Rbmx2 (RNA binding motif protein, X-linked 2) - Rat Genome Database

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Gene: Rbmx2 (RNA binding motif protein, X-linked 2) Rattus norvegicus
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Symbol: Rbmx2
Name: RNA binding motif protein, X-linked 2
RGD ID: 1562693
Description: Predicted to enable RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in nucleus. Predicted to be part of U2 snRNP and U2-type precatalytic spliceosome. Orthologous to human RBMX2 (RNA binding motif protein X-linked 2); INTERACTS WITH 6-propyl-2-thiouracil; amitrole; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC367930; RGD1562693; RNA-binding motif protein, X-linked 2; similar to RNA binding motif protein, X-linked 2
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
GRCr8X132,766,395 - 132,774,120 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX132,757,012 - 132,774,750 (+)EnsemblGRCr8
mRatBN7.2X127,888,514 - 127,896,239 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX127,888,438 - 127,896,869 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX130,014,285 - 130,022,027 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X133,585,048 - 133,592,773 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X131,111,456 - 131,119,198 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X135,550,931 - 135,558,440 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX135,550,834 - 135,558,440 (+)Ensemblrn6Rnor6.0
Rnor_5.0X135,621,255 - 135,628,591 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X135,113,789 - 135,121,414 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX126,836,235 - 126,843,698 (+)NCBICelera
Cytogenetic MapXq36NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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:12477932   PMID:22658674   PMID:29360106  


Genomics

Comparative Map Data
Rbmx2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X132,766,395 - 132,774,120 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX132,757,012 - 132,774,750 (+)EnsemblGRCr8
mRatBN7.2X127,888,514 - 127,896,239 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX127,888,438 - 127,896,869 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX130,014,285 - 130,022,027 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X133,585,048 - 133,592,773 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X131,111,456 - 131,119,198 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X135,550,931 - 135,558,440 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX135,550,834 - 135,558,440 (+)Ensemblrn6Rnor6.0
Rnor_5.0X135,621,255 - 135,628,591 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X135,113,789 - 135,121,414 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX126,836,235 - 126,843,698 (+)NCBICelera
Cytogenetic MapXq36NCBI
RBMX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X130,401,987 - 130,413,656 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX130,401,922 - 130,413,656 (+)Ensemblhg38GRCh38
GRCh37X129,535,961 - 129,547,630 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X129,363,624 - 129,374,998 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34X129,261,758 - 129,273,163NCBI
CeleraX129,922,409 - 129,933,783 (+)NCBICelera
Cytogenetic MapXq26.1NCBI
HuRefX118,931,323 - 118,942,334 (+)NCBIHuRef
CHM1_1X129,447,576 - 129,458,950 (+)NCBICHM1_1
T2T-CHM13v2.0X128,721,817 - 128,733,484 (+)NCBIT2T-CHM13v2.0
Rbmx2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X47,783,881 - 47,799,596 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX47,783,881 - 47,799,600 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38X48,695,004 - 48,710,719 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX48,695,004 - 48,710,723 (+)Ensemblmm10GRCm38
MGSCv37X46,048,181 - 46,063,896 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36X44,939,631 - 44,955,346 (+)NCBIMGSCv36mm8
CeleraX36,198,827 - 36,211,268 (+)NCBICelera
Cytogenetic MapXA5NCBI
cM MapX25.69NCBI
Rbmx2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554734,654,748 - 4,664,590 (-)Ensembl
ChiLan1.0NW_0049554734,654,257 - 4,664,419 (-)NCBIChiLan1.0ChiLan1.0
RBMX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X129,822,590 - 129,833,670 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X129,826,204 - 129,837,284 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X119,528,923 - 119,540,319 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X129,820,864 - 129,831,902 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX129,820,864 - 129,831,902 (+)EnsemblpanPan2panpan1.1
RBMX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X101,533,732 - 101,547,147 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX101,533,835 - 101,544,552 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_TashaX87,711,320 - 87,724,740 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0X103,393,045 - 103,406,509 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX103,393,156 - 103,406,483 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X100,807,764 - 100,821,183 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X102,653,440 - 102,666,817 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X102,431,938 - 102,445,358 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Rbmx2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X99,741,791 - 99,754,645 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364791,233,899 - 1,245,619 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364791,232,921 - 1,245,665 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RBMX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX106,880,912 - 106,890,390 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1X106,880,912 - 106,890,391 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
RBMX2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X105,660,294 - 105,671,417 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX105,660,614 - 105,670,921 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606543,080,371 - 43,091,846 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rbmx2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247979,679,171 - 9,690,066 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247979,679,066 - 9,689,943 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Rbmx2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1X109,597,162 - 109,605,198 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Rbmx2
16 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:171
Count of miRNA genes:134
Interacting mature miRNAs:138
Transcripts:ENSRNOT00000048922
Prediction methods:Microtar, Miranda, Pita, 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
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X97528096142528096Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X120028026141353710Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X120028026141353710Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX105359969157758123Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X118973754157758123Rat
2302047Pia34Pristane induced arthritis QTL 345.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1996916163141916163Rat

Markers in Region
RH137421  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X127,895,929 - 127,896,126 (+)MAPPERmRatBN7.2
Rnor_6.0X135,558,131 - 135,558,327NCBIRnor6.0
Rnor_5.0X135,628,282 - 135,628,478UniSTSRnor5.0
RGSC_v3.4X135,121,105 - 135,121,301UniSTSRGSC3.4
CeleraX126,843,389 - 126,843,585UniSTS
RH 3.4 MapX925.2UniSTS
Cytogenetic MapXq35UniSTS


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 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000048922   ⟹   ENSRNOP00000043159
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX132,766,338 - 132,774,750 (+)Ensembl
mRatBN7.2 EnsemblX127,888,438 - 127,896,869 (+)Ensembl
Rnor_6.0 EnsemblX135,550,834 - 135,558,440 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000093484
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX132,757,012 - 132,774,750 (+)Ensembl
mRatBN7.2 EnsemblX127,888,606 - 127,896,869 (+)Ensembl
Rnor_6.0 EnsemblX135,550,986 - 135,557,929 (+)Ensembl
RefSeq Acc Id: NM_001113786   ⟹   NP_001107258
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X132,766,395 - 132,774,120 (+)NCBI
mRatBN7.2X127,888,514 - 127,896,239 (+)NCBI
Rnor_6.0X135,550,931 - 135,558,440 (+)NCBI
Rnor_5.0X135,621,255 - 135,628,591 (+)NCBI
RGSC_v3.4X135,113,789 - 135,121,414 (+)RGD
CeleraX126,836,235 - 126,843,698 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001107258 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI58685 (Get FASTA)   NCBI Sequence Viewer  
  B0BN49 (Get FASTA)   NCBI Sequence Viewer  
  EDM10926 (Get FASTA)   NCBI Sequence Viewer  
  EDM10927 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000043159
  ENSRNOP00000043159.4
RefSeq Acc Id: NP_001107258   ⟸   NM_001113786
- UniProtKB: B0BN49 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000043159   ⟸   ENSRNOT00000048922
Protein Domains
RRM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B0BN49-F1-model_v2 AlphaFold B0BN49 1-328 view protein structure

Transcriptome

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

Promoters
RGD ID:13702015
Promoter ID:EPDNEW_R12538
Type:initiation region
Name:Rbmx2_1
Description:RNA binding motif protein, X-linked 2
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_6.0X135,550,894 - 135,550,954EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562693 AgrOrtholog
BioCyc Gene G2FUF-1125 BioCyc
Ensembl Genes ENSRNOG00000007371 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000048922 ENTREZGENE
  ENSRNOT00000048922.7 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:8373764 IMAGE-MGC_LOAD
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot
  RBD_domain_sf UniProtKB/Swiss-Prot
  RNA_proc/Spliceosome_comp UniProtKB/Swiss-Prot
  RRM_dom UniProtKB/Swiss-Prot
  RRM_Ist3_like UniProtKB/Swiss-Prot
KEGG Report rno:367930 UniProtKB/Swiss-Prot
MGC_CLONE MGC:187694 IMAGE-MGC_LOAD
NCBI Gene 367930 ENTREZGENE
PANTHER RNA-BINDING MOTIF PROTEIN, X-LINKED 2 UniProtKB/Swiss-Prot
  RNA-BINDING MOTIF PROTEIN, X-LINKED 2 UniProtKB/Swiss-Prot
Pfam RRM_1 UniProtKB/Swiss-Prot
PhenoGen Rbmx2 PhenoGen
PROSITE RRM UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000007371 RatGTEx
SMART RRM UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54928 UniProtKB/Swiss-Prot
UniProt A0A8I5ZNI0_RAT UniProtKB/TrEMBL
  B0BN49 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-29 Rbmx2  RNA binding motif protein, X-linked 2  RGD1562693_predicted  similar to RNA binding motif protein, X-linked 2 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1562693_predicted  similar to RNA binding motif protein, X-linked 2 (predicted)  LOC367930  similar to RNA binding motif protein, X-linked 2  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC367930  similar to RNA binding motif protein, X-linked 2      Symbol and Name status set to provisional 70820 PROVISIONAL