Bmerb1 (bMERB domain containing 1) - Rat Genome Database

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Gene: Bmerb1 (bMERB domain containing 1) Rattus norvegicus
Analyze
Symbol: Bmerb1
Name: bMERB domain containing 1
RGD ID: 1305733
Description: Predicted to be involved in negative regulation of microtubule depolymerization. Predicted to act upstream of or within negative regulation of cell motility involved in cerebral cortex radial glia guided migration. Predicted to be active in microtubule cytoskeleton. Orthologous to human BMERB1 (bMERB domain containing 1); INTERACTS WITH (+)-schisandrin B; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: bMERB domain-containing protein 1; hypothetical protein LOC360459; LOC360459; MGC109261; RGD1305733; similar to RIKEN cDNA 2900011O08; uncharacterized protein C16orf45 homolog
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
GRCr8102,286,999 - 2,453,890 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl102,287,000 - 2,453,728 (-)EnsemblGRCr8
mRatBN7.2101,779,834 - 1,946,586 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl101,779,835 - 1,946,575 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx106,476,673 - 6,643,420 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01033,922,423 - 34,089,180 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0101,683,266 - 1,849,924 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0103,411,380 - 3,570,689 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl103,411,380 - 3,570,688 (+)Ensemblrn6Rnor6.0
Rnor_5.0102,286,728 - 2,443,753 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41072,759 - 187,515 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera10824,575 - 981,223 (-)NCBICelera
RGSC_v3.11072,758 - 187,514 (+)NCBI
Cytogenetic Map10q11NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
microtubule cytoskeleton  (IBA,IEA,ISO)

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 MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. 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:15489334   PMID:25099998  


Genomics

Comparative Map Data
Bmerb1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8102,286,999 - 2,453,890 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl102,287,000 - 2,453,728 (-)EnsemblGRCr8
mRatBN7.2101,779,834 - 1,946,586 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl101,779,835 - 1,946,575 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx106,476,673 - 6,643,420 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01033,922,423 - 34,089,180 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0101,683,266 - 1,849,924 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0103,411,380 - 3,570,689 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl103,411,380 - 3,570,688 (+)Ensemblrn6Rnor6.0
Rnor_5.0102,286,728 - 2,443,753 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41072,759 - 187,515 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera10824,575 - 981,223 (-)NCBICelera
RGSC_v3.11072,758 - 187,514 (+)NCBI
Cytogenetic Map10q11NCBI
BMERB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381615,434,588 - 15,588,259 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1615,434,475 - 15,625,028 (+)Ensemblhg38GRCh38
GRCh371615,528,445 - 15,682,116 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361615,435,826 - 15,589,418 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341615,435,825 - 15,589,418NCBI
Celera1615,208,794 - 15,362,586 (+)NCBICelera
Cytogenetic Map16p13.11NCBI
HuRef1614,921,797 - 15,075,991 (+)NCBIHuRef
CHM1_11615,612,671 - 15,766,478 (+)NCBICHM1_1
T2T-CHM13v2.01615,439,375 - 15,593,064 (+)NCBIT2T-CHM13v2.0
Bmerb1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391613,802,975 - 13,922,916 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1613,804,468 - 13,919,364 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381613,986,612 - 14,105,052 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1613,986,604 - 14,101,500 (+)Ensemblmm10GRCm38
MGSCv371613,986,730 - 14,101,587 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361613,900,239 - 14,014,865 (+)NCBIMGSCv36mm8
Celera1614,591,870 - 14,707,984 (+)NCBICelera
Cytogenetic Map16A1NCBI
cM Map169.66NCBI
Bmerb1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955442314,486 - 442,088 (+)Ensembl
ChiLan1.0NW_004955442317,334 - 442,514 (+)NCBIChiLan1.0ChiLan1.0
BMERB1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21815,486,464 - 15,644,479 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11619,269,638 - 19,427,230 (+)NCBINHGRI_mPanPan1
PanPan1.11615,737,496 - 15,893,578 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1615,737,850 - 15,892,145 (+)EnsemblpanPan2panpan1.1
BMERB1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1628,242,190 - 28,356,218 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl628,225,677 - 28,357,180 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha629,588,559 - 29,719,248 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0628,388,572 - 28,518,953 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl628,404,443 - 28,518,923 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1628,191,663 - 28,322,094 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0628,081,920 - 28,212,193 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0628,487,151 - 28,617,926 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Bmerb1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344114,965,996 - 115,045,025 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365013,063,617 - 3,143,028 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365013,063,861 - 3,142,680 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BMERB1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl37,248,827 - 7,387,518 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.137,248,806 - 7,387,523 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
BMERB1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1514,434,349 - 14,600,624 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl514,434,365 - 14,600,935 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606815,440,391 - 15,607,435 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Bmerb1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478275,066 - 184,590 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462478275,141 - 184,590 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Bmerb1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v198,839,602 - 8,963,241 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Bmerb1
756 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:667
Count of miRNA genes:291
Interacting mature miRNAs:369
Transcripts:ENSRNOT00000004346
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
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135730538Rat
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10130004247Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1092219745922197Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)10210370847103708Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
1549898Neuinf3Neuroinflammation QTL 326.4nervous system integrity trait (VT:0010566)MHC Class II RT1A-positive spinal cord ventral horn area to total spinal cord ventral horn area ratio (CMO:0001980)1015893911Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10117749933Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138832698Rat

Markers in Region
RH142685  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01011,642,515 - 11,642,640NCBIRnor5.0
Rnor_5.0102,443,358 - 2,443,483NCBIRnor5.0
Rnor_5.01082,783 - 82,908NCBIRnor5.0
RGSC_v3.410881,004 - 881,128UniSTSRGSC3.4
RGSC_v3.410187,121 - 187,245UniSTSRGSC3.4
Celera10824,845 - 824,969UniSTS
Celera1013,533 - 13,657UniSTS
Cytogenetic Map10q11UniSTS
AU046868  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8102,388,909 - 2,389,079 (+)Marker Load Pipeline
mRatBN7.2101,881,754 - 1,881,924 (-)MAPPERmRatBN7.2
Rnor_6.0103,472,898 - 3,473,067NCBIRnor6.0
Rnor_5.0102,348,258 - 2,348,427UniSTSRnor5.0
RGSC_v3.41074,650 - 74,819UniSTSRGSC3.4
Celera10916,956 - 917,125UniSTS
Cytogenetic Map10q11UniSTS
RH137694  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2101,780,022 - 1,780,199 (-)MAPPERmRatBN7.2
Rnor_6.0103,570,324 - 3,570,500NCBIRnor6.0
Rnor_5.0102,443,388 - 2,443,564UniSTSRnor5.0
RGSC_v3.410187,150 - 187,326UniSTSRGSC3.4
Celera10824,764 - 824,940UniSTS
Cytogenetic Map10q11UniSTS


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
14 8 26 145 80 72 49 29 49 2 222 71 1 128 80 92 23 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000004346   ⟹   ENSRNOP00000004346
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl102,287,000 - 2,453,728 (-)Ensembl
mRatBN7.2 Ensembl101,779,835 - 1,946,575 (-)Ensembl
Rnor_6.0 Ensembl103,411,380 - 3,570,688 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000099612   ⟹   ENSRNOP00000092673
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl101,779,835 - 1,936,306 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000108164   ⟹   ENSRNOP00000077488
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl102,287,000 - 2,453,728 (-)Ensembl
mRatBN7.2 Ensembl101,779,835 - 1,946,575 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000110282   ⟹   ENSRNOP00000083856
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl102,293,232 - 2,453,728 (-)Ensembl
mRatBN7.2 Ensembl101,786,071 - 1,946,575 (-)Ensembl
RefSeq Acc Id: NM_001014114   ⟹   NP_001014136
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8102,286,999 - 2,453,728 (-)NCBI
mRatBN7.2101,779,834 - 1,946,575 (-)NCBI
Rnor_6.0103,411,380 - 3,570,689 (+)NCBI
Rnor_5.0102,286,728 - 2,443,753 (+)NCBI
RGSC_v3.41072,759 - 187,515 (+)RGD
Celera10824,575 - 981,223 (-)RGD
Sequence:
RefSeq Acc Id: XM_039086245   ⟹   XP_038942173
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8102,286,999 - 2,453,890 (-)NCBI
mRatBN7.2101,779,834 - 1,946,586 (-)NCBI
RefSeq Acc Id: XM_063269270   ⟹   XP_063125340
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8102,288,351 - 2,453,890 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001014136 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942173 (Get FASTA)   NCBI Sequence Viewer  
  XP_063125340 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH89943 (Get FASTA)   NCBI Sequence Viewer  
  EDL96171 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000004346
  ENSRNOP00000004346.6
GenBank Protein Q5FVJ5 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001014136   ⟸   NM_001014114
- UniProtKB: Q5FVJ5 (UniProtKB/Swiss-Prot),   A6K4E9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000004346   ⟸   ENSRNOT00000004346
RefSeq Acc Id: XP_038942173   ⟸   XM_039086245
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000083856   ⟸   ENSRNOT00000110282
Ensembl Acc Id: ENSRNOP00000077488   ⟸   ENSRNOT00000108164
Ensembl Acc Id: ENSRNOP00000092673   ⟸   ENSRNOT00000099612
RefSeq Acc Id: XP_063125340   ⟸   XM_063269270
- Peptide Label: isoform X2
- UniProtKB: A6K4E9 (UniProtKB/TrEMBL)
Protein Domains
bMERB

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5FVJ5-F1-model_v2 AlphaFold Q5FVJ5 1-203 view protein structure

Transcriptome

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

Promoters
RGD ID:13696931
Promoter ID:EPDNEW_R7456
Type:single initiation site
Name:RGD1305733_1
Description:similar to RIKEN cDNA 2900011O08
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0103,411,407 - 3,411,467EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305733 AgrOrtholog
BioCyc Gene G2FUF-26217 BioCyc
Ensembl Genes ENSRNOG00000003198 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000004346 ENTREZGENE
  ENSRNOT00000004346.7 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7311457 IMAGE-MGC_LOAD
InterPro bMERB_dom UniProtKB/Swiss-Prot
  C16orf45-like UniProtKB/Swiss-Prot
KEGG Report rno:360459 UniProtKB/Swiss-Prot
MGC_CLONE MGC:109261 IMAGE-MGC_LOAD
NCBI Gene 360459 ENTREZGENE
PANTHER BMERB DOMAIN-CONTAINING PROTEIN 1 UniProtKB/Swiss-Prot
  PTHR22704 UniProtKB/Swiss-Prot
Pfam DUF3585 UniProtKB/Swiss-Prot
PhenoGen Bmerb1 PhenoGen
PROSITE BMERB UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000003198 RatGTEx
SMART DUF3585 UniProtKB/Swiss-Prot
UniProt A0A8I5Y9K0_RAT UniProtKB/TrEMBL
  A0A8I5ZW34_RAT UniProtKB/TrEMBL
  A6K4E9 ENTREZGENE, UniProtKB/TrEMBL
  MERB1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-08-05 Bmerb1  bMERB domain containing 1  RGD1305733  similar to RIKEN cDNA 2900011O08  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1305733  similar to RIKEN cDNA 2900011O08  RGD1305733_predicted  similar to RIKEN cDNA 2900011O08 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1305733_predicted  similar to RIKEN cDNA 2900011O08 (predicted)  LOC360459_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC360459_predicted  similar to RIKEN cDNA 2900011O08 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL