Bin3 (bridging integrator 3) - Rat Genome Database

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Gene: Bin3 (bridging integrator 3) Rattus norvegicus
Analyze
Symbol: Bin3
Name: bridging integrator 3
RGD ID: 1308253
Description: Predicted to contribute to lipid binding activity. Predicted to be involved in several processes, including actin cortical patch localization; plasma membrane tubulation; and unidimensional cell growth. Predicted to act upstream of or within myoblast migration involved in skeletal muscle regeneration; regulation of lamellipodium assembly; and skeletal muscle fiber development. Predicted to be located in cytoplasm and cytoskeleton. Predicted to be active in actin cytoskeleton. Orthologous to human BIN3 (bridging integrator 3); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; clofibric acid.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC361065
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
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
GRCr81551,583,474 - 51,622,329 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1551,583,481 - 51,622,329 (+)EnsemblGRCr8
mRatBN7.21545,173,725 - 45,212,607 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1545,173,732 - 45,212,604 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1549,291,591 - 49,330,460 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01550,403,086 - 50,441,954 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01547,262,410 - 47,301,270 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01551,799,339 - 51,818,697 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1551,779,839 - 51,818,699 (+)Ensemblrn6Rnor6.0
Rnor_5.01555,525,398 - 55,544,850 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41550,519,884 - 50,539,242 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1544,872,895 - 44,892,253 (+)NCBICelera
RGSC_v3.11550,535,662 - 50,555,015 (+)NCBI
Cytogenetic Map15p11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:11274158   PMID:15489334   PMID:23872330  


Genomics

Comparative Map Data
Bin3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81551,583,474 - 51,622,329 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1551,583,481 - 51,622,329 (+)EnsemblGRCr8
mRatBN7.21545,173,725 - 45,212,607 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1545,173,732 - 45,212,604 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1549,291,591 - 49,330,460 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01550,403,086 - 50,441,954 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01547,262,410 - 47,301,270 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01551,799,339 - 51,818,697 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1551,779,839 - 51,818,699 (+)Ensemblrn6Rnor6.0
Rnor_5.01555,525,398 - 55,544,850 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41550,519,884 - 50,539,242 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1544,872,895 - 44,892,253 (+)NCBICelera
RGSC_v3.11550,535,662 - 50,555,015 (+)NCBI
Cytogenetic Map15p11NCBI
BIN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38822,620,418 - 22,669,121 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl822,620,418 - 22,669,148 (-)Ensemblhg38GRCh38
GRCh37822,477,931 - 22,526,634 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36822,533,876 - 22,582,606 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34822,533,890 - 22,582,540NCBI
Celera821,439,785 - 21,488,652 (-)NCBICelera
Cytogenetic Map8p21.3NCBI
HuRef821,021,078 - 21,070,156 (-)NCBIHuRef
CHM1_1822,680,143 - 22,728,895 (-)NCBICHM1_1
T2T-CHM13v2.0822,894,322 - 22,943,373 (-)NCBIT2T-CHM13v2.0
Bin3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391470,337,538 - 70,375,413 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1470,337,554 - 70,375,655 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381470,100,089 - 70,137,964 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1470,100,105 - 70,138,206 (+)Ensemblmm10GRCm38
MGSCv371470,499,952 - 70,538,013 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361468,835,225 - 68,873,286 (+)NCBIMGSCv36mm8
Celera1467,640,607 - 67,678,945 (+)NCBICelera
Cytogenetic Map14D2NCBI
cM Map1436.21NCBI
Bin3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540346,042,885 - 46,085,029 (-)Ensembl
ChiLan1.0NW_00495540346,042,885 - 46,085,029 (-)NCBIChiLan1.0ChiLan1.0
BIN3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2741,127,684 - 41,173,953 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1816,852,857 - 16,901,510 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0821,870,784 - 21,919,077 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1818,809,582 - 18,858,912 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl818,809,582 - 18,858,912 (-)EnsemblpanPan2panpan1.1
BIN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12534,615,683 - 34,659,739 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2534,615,249 - 34,659,755 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2535,205,447 - 35,249,488 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02534,825,227 - 34,869,290 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2534,825,174 - 34,869,586 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12534,771,458 - 34,815,744 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02534,625,780 - 34,669,825 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02534,781,289 - 34,825,349 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
BIN3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl146,874,300 - 6,889,133 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1146,874,281 - 6,926,950 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2147,354,594 - 7,403,650 (-)NCBISscrofa10.2Sscrofa10.2susScr3
BIN3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1820,700,664 - 20,748,775 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl820,701,390 - 20,725,210 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605221,478,444 - 21,526,859 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Bin3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475818,121,125 - 18,163,044 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475818,121,125 - 18,163,142 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Bin3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11254,209,806 - 54,247,780 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Bin3
282 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:450
Count of miRNA genes:209
Interacting mature miRNAs:251
Transcripts:ENSRNOT00000024614
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1544806773104695021Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15231575953331089Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)153185580392671517Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)154367724488677244Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152852773273527732Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)154367724488677244Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152233635152597086Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)154046315285463152Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151492659471614418Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152233635167336351Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)154367724488677244Rat
2306968Anxrr23Anxiety related response QTL 234.83reflex trait (VT:0001961)amplitude of the acoustic startle response (CMO:0001520)154480677352597086Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)154367724488677244Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat
7411725Strs7Sensitivity to stroke QTL 73.8cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)154446544756583797Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)154367724488677244Rat


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
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000024614   ⟹   ENSRNOP00000024614
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1551,583,481 - 51,622,322 (+)Ensembl
mRatBN7.2 Ensembl1545,173,732 - 45,212,604 (+)Ensembl
Rnor_6.0 Ensembl1551,779,839 - 51,818,699 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000077259   ⟹   ENSRNOP00000072559
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1551,779,896 - 51,817,903 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000093491
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1551,804,870 - 51,809,729 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000099631   ⟹   ENSRNOP00000079687
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1551,612,978 - 51,622,329 (+)Ensembl
mRatBN7.2 Ensembl1545,173,774 - 45,212,604 (+)Ensembl
RefSeq Acc Id: NM_001013186   ⟹   NP_001013204
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81551,583,474 - 51,622,329 (+)NCBI
mRatBN7.21545,173,748 - 45,212,607 (+)NCBI
Rnor_6.01551,799,339 - 51,818,697 (+)NCBI
Rnor_5.01555,525,398 - 55,544,850 (+)NCBI
RGSC_v3.41550,519,884 - 50,539,242 (+)RGD
Celera1544,872,895 - 44,892,253 (+)RGD
Sequence:
RefSeq Acc Id: XM_039093514   ⟹   XP_038949442
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81551,583,490 - 51,622,326 (+)NCBI
mRatBN7.21545,173,725 - 45,212,607 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001013204 (Get FASTA)   NCBI Sequence Viewer  
  XP_038949442 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79146 (Get FASTA)   NCBI Sequence Viewer  
  EDM02200 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000024614
  ENSRNOP00000024614.6
GenBank Protein Q68FW8 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001013204   ⟸   NM_001013186
- UniProtKB: Q68FW8 (UniProtKB/Swiss-Prot),   A6HTI7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000072559   ⟸   ENSRNOT00000077259
Ensembl Acc Id: ENSRNOP00000024614   ⟸   ENSRNOT00000024614
RefSeq Acc Id: XP_038949442   ⟸   XM_039093514
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZRI0 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000079687   ⟸   ENSRNOT00000099631
Protein Domains
BAR

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q68FW8-F1-model_v2 AlphaFold Q68FW8 1-253 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:1308253 AgrOrtholog
BioCyc Gene G2FUF-13238 BioCyc
Ensembl Genes ENSRNOG00000018023 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000024614 ENTREZGENE
  ENSRNOT00000024614.7 UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.1270.60 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7128352 IMAGE-MGC_LOAD
InterPro AH/BAR_dom_sf UniProtKB/Swiss-Prot
  BAR_dom UniProtKB/Swiss-Prot
  BIN3/RVS161-like UniProtKB/Swiss-Prot
  Bin3_BAR UniProtKB/Swiss-Prot
KEGG Report rno:361065 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94161 IMAGE-MGC_LOAD
NCBI Gene 361065 ENTREZGENE
PANTHER BRIDGING INTEGRATOR 3 UniProtKB/Swiss-Prot
  BRIDGING INTEGRATOR 3 UniProtKB/Swiss-Prot
Pfam BAR UniProtKB/Swiss-Prot
PhenoGen Bin3 PhenoGen
PROSITE BAR UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000018023 RatGTEx
SMART BAR UniProtKB/Swiss-Prot
Superfamily-SCOP SSF103657 UniProtKB/Swiss-Prot
UniProt A0A8I5ZRI0 ENTREZGENE, UniProtKB/TrEMBL
  A6HTI7 ENTREZGENE, UniProtKB/TrEMBL
  BIN3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Bin3  bridging integrator 3  Bin3_predicted  bridging integrator 3 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Bin3_predicted  bridging integrator 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED