RBM3 (RNA binding motif protein 3) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: RBM3 (RNA binding motif protein 3) Sus scrofa
Analyze
Symbol: RBM3
Name: RNA binding motif protein 3
RGD ID: 14263311
Description: ENCODES a protein that exhibits ribosomal large subunit binding (inferred); RNA binding (inferred); INVOLVED IN miRNA processing (ortholog); positive regulation of translation (ortholog); response to cold (ortholog); ASSOCIATED WITH autistic disorder (ortholog); Breast Neoplasms (ortholog); congenital disorder of glycosylation type IIm (ortholog); FOUND IN dendrite (ortholog); large ribosomal subunit (ortholog); nucleus (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: RNA binding motif (RNP1, RRM) protein 3; RNA-binding protein 3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX42,704,028 - 42,707,577 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X42,704,019 - 42,707,587 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X47,591,642 - 47,595,208 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:14681463   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
RBM3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX42,704,028 - 42,707,577 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X42,704,019 - 42,707,587 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X47,591,642 - 47,595,208 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RBM3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X48,574,484 - 48,581,162 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX48,574,449 - 48,581,162 (+)EnsemblGRCh38hg38GRCh38
GRCh37X48,432,872 - 48,439,550 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X48,317,780 - 48,321,748 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X48,189,165 - 48,192,925NCBI
CeleraX53,228,934 - 53,232,902 (-)NCBICelera
Cytogenetic MapXp11.23NCBI
HuRefX46,096,108 - 46,133,256 (+)NCBIHuRef
CHM1_1X48,463,982 - 48,470,795 (+)NCBICHM1_1
T2T-CHM13v2.0X47,983,492 - 47,990,170 (+)NCBIT2T-CHM13v2.0
Rbm3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X8,005,214 - 8,012,119 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX8,005,214 - 8,012,119 (-)EnsemblGRCm39 Ensembl
GRCm38X8,138,975 - 8,145,880 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX8,138,975 - 8,145,880 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X7,716,101 - 7,722,928 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X7,297,026 - 7,302,656 (-)NCBIMGSCv36mm8
CeleraX3,323,024 - 3,329,740 (+)NCBICelera
Cytogenetic MapXA1.1NCBI
cM MapX3.68NCBI
Rbm3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X17,020,863 - 17,024,341 (+)NCBIGRCr8
mRatBN7.2X14,348,909 - 14,352,387 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX14,348,910 - 14,353,580 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX19,162,253 - 19,165,690 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X20,917,390 - 20,920,827 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X17,182,581 - 17,186,018 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X15,098,880 - 15,102,344 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX15,098,904 - 15,102,340 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X15,882,043 - 15,885,505 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X26,379,303 - 26,382,739 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X26,432,807 - 26,434,835 (+)NCBI
CeleraX14,434,002 - 14,437,438 (+)NCBICelera
Cytogenetic MapXq12NCBI
Rbm3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955543166,891 - 170,488 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955543166,891 - 173,987 (+)NCBIChiLan1.0ChiLan1.0
RBM3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X50,063,352 - 50,067,217 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X50,066,705 - 50,070,388 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X40,872,745 - 40,876,611 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X48,734,777 - 48,738,077 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX48,734,777 - 48,738,077 (+)Ensemblpanpan1.1panPan2
RBM3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X41,806,072 - 41,809,803 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX41,806,176 - 41,809,481 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX16,182,453 - 16,195,810 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X50,268,433 - 50,272,150 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX50,268,437 - 50,272,105 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X41,929,113 - 41,942,467 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X41,917,468 - 41,925,838 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X42,011,225 - 42,024,586 (+)NCBIUU_Cfam_GSD_1.0
Rbm3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X34,307,320 - 34,310,922 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936721547,777 - 551,270 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936721547,751 - 551,273 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RBM3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X45,702,974 - 45,707,064 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX45,702,275 - 45,707,075 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607611,178,027 - 11,182,193 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rbm3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624893403,916 - 411,708 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624893403,831 - 407,772 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in RBM3
27 total Variants

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

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 10 4 3 5 2 23 2 3 3
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000030983   ⟹   ENSSSCP00000019428
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX42,704,029 - 42,707,577 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000045733   ⟹   ENSSSCP00000051724
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX42,704,028 - 42,705,638 (+)Ensembl
RefSeq Acc Id: NM_001243419   ⟹   NP_001230348
RefSeq Status: VALIDATED
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1X42,704,049 - 42,707,584 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005657795   ⟹   XP_005657852
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1X42,704,019 - 42,707,587 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005657796   ⟹   XP_005657853
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1X42,704,019 - 42,707,587 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005657797   ⟹   XP_005657854
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1X42,704,019 - 42,707,587 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_005657852   ⟸   XM_005657795
- Peptide Label: isoform X1
- UniProtKB: A0A480JVS5 (UniProtKB/TrEMBL),   A0A8D1B194 (UniProtKB/TrEMBL),   A0A8D2BW55 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005657853   ⟸   XM_005657796
- Peptide Label: isoform X2
- UniProtKB: A0A4X1VF00 (UniProtKB/TrEMBL),   I3L5X7 (UniProtKB/TrEMBL),   A0A8D1IJW2 (UniProtKB/TrEMBL),   A0A8D0M5N2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005657854   ⟸   XM_005657797
- Peptide Label: isoform X2
- UniProtKB: A0A4X1VF00 (UniProtKB/TrEMBL),   I3L5X7 (UniProtKB/TrEMBL),   A0A8D1IJW2 (UniProtKB/TrEMBL),   A0A8D0M5N2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001230348   ⟸   NM_001243419
- UniProtKB: A0A480JVS5 (UniProtKB/TrEMBL),   A0A8D1B194 (UniProtKB/TrEMBL),   A0A8D2BW55 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000019428   ⟸   ENSSSCT00000030983
RefSeq Acc Id: ENSSSCP00000051724   ⟸   ENSSSCT00000045733
Protein Domains
RRM


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000021591 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005044750 UniProtKB/TrEMBL
  ENSSSCG00015067157 UniProtKB/TrEMBL
  ENSSSCG00025066904 UniProtKB/TrEMBL
  ENSSSCG00030055912 UniProtKB/TrEMBL
  ENSSSCG00035071574 UniProtKB/TrEMBL
  ENSSSCG00040032811 UniProtKB/TrEMBL
  ENSSSCG00045026262 UniProtKB/TrEMBL
  ENSSSCG00050076819 UniProtKB/TrEMBL
  ENSSSCG00055001148 UniProtKB/TrEMBL
  ENSSSCG00060078951 UniProtKB/TrEMBL
  ENSSSCG00065078452 UniProtKB/TrEMBL
  ENSSSCG00070024833 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000030983 ENTREZGENE
  ENSSSCT00000030983.3 UniProtKB/TrEMBL
  ENSSSCT00000045733.3 UniProtKB/TrEMBL
  ENSSSCT00005072123.1 UniProtKB/TrEMBL
  ENSSSCT00015090134.1 UniProtKB/TrEMBL
  ENSSSCT00015090270.1 UniProtKB/TrEMBL
  ENSSSCT00025091943.1 UniProtKB/TrEMBL
  ENSSSCT00025092058.1 UniProtKB/TrEMBL
  ENSSSCT00030077940.1 UniProtKB/TrEMBL
  ENSSSCT00030077966.1 UniProtKB/TrEMBL
  ENSSSCT00035096801.1 UniProtKB/TrEMBL
  ENSSSCT00035096825.1 UniProtKB/TrEMBL
  ENSSSCT00040044233.1 UniProtKB/TrEMBL
  ENSSSCT00040044272.1 UniProtKB/TrEMBL
  ENSSSCT00045044699.1 UniProtKB/TrEMBL
  ENSSSCT00045044786.1 UniProtKB/TrEMBL
  ENSSSCT00050105605.1 UniProtKB/TrEMBL
  ENSSSCT00050105609.1 UniProtKB/TrEMBL
  ENSSSCT00055002044.1 UniProtKB/TrEMBL
  ENSSSCT00055002064.1 UniProtKB/TrEMBL
  ENSSSCT00060109249.1 UniProtKB/TrEMBL
  ENSSSCT00060109250.1 UniProtKB/TrEMBL
  ENSSSCT00065108760.1 UniProtKB/TrEMBL
  ENSSSCT00065108776.1 UniProtKB/TrEMBL
  ENSSSCT00070049626.1 UniProtKB/TrEMBL
  ENSSSCT00070049628.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.330 UniProtKB/TrEMBL
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RBM3/CIRBP_RRM UniProtKB/TrEMBL
  RRM_dom UniProtKB/TrEMBL
KEGG Report ssc:100627807 UniProtKB/TrEMBL
NCBI Gene RBM3 ENTREZGENE
PANTHER RNA-BINDING PROTEIN 3 UniProtKB/TrEMBL
  TRANSFORMER-2 SEX-DETERMINING PROTEIN-RELATED UniProtKB/TrEMBL
Pfam RRM_1 UniProtKB/TrEMBL
PROSITE RRM UniProtKB/TrEMBL
SMART RRM UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/TrEMBL
UniProt A0A287B5F5_PIG UniProtKB/TrEMBL
  A0A480JVS5 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1VF00 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1VJA5_PIG UniProtKB/TrEMBL
  A0A8D0M5N2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1B194 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1IJW2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D2BW55 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D2BWI6_PIG UniProtKB/TrEMBL
  I3L5X7 ENTREZGENE
UniProt Secondary I3L5X7 UniProtKB/TrEMBL