,351 - 44,922,470NCBI
Celera143,532,138 - 43,536,307 (-)NCBICelera
Cytogenetic Map1p34.1NCBI
HuRef143,362,307 - 43,366,475 (-)NCBIHuRef
CHM1_1145,365,170 - 45,369,339 (-)NCBICHM1_1
T2T-CHM13v2.0144,652,829 - 44,664,929 (-)NCBIT2T-CHM13v2.0
Best4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546413,434,429 - 13,439,108 (+)Ensembl
ChiLan1.0NW_00495546413,434,429 - 13,439,108 (+)NCBIChiLan1.0ChiLan1.0
BEST4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21182,006,378 - 182,024,437 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11181,148,051 - 181,165,859 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0144,087,062 - 44,104,995 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1145,453,277 - 45,456,691 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl145,452,078 - 45,456,691 (-)EnsemblpanPan2panpan1.1
BEST4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11515,535,179 - 15,539,047 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1515,535,186 - 15,538,526 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1515,655,025 - 15,659,367 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01515,690,376 - 15,694,718 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1515,690,717 - 15,694,187 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11515,487,545 - 15,491,887 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01515,554,843 - 15,559,185 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01515,627,893 - 15,632,234 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Best4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505860,188,095 - 60,192,387 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647426,012,887 - 26,016,511 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647426,012,887 - 26,016,511 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BEST4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6166,528,987 - 166,546,996 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.16166,540,767 - 166,547,149 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26154,032,949 - 154,038,248 (-)NCBISscrofa10.2Sscrofa10.2susScr3
BEST4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12087,997,070 - 88,008,475 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2088,002,728 - 88,009,035 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366603328,929,611 - 28,933,959 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Best4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624906676,210 - 679,503 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624906676,201 - 680,424 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Best4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1140,770,461 - 40,774,322 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Best4
13 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:104
Count of miRNA genes:83
Interacting mature miRNAs:88
Transcripts:ENSRNOT00000025346
Prediction methods:Microtar, 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
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)5102105698152749382Rat
2303586Gluco52Glucose level QTL 522blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)5100826632145826632Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5130249266172190305Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)544924861153890773Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5116702075161702075Rat
1354583Despr3Despair related QTL34.980.0002locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)5132930505172190305Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)538207390136631402Rat
1300122Wbc1White blood cell count QTL 12.75leukocyte quantity (VT:0000217)total white blood cell count (CMO:0000365)5130678987145274255Rat
7365049Bp359Blood pressure QTL 359arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5133308734140009902Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)599905133172190305Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5134369218156289444Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5133789363172190305Rat
7411582Foco3Food consumption QTL 37.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)592583776137583776Rat
1331803Rf32Renal function QTL 322.798kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)5134369199172190305Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)565089051166764498Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5112142946157142946Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5112142946157142946Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5110770739155770739Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5133081618172190305Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)551657967166600247Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5112142946157142946Rat
1581505Rf54Renal function QTL 54kidney physiology trait (VT:0002136)kidney 20-HETE level (CMO:0001854)5133270647172190305Rat
7411564Bw135Body weight QTL 1350.001body mass (VT:0001259)body weight gain (CMO:0000420)592583776137583776Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5133789363172190305Rat
8657050Bw146Body weight QTL 14619.840.001body mass (VT:0001259)body weight gain (CMO:0000420)598972960143972960Rat
1581510Cm54Cardiac mass QTL 543.40.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)5125969677172190305Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555124766172190305Rat
7411601Foco12Food consumption QTL 1219.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)592583776137583776Rat
2303618Vencon1Ventilatory control QTL 13.8respiration trait (VT:0001943)oxygen consumption (CMO:0002169)5100826632145826632Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5111236572156236572Rat
7394710Emca12Estrogen-induced mammary cancer QTL 12mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)594034903139034903Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5131708216172190305Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5114131300159131300Rat
2293642Bss37Bone structure and strength QTL 374.640.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5125969677156302135Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)560601597137492949Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5112142946157142946Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5116702075161702075Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5112142946157142946Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5116702075161702075Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)536460764136631402Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)574335621156302135Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5116702075161702075Rat
2306971Anxrr21Anxiety related response QTL 219.47fear/anxiety-related behavior trait (VT:1000241)number of entries into a discrete space in an experimental apparatus (CMO:0000960)570969494136328156Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5114131300159131300Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5133081618172190305Rat
6903316Bw113Body weight QTL 11320.0103body mass (VT:0001259)body weight (CMO:0000012)592881678137881678Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)5104262817153890625Rat


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
7 5 14 44 23 26 2 52 2 1 115 79 1 37 22 48 24 10 10

Sequence


Ensembl Acc Id: ENSRNOT00000025346   ⟹   ENSRNOP00000025348
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5135,860,018 - 135,863,707 (+)Ensembl
mRatBN7.2 Ensembl5130,623,438 - 130,627,099 (+)Ensembl
Rnor_6.0 Ensembl5136,014,017 - 136,017,677 (+)Ensembl
RefSeq Acc Id: XM_001066317   ⟹   XP_001066317
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85135,858,774 - 135,865,624 (+)NCBI
mRatBN7.25130,622,194 - 130,629,045 (+)NCBI
Rnor_6.05136,013,978 - 136,017,742 (+)NCBI
Rnor_5.05139,806,969 - 139,810,707 (+)NCBI
RGSC_v3.45137,459,781 - 137,463,519 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs XP_001066317 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000025348
  ENSRNOP00000025348.5
RefSeq Acc Id: XP_001066317   ⟸   XM_001066317
- UniProtKB: D3ZX44 (UniProtKB/TrEMBL),   A6JZC7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000025348   ⟸   ENSRNOT00000025346

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZX44-F1-model_v2 AlphaFold D3ZX44 1-454 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1596200 AgrOrtholog
BioCyc Gene G2FUF-40216 BioCyc
Ensembl Genes ENSRNOG00000018749 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025346 ENTREZGENE
  ENSRNOT00000025346.8 UniProtKB/TrEMBL
InterPro Bestrophin UniProtKB/TrEMBL
  Bestrophin-like UniProtKB/TrEMBL
KEGG Report rno:689103 UniProtKB/TrEMBL
NCBI Gene 689103 ENTREZGENE
PANTHER Bestrophin UniProtKB/TrEMBL
  BESTROPHIN-4 UniProtKB/TrEMBL
Pfam Bestrophin UniProtKB/TrEMBL
PhenoGen Best4 PhenoGen
RatGTEx ENSRNOG00000018749 RatGTEx
UniProt A6JZC7 ENTREZGENE, UniProtKB/TrEMBL
  D3ZX44 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-07-18 Best4  bestrophin 4  LOC689103  similar to vitelliform macular dystrophy 2-like 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC689103  similar to vitelliform macular dystrophy 2-like 2  LOC684003  similar to vitelliform macular dystrophy 2-like 2  Data merged from RGD:1595241 1643240 APPROVED
2006-11-20 LOC689103  similar to vitelliform macular dystrophy 2-like 2      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC684003  similar to vitelliform macular dystrophy 2-like 2      Symbol and Name status set to provisional 70820 PROVISIONAL