Bin2a (beta-galactosidase-like protein) - Rat Genome Database

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Gene: Bin2a (beta-galactosidase-like protein) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Bin2a
Name: beta-galactosidase-like protein
RGD ID: 1359233
Description: Predicted to enable beta-galactosidase activity. Predicted to be involved in carbohydrate metabolic process. Predicted to be active in vacuole; INTERACTS WITH fenvalerate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Glb1l4
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8833,524,302 - 33,562,904 (-)NCBIGRCr8
mRatBN7.2825,248,570 - 25,287,173 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl825,248,570 - 25,287,173 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx829,307,112 - 29,345,723 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0827,601,413 - 27,640,020 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0825,464,807 - 25,503,406 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0827,935,385 - 27,973,980 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl827,935,385 - 27,973,980 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0827,955,137 - 27,994,017 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4826,530,515 - 26,571,493 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1826,530,514 - 26,571,493 (-)NCBI
Celera826,806,920 - 26,845,452 (-)NCBICelera
Cytogenetic Map8q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
fenvalerate  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
vacuole  (IBA)

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:19092116  


Genomics

Variants

.
Variants in Bin2a
181 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:33
Count of miRNA genes:33
Interacting mature miRNAs:33
Transcripts:ENSRNOT00000037757
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2317882Alcrsp24Alcohol response QTL 243.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)8125902202Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8209764047097640Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8209764047097640Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8209764047097640Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8209764047097640Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)8470581049705810Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)8470581049705810Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)8470581049705810Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8767057852670578Rat
1354595Despr4Despair related QTL 42.160.0036locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)8768895552688955Rat
1354627Despr14Despair related QTL 140.0056locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)8768895552688955Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)8873663553736635Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)8873663553736635Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)8971222053356647Rat
1357398Slep3Serum leptin concentration QTL 33.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat
2302367Slep5Serum leptin concentration QTL 53.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
1558646Swd5Spike wave discharge measurement QTL 53.450.00036brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)81490675159906751Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)81629044461290444Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)81898416884531599Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)81933115293965294Rat
631842Inf1Infertility severity QTL 14.10.001seminal gland mass (VT:0010524)seminal vesicle wet weight (CMO:0001603)82266233067662330Rat

Markers in Region
AI236759  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2825,248,963 - 25,249,773 (+)MAPPERmRatBN7.2
Rnor_6.0827,935,779 - 27,936,588NCBIRnor6.0
Rnor_5.0827,955,531 - 27,956,340UniSTSRnor5.0
RGSC_v3.4826,530,909 - 26,531,718UniSTSRGSC3.4
Celera826,807,314 - 26,808,123UniSTS
RH 3.4 Map8221.6UniSTS
Cytogenetic Map8q13UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium
Low 2 2 15
Below cutoff 2 1 13 6 5 5 20 13 17 6 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000037757   ⟹   ENSRNOP00000034826
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl825,248,570 - 25,287,173 (-)Ensembl
Rnor_6.0 Ensembl827,935,385 - 27,973,980 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000094259   ⟹   ENSRNOP00000081346
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl825,249,620 - 25,285,691 (-)Ensembl
RefSeq Acc Id: NM_001009524   ⟹   NP_001009524
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8833,524,302 - 33,562,904 (-)NCBI
mRatBN7.2825,248,570 - 25,287,173 (-)NCBI
Rnor_6.0827,935,385 - 27,973,980 (-)NCBI
Rnor_5.0827,955,137 - 27,994,017 (-)NCBI
RGSC_v3.4826,530,515 - 26,571,493 (-)RGD
Celera826,806,920 - 26,845,452 (-)RGD
Sequence:
RefSeq Acc Id: XM_006242737   ⟹   XP_006242799
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8833,524,436 - 33,562,884 (-)NCBI
mRatBN7.2825,248,704 - 25,287,153 (-)NCBI
Rnor_6.0827,935,519 - 27,973,963 (-)NCBI
Rnor_5.0827,955,137 - 27,994,017 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_001009524   ⟸   NM_001009524
- UniProtKB: E9PSK3 (UniProtKB/TrEMBL),   Q5JCS8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242799   ⟸   XM_006242737
- Peptide Label: isoform X1
- UniProtKB: Q71SH1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000034826   ⟸   ENSRNOT00000037757
RefSeq Acc Id: ENSRNOP00000081346   ⟸   ENSRNOT00000094259
Protein Domains
Beta-galactosidase 1-like first all-beta   Beta-galactosidase galactose-binding   Glycoside hydrolase 35 catalytic

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-E9PSK3-F1-model_v2 AlphaFold E9PSK3 1-637 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:1359233 AgrOrtholog
BioCyc Gene G2FUF-31309 BioCyc
Ensembl Genes ENSRNOG00000032461 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000037757 ENTREZGENE
  ENSRNOT00000037757.5 UniProtKB/TrEMBL
  ENSRNOT00000094259 ENTREZGENE
  ENSRNOT00000094259.1 UniProtKB/TrEMBL
Gene3D-CATH Galactose-binding domain-like UniProtKB/TrEMBL
  Glycosidases UniProtKB/TrEMBL
InterPro B-gal_1-like UniProtKB/TrEMBL
  BetaGal1-like_ABD1 UniProtKB/TrEMBL
  BetaGal_gal-bd UniProtKB/TrEMBL
  Galactose-bd-like UniProtKB/TrEMBL
  Gly_Hdrlase_35_cat UniProtKB/TrEMBL
  Glyco_hydro_35_CS UniProtKB/TrEMBL
  Glycoside_Hdrlase_35 UniProtKB/TrEMBL
  Glycoside_hydrolase_SF UniProtKB/TrEMBL
KEGG Report rno:494244 UniProtKB/TrEMBL
NCBI Gene 494244 ENTREZGENE
PANTHER BETA-GALACTOSIDASE UniProtKB/TrEMBL
  Glyco_hydro_35 UniProtKB/TrEMBL
Pfam BetaGal_ABD_1 UniProtKB/TrEMBL
  BetaGal_gal-bd UniProtKB/TrEMBL
  Glyco_hydro_35 UniProtKB/TrEMBL
PhenoGen Bin2a PhenoGen
PIRSF B-gal UniProtKB/TrEMBL
PRINTS GLHYDRLASE35 UniProtKB/TrEMBL
PROSITE GLYCOSYL_HYDROL_F35 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000032461 RatGTEx
Superfamily-SCOP Gal_bind_like UniProtKB/TrEMBL
  Glyco_hydro_cat UniProtKB/TrEMBL
UniProt A0A8I5ZS22_RAT UniProtKB/TrEMBL
  E9PSK3 ENTREZGENE, UniProtKB/TrEMBL
  Q5JCS8 ENTREZGENE, UniProtKB/TrEMBL
  Q71SH1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-07-29 Bin2a  beta-galactosidase-like protein      Symbol and Name status set to provisional 70820 PROVISIONAL