Becn2 (beclin 2) - Rat Genome Database

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Gene: Becn2 (beclin 2) Rattus norvegicus
Analyze
Symbol: Becn2
Name: beclin 2
RGD ID: 1563293
Description: Predicted to enable phosphatidylinositol 3-kinase binding activity and protein-macromolecule adaptor activity. Predicted to be involved in cellular response to nitrogen starvation; late endosome to vacuole transport; and macroautophagy. Predicted to act upstream of or within several processes, including G protein-coupled receptor catabolic process; endosome to lysosome transport; and glucose homeostasis. Predicted to be part of phosphatidylinositol 3-kinase complex, class III, type I and phosphatidylinositol 3-kinase complex, class III, type II. Predicted to be active in phagophore assembly site. Orthologous to human BECN2 (beclin 2); INTERACTS WITH bisphenol A; ginsenoside Rg2 (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: beclin-2; LOC289269; RGD1563293; similar to Beclin 1 (Coiled-coil myosin-like BCL2-interacting protein); similar to Beclin 1 (Coiled-coil myosin-like BCL2-interacting protein) (Protein GT197)
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81390,375,186 - 90,424,533 (+)NCBIGRCr8
mRatBN7.21387,842,980 - 87,892,410 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1387,844,531 - 87,845,787 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1390,335,859 - 90,380,355 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01391,736,143 - 91,780,630 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01388,913,455 - 88,962,923 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01393,971,720 - 93,974,467 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1393,972,426 - 93,974,410 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01398,436,350 - 98,484,175 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41391,654,242 - 91,655,498 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1387,435,331 - 87,438,078 (+)NCBICelera
Cytogenetic Map13q24NCBI
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

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:23954414  


Genomics

Comparative Map Data
Becn2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81390,375,186 - 90,424,533 (+)NCBIGRCr8
mRatBN7.21387,842,980 - 87,892,410 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1387,844,531 - 87,845,787 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1390,335,859 - 90,380,355 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01391,736,143 - 91,780,630 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01388,913,455 - 88,962,923 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01393,971,720 - 93,974,467 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1393,972,426 - 93,974,410 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01398,436,350 - 98,484,175 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41391,654,242 - 91,655,498 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1387,435,331 - 87,438,078 (+)NCBICelera
Cytogenetic Map13q24NCBI
BECN2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381241,957,767 - 241,959,062 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1241,957,767 - 241,959,062 (+)EnsemblGRCh38hg38GRCh38
GRCh371242,121,069 - 242,122,364 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361240,187,692 - 240,188,987 (+)NCBINCBI36Build 36hg18NCBI36
Celera1215,376,527 - 215,377,822 (+)NCBICelera
Cytogenetic Map1q43NCBI
HuRef1212,580,040 - 212,581,334 (+)NCBIHuRef
CHM1_11243,393,639 - 243,394,934 (+)NCBICHM1_1
T2T-CHM13v2.01241,369,811 - 241,371,106 (+)NCBIT2T-CHM13v2.0
Becn2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391175,747,895 - 175,749,791 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1175,747,895 - 175,749,791 (+)EnsemblGRCm39 Ensembl
GRCm381175,920,329 - 175,922,225 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1175,920,329 - 175,922,225 (+)EnsemblGRCm38mm10GRCm38
MGSCv371177,850,501 - 177,851,829 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361177,757,004 - 177,758,900 (+)NCBIMGSCv36mm8
Celera1182,999,982 - 183,001,310 (+)NCBICelera
Cytogenetic Map1H4NCBI
BECN2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v217,184,996 - 7,188,584 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan117,407,147 - 7,410,669 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01217,520,628 - 217,522,177 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11222,499,853 - 222,501,148 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1222,499,853 - 222,501,148 (+)Ensemblpanpan1.1panPan2
BECN2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1733,318,124 - 33,356,388 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl733,317,730 - 33,350,325 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha732,796,787 - 32,953,640 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0733,144,306 - 33,182,985 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl733,144,315 - 33,176,421 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1732,979,293 - 33,017,904 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0733,001,928 - 33,159,054 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0733,253,191 - 33,291,842 (+)NCBIUU_Cfam_GSD_1.0
Becn2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934446,213,026 - 46,214,306 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365268,533,009 - 8,534,271 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365268,532,991 - 8,534,271 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BECN2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1015,388,605 - 15,390,226 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11015,388,712 - 15,390,250 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21017,717,296 - 17,718,597 (+)NCBISscrofa10.2Sscrofa10.2susScr3
BECN2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12579,042,985 - 79,044,787 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2579,043,385 - 79,044,707 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605581,204,596 - 81,206,089 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Becn2
499 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:18
Count of miRNA genes:18
Interacting mature miRNAs:18
Transcripts:ENSRNOT00000057933
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
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
12879444Bp397Blood pressure QTL 397arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134504940490049404Rat
12879471Bp398Blood pressure QTL 398arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134551471990514719Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat


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

circulatory system endocrine system exocrine system hepatobiliary system integumental system musculoskeletal system reproductive system respiratory system appendage
High
Medium 5
Low 2
Below cutoff 5 2 2 2 1 1 7 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000057933   ⟹   ENSRNOP00000054742
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1387,844,531 - 87,845,787 (+)Ensembl
Rnor_6.0 Ensembl1393,972,426 - 93,974,410 (+)Ensembl
RefSeq Acc Id: NM_001398867   ⟹   NP_001385796
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81390,375,186 - 90,378,488 (+)NCBI
mRatBN7.21387,842,980 - 87,846,282 (+)NCBI
RefSeq Acc Id: NM_001398868   ⟹   NP_001385797
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81390,375,186 - 90,424,533 (+)NCBI
mRatBN7.21387,842,980 - 87,892,410 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001385796 (Get FASTA)   NCBI Sequence Viewer  
  NP_001385797 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL94777 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000054742.5
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000054742   ⟸   ENSRNOT00000057933
RefSeq Acc Id: NP_001385797   ⟸   NM_001398868
- Peptide Label: isoform 2
RefSeq Acc Id: NP_001385796   ⟸   NM_001398867
- Peptide Label: isoform 1
Protein Domains
Atg6 BARA   Atg6/beclin coiled-coil

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M4I5-F1-model_v2 AlphaFold F1M4I5 1-419 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:1563293 AgrOrtholog
BioCyc Gene G2FUF-17215 BioCyc
Ensembl Genes ENSRNOG00000038076 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000057933.5 UniProtKB/TrEMBL
Gene3D-CATH 1.10.418.40 UniProtKB/TrEMBL
InterPro Atg6/Beclin_C_sf UniProtKB/TrEMBL
  Atg6/beclin_CC UniProtKB/TrEMBL
  Atg6_BARA UniProtKB/TrEMBL
  Autophagy-rel_prot_6 UniProtKB/TrEMBL
NCBI Gene 289269 ENTREZGENE
PANTHER APG6 UniProtKB/TrEMBL
  PTHR12768:SF5 UniProtKB/TrEMBL
Pfam APG6 UniProtKB/TrEMBL
  APG6_N UniProtKB/TrEMBL
PhenoGen Becn2 PhenoGen
RatGTEx ENSRNOG00000038076 RatGTEx
UniProt F1M4I5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-10-01 Becn2  beclin 2  RGD1563293  similar to Beclin 1 (Coiled-coil myosin-like BCL2-interacting protein)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1563293  similar to Beclin 1 (Coiled-coil myosin-like BCL2-interacting protein)   RGD1563293_predicted  similar to Beclin 1 (Coiled-coil myosin-like BCL2-interacting protein) (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-10 RGD1563293_predicted  similar to Beclin 1 (Coiled-coil myosin-like BCL2-interacting protein) (predicted)    similar to Beclin 1 (Coiled-coil myosin-like BCL2-interacting protein) (Protein GT197) (predicted)  Name updated 1299863 APPROVED
2006-03-07 RGD1563293_predicted  similar to Beclin 1 (Coiled-coil myosin-like BCL2-interacting protein) (Protein GT197) (predicted)  LOC289269  similar to Beclin 1 (Coiled-coil myosin-like BCL2-interacting protein) (Protein GT197)  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC289269  similar to Beclin 1 (Coiled-coil myosin-like BCL2-interacting protein) (Protein GT197)      Symbol and Name status set to provisional 70820 PROVISIONAL