Rbm11 (RNA binding motif protein 11) - Rat Genome Database

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Gene: Rbm11 (RNA binding motif protein 11) Rattus norvegicus
Analyze
Symbol: Rbm11
Name: RNA binding motif protein 11
RGD ID: 1305195
Description: Predicted to enable poly(U) RNA binding activity and protein homodimerization activity. Predicted to be involved in regulation of alternative mRNA splicing, via spliceosome. Predicted to act upstream of or within cellular response to oxidative stress. Predicted to be located in nuclear speck. Predicted to be active in nucleus. Orthologous to human RBM11 (RNA binding motif protein 11); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; amphetamine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC288321; splicing regulator RBM11
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
GRCr81127,721,870 - 27,731,125 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1127,721,866 - 27,731,120 (+)EnsemblGRCr8
mRatBN7.21114,234,851 - 14,244,092 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1114,234,890 - 14,244,090 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1122,859,949 - 22,869,159 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01115,586,333 - 15,595,543 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01114,754,201 - 14,763,411 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01114,005,704 - 14,015,723 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1114,005,732 - 14,014,962 (+)Ensemblrn6Rnor6.0
Rnor_5.01117,664,383 - 17,674,391 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41114,381,923 - 14,391,904 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1114,248,500 - 14,258,481 (+)NCBICelera
RGSC_v3.11114,379,374 - 14,390,086 (+)NCBI
Cytogenetic Map11p11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nuclear speck  (ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,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. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:21984414  


Genomics

Comparative Map Data
Rbm11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81127,721,870 - 27,731,125 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1127,721,866 - 27,731,120 (+)EnsemblGRCr8
mRatBN7.21114,234,851 - 14,244,092 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1114,234,890 - 14,244,090 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1122,859,949 - 22,869,159 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01115,586,333 - 15,595,543 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01114,754,201 - 14,763,411 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01114,005,704 - 14,015,723 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1114,005,732 - 14,014,962 (+)Ensemblrn6Rnor6.0
Rnor_5.01117,664,383 - 17,674,391 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41114,381,923 - 14,391,904 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1114,248,500 - 14,258,481 (+)NCBICelera
RGSC_v3.11114,379,374 - 14,390,086 (+)NCBI
Cytogenetic Map11p11NCBI
RBM11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382114,216,157 - 14,228,372 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2114,216,130 - 14,228,372 (+)Ensemblhg38GRCh38
GRCh372115,588,478 - 15,600,693 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362114,510,350 - 14,522,552 (+)NCBIBuild 36Build 36hg18NCBI36
Build 342114,510,349 - 14,522,552NCBI
Celera21745,717 - 757,944 (+)NCBICelera
Cytogenetic Map21q11.2NCBI
HuRef21958,833 - 971,058 (+)NCBIHuRef
CHM1_12115,148,999 - 15,161,227 (+)NCBICHM1_1
T2T-CHM13v2.02112,558,865 - 12,571,078 (+)NCBIT2T-CHM13v2.0
Rbm11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391675,389,796 - 75,399,706 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1675,389,732 - 75,399,717 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381675,592,844 - 75,602,825 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1675,592,844 - 75,602,829 (+)Ensemblmm10GRCm38
MGSCv371675,593,136 - 75,603,070 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361675,475,524 - 75,484,382 (+)NCBIMGSCv36mm8
Celera1675,829,936 - 75,839,869 (+)NCBICelera
Cytogenetic Map16C3.1NCBI
cM Map1643.22NCBI
Rbm11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540716,071,208 - 16,081,949 (+)Ensembl
ChiLan1.0NW_00495540716,071,186 - 16,082,332 (+)NCBIChiLan1.0ChiLan1.0
RBM11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22210,693,134 - 10,705,375 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1215,526,875 - 5,538,726 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v021942,533 - 954,775 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12114,309,922 - 14,322,142 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2114,309,883 - 14,322,142 (+)EnsemblpanPan2panpan1.1
RBM11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13111,204,273 - 11,217,526 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3111,203,207 - 11,217,509 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3111,215,073 - 11,228,492 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03111,228,501 - 11,241,994 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3111,228,404 - 11,241,994 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13111,201,584 - 11,215,096 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03111,239,110 - 11,252,365 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03111,635,470 - 11,648,982 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Rbm11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497112,327,134 - 12,337,002 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365057,246,844 - 7,256,790 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365057,246,854 - 7,256,763 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RBM11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13179,180,467 - 179,191,924 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.113179,180,611 - 179,191,934 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213189,369,722 - 189,381,248 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103247054
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1278,390,304 - 78,395,739 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605075,603,734 - 75,618,143 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rbm11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247452,685,372 - 2,697,518 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247452,685,445 - 2,696,791 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Rbm11
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1466,404,196 - 66,412,416 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Rbm11
120 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:312
Count of miRNA genes:204
Interacting mature miRNAs:234
Transcripts:ENSRNOT00000047240
Prediction methods:Microtar, Miranda, 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
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)112252474682951192Rat
2290451Scl58Serum cholesterol level QTL 583.48blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)112631803155806125Rat
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11381815448818154Rat
1600394Edcs1Endometrial carcinoma susceptibility QTL12.90.04uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)111282315257823152Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112019354996351019Rat
634339Niddm50Non-insulin dependent diabetes mellitus QTL 503.32blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)111080612555806125Rat
631510Spl2Serum phospholipid level QTL 24.1blood phospholipid amount (VT:0006084)serum phospholipid level (CMO:0001171)112755668572556685Rat

Markers in Region
AW527929  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21114,243,867 - 14,244,043 (+)MAPPERmRatBN7.2
Rnor_6.01114,014,745 - 14,014,920NCBIRnor6.0
Rnor_5.01117,673,413 - 17,673,588UniSTSRnor5.0
RGSC_v3.41114,390,926 - 14,391,101UniSTSRGSC3.4
Celera1114,257,503 - 14,257,678UniSTS
Cytogenetic Map11p11UniSTS


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
15 6 35 129 38 36 9 67 9 4 208 125 5 109 55 92 27 14 14

Sequence


Ensembl Acc Id: ENSRNOT00000047240   ⟹   ENSRNOP00000046624
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1127,721,866 - 27,731,119 (+)Ensembl
mRatBN7.2 Ensembl1114,234,890 - 14,244,090 (+)Ensembl
Rnor_6.0 Ensembl1114,005,732 - 14,014,962 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000172626   ⟹   ENSRNOP00000111955
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1127,722,339 - 27,731,120 (+)Ensembl
RefSeq Acc Id: NM_001401847   ⟹   NP_001388776
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81127,721,911 - 27,731,120 (+)NCBI
mRatBN7.21114,234,878 - 14,244,087 (+)NCBI
RefSeq Acc Id: XM_006247995   ⟹   XP_006248057
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81127,721,870 - 27,731,125 (+)NCBI
mRatBN7.21114,234,851 - 14,244,092 (+)NCBI
Rnor_6.01114,005,704 - 14,014,964 (+)NCBI
Rnor_5.01117,664,383 - 17,674,391 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001388776 (Get FASTA)   NCBI Sequence Viewer  
  XP_006248057 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM10578 (Get FASTA)   NCBI Sequence Viewer  
  EDM10579 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000046624
  ENSRNOP00000046624.7
  ENSRNOP00000111955.1
RefSeq Acc Id: XP_006248057   ⟸   XM_006247995
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000046624   ⟸   ENSRNOT00000047240
RefSeq Acc Id: NP_001388776   ⟸   NM_001401847
Ensembl Acc Id: ENSRNOP00000111955   ⟸   ENSRNOT00000172626

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZQ24-F1-model_v2 AlphaFold D3ZQ24 1-238 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:1305195 AgrOrtholog
BioCyc Gene G2FUF-22234 BioCyc
Ensembl Genes ENSRNOG00000029147 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000047240 ENTREZGENE
  ENSRNOT00000047240.7 UniProtKB/TrEMBL
  ENSRNOT00000172626.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.330 UniProtKB/TrEMBL
InterPro NEXT_complex_subunit UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RRM_RNP1 UniProtKB/TrEMBL
NCBI Gene 288321 ENTREZGENE
PANTHER RNA BINDING MOTIF RBM PROTEIN -RELATED UniProtKB/TrEMBL
  SPLICING REGULATOR RBM11 UniProtKB/TrEMBL
Pfam RRM_1 UniProtKB/TrEMBL
PhenoGen Rbm11 PhenoGen
PROSITE RRM UniProtKB/TrEMBL
RatGTEx ENSRNOG00000029147 RatGTEx
SMART RRM UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/TrEMBL
UniProt A0ABK0M7M4_RAT UniProtKB/TrEMBL
  D3ZQ24_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Rbm11  RNA binding motif protein 11   Rbm11_predicted  RNA binding motif protein 11 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Rbm11_predicted  RNA binding motif protein 11 (predicted)      Symbol and Name status set to approved 70820 APPROVED