Bean1 (brain expressed, associated with NEDD4, 1) - Rat Genome Database

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Gene: Bean1 (brain expressed, associated with NEDD4, 1) Rattus norvegicus
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Symbol: Bean1
Name: brain expressed, associated with NEDD4, 1
RGD ID: 1562003
Description: Predicted to be located in membrane. Human ortholog(s) of this gene implicated in spinocerebellar ataxia type 31. Orthologous to human BEAN1 (brain expressed associated with NEDD4 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; C60 fullerene; copper atom.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Bean; brain expressed, associated with Nedd4; LOC361358; RGD1562003; similar to Nedd4-binding brain specific protein BEAN
RGD Orthologs
Human
Mouse
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
GRCr819745,993 - 792,853 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl19745,993 - 793,039 (-)EnsemblGRCr8
mRatBN7.219739,551 - 786,395 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl19739,551 - 787,537 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx19736,950 - 789,868 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0191,503,751 - 1,556,673 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.019778,969 - 831,875 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.019947,862 - 993,467 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl19949,607 - 983,556 (-)Ensemblrn6Rnor6.0
Rnor_5.019948,774 - 983,510 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.419698,197 - 744,853 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera19734,752 - 780,042 (-)NCBICelera
Cytogenetic Map19p14NCBI
JBrowse:




Disease 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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Bean1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr819745,993 - 792,853 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl19745,993 - 793,039 (-)EnsemblGRCr8
mRatBN7.219739,551 - 786,395 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl19739,551 - 787,537 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx19736,950 - 789,868 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0191,503,751 - 1,556,673 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.019778,969 - 831,875 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.019947,862 - 993,467 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl19949,607 - 983,556 (-)Ensemblrn6Rnor6.0
Rnor_5.019948,774 - 983,510 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.419698,197 - 744,853 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera19734,752 - 780,042 (-)NCBICelera
Cytogenetic Map19p14NCBI
BEAN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381666,427,295 - 66,495,288 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1666,427,295 - 66,493,529 (+)Ensemblhg38GRCh38
GRCh371666,461,198 - 66,529,191 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361665,018,120 - 65,074,249 (+)NCBIBuild 36Build 36hg18NCBI36
Celera1650,966,717 - 51,023,308 (+)NCBICelera
Cytogenetic Map16q21NCBI
HuRef1652,336,981 - 52,403,356 (+)NCBIHuRef
CHM1_11667,868,459 - 67,934,640 (+)NCBICHM1_1
T2T-CHM13v2.01672,221,512 - 72,289,583 (+)NCBIT2T-CHM13v2.0
Bean1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398104,897,110 - 104,945,730 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8104,897,074 - 104,945,754 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm388104,170,379 - 104,219,098 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8104,170,442 - 104,219,122 (+)Ensemblmm10GRCm38
MGSCv378106,694,413 - 106,742,998 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv368107,057,027 - 107,108,251 (+)NCBIMGSCv36mm8
Celera8108,374,057 - 108,450,555 (+)NCBICelera
Cytogenetic Map8D3NCBI
cM Map853.04NCBI
Bean1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543323,017,335 - 23,061,467 (+)Ensembl
ChiLan1.0NW_00495543323,017,335 - 23,059,054 (+)NCBIChiLan1.0ChiLan1.0
BEAN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21875,929,750 - 76,007,144 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11681,841,858 - 81,895,598 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01646,745,246 - 46,813,376 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11665,857,543 - 65,902,996 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1665,857,543 - 65,913,340 (+)EnsemblpanPan2panpan1.1
BEAN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1582,772,693 - 82,803,066 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl582,772,685 - 82,798,667 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha582,760,976 - 82,795,925 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0583,209,313 - 83,244,274 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl583,209,310 - 83,239,674 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1583,032,308 - 83,067,248 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0582,725,642 - 82,760,725 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0583,357,825 - 83,392,945 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Bean1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934942,750,977 - 42,787,830 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647516,791,640 - 16,838,137 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647516,801,307 - 16,838,127 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BEAN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl627,176,024 - 27,215,367 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1627,176,023 - 27,217,749 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
BEAN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1552,121,684 - 52,182,820 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604723,732,410 - 23,794,171 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Bean1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474619,969,508 - 20,015,660 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474619,970,532 - 20,015,592 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Bean1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11712,468,233 - 12,514,903 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Bean1
310 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:102
Count of miRNA genes:62
Interacting mature miRNAs:65
Transcripts:ENSRNOT00000017774, ENSRNOT00000064781
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
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131969901Rat
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124694445Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127361636Rat

Markers in Region
RH130313  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.219739,726 - 739,939 (+)MAPPERmRatBN7.2
Rnor_6.019948,038 - 948,250NCBIRnor6.0
Rnor_5.019948,950 - 949,162UniSTSRnor5.0
RGSC_v3.419698,373 - 698,585UniSTSRGSC3.4
Celera19734,928 - 735,140UniSTS
RH 3.4 Map190.0UniSTS
Cytogenetic Map19p14UniSTS
RH129036  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.219739,604 - 739,817 (+)MAPPERmRatBN7.2
Rnor_6.019947,916 - 948,128NCBIRnor6.0
Rnor_5.019948,828 - 949,040UniSTSRnor5.0
RGSC_v3.419698,251 - 698,463UniSTSRGSC3.4
Celera19734,806 - 735,018UniSTS
RH 3.4 Map190.0UniSTS
Cytogenetic Map19p14UniSTS


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 67 156 91 90 59 66 59 6 321 166 11 135 72 92 31 15 15

Sequence


Ensembl Acc Id: ENSRNOT00000017774   ⟹   ENSRNOP00000017774
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl19949,607 - 955,626 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000064781   ⟹   ENSRNOP00000062938
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl19949,607 - 983,556 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000095190   ⟹   ENSRNOP00000085069
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl19745,993 - 792,045 (-)Ensembl
mRatBN7.2 Ensembl19739,551 - 787,537 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000101901   ⟹   ENSRNOP00000082959
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl19745,993 - 782,130 (-)Ensembl
mRatBN7.2 Ensembl19739,571 - 787,537 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000112028   ⟹   ENSRNOP00000083124
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl19745,993 - 781,679 (-)Ensembl
mRatBN7.2 Ensembl19739,551 - 787,537 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000138075   ⟹   ENSRNOP00000102400
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl19745,993 - 793,039 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000169800   ⟹   ENSRNOP00000110676
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl19745,993 - 792,853 (-)Ensembl
RefSeq Acc Id: NM_001400978   ⟹   NP_001387907
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819745,993 - 792,853 (-)NCBI
mRatBN7.219739,564 - 786,395 (-)NCBI
RefSeq Acc Id: XM_008772259   ⟹   XP_008770481
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819745,993 - 792,156 (-)NCBI
mRatBN7.219739,551 - 785,693 (-)NCBI
Rnor_6.019947,862 - 993,467 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039098227   ⟹   XP_038954155
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819745,993 - 792,156 (-)NCBI
mRatBN7.219739,551 - 785,693 (-)NCBI
RefSeq Acc Id: XM_039098228   ⟹   XP_038954156
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819745,993 - 781,652 (-)NCBI
mRatBN7.219739,551 - 775,242 (-)NCBI
RefSeq Acc Id: XM_039098229   ⟹   XP_038954157
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819745,993 - 782,182 (-)NCBI
mRatBN7.219739,551 - 777,243 (-)NCBI
RefSeq Acc Id: XM_039098230   ⟹   XP_038954158
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819745,993 - 792,585 (-)NCBI
mRatBN7.219743,361 - 786,122 (-)NCBI
RefSeq Acc Id: XP_008770481   ⟸   XM_008772259
- Peptide Label: isoform X1
- UniProtKB: A0A8I6GBJ0 (UniProtKB/TrEMBL),   A0A8I5ZYA5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000017774   ⟸   ENSRNOT00000017774
Ensembl Acc Id: ENSRNOP00000062938   ⟸   ENSRNOT00000064781
RefSeq Acc Id: XP_038954155   ⟸   XM_039098227
- Peptide Label: isoform X2
- UniProtKB: A0A8I5ZYA5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038954157   ⟸   XM_039098229
- Peptide Label: isoform X3
- UniProtKB: A6JXX1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038954156   ⟸   XM_039098228
- Peptide Label: isoform X3
- UniProtKB: A6JXX1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038954158   ⟸   XM_039098230
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000085069   ⟸   ENSRNOT00000095190
Ensembl Acc Id: ENSRNOP00000083124   ⟸   ENSRNOT00000112028
Ensembl Acc Id: ENSRNOP00000082959   ⟸   ENSRNOT00000101901
RefSeq Acc Id: NP_001387907   ⟸   NM_001400978
- UniProtKB: A0A8I5ZYA5 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000110676   ⟸   ENSRNOT00000169800
Ensembl Acc Id: ENSRNOP00000102400   ⟸   ENSRNOT00000138075

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZFF6-F1-model_v2 AlphaFold D3ZFF6 1-324 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:1562003 AgrOrtholog
BioCyc Gene G2FUF-6633 BioCyc
Ensembl Genes ENSRNOG00000013301 Ensembl
  ENSRNOG00000066314 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000095190 ENTREZGENE
  ENSRNOT00000095190.2 UniProtKB/TrEMBL
  ENSRNOT00000101901.2 UniProtKB/TrEMBL
  ENSRNOT00000112028 ENTREZGENE
  ENSRNOT00000112028.2 UniProtKB/TrEMBL
  ENSRNOT00000138075.1 UniProtKB/TrEMBL
  ENSRNOT00000169800 ENTREZGENE
  ENSRNOT00000169800.1 UniProtKB/TrEMBL
InterPro BEAN1 UniProtKB/TrEMBL
NCBI Gene 361358 ENTREZGENE
PANTHER PROTEIN BEAN1 UniProtKB/TrEMBL
  PTHR36464 UniProtKB/TrEMBL
PhenoGen Bean1 PhenoGen
RatGTEx ENSRNOG00000013301 RatGTEx
  ENSRNOG00000066314 RatGTEx
UniProt A0A8I5ZYA5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZYP9_RAT UniProtKB/TrEMBL
  A0A8I6GBJ0 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LPW7_RAT UniProtKB/TrEMBL
  A0ABK0LYS1_RAT UniProtKB/TrEMBL
  A6JXX1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Bean1  brain expressed, associated with NEDD4, 1  Bean1  brain expressed, associated with NEDD4, 1  Data merged from RGD:149736398 737654 PROVISIONAL
2021-08-09 Bean1  brain expressed, associated with NEDD4, 1      Symbol and Name status set to provisional 45752 PROVISIONAL
2008-02-29 Bean  brain expressed, associated with Nedd4  RGD1562003_predicted  similar to Nedd4-binding brain specific protein BEAN (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1562003_predicted  similar to Nedd4-binding brain specific protein BEAN (predicted)  LOC361358  similar to Nedd4-binding brain specific protein BEAN  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC361358  similar to Nedd4-binding brain specific protein BEAN      Symbol and Name status set to provisional 70820 PROVISIONAL