Rbm34 (RNA binding motif protein 34) - Rat Genome Database

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Gene: Rbm34 (RNA binding motif protein 34) Rattus norvegicus
Analyze
Symbol: Rbm34
Name: RNA binding motif protein 34
RGD ID: 1310161
Description: Predicted to enable rRNA binding activity. Predicted to be involved in maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA). Predicted to be located in chromosome and nucleoplasm. Predicted to be active in nucleolus. Orthologous to human RBM34 (RNA binding motif protein 34); INTERACTS WITH 17beta-estradiol; 2,4-dinitrotoluene; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC307956; RGD1310161; RNA-binding motif protein 34; RNA-binding protein 34; similar to DNA segment, Chr 8, ERATO Doi 233, expressed
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81971,832,189 - 71,854,038 (-)NCBIGRCr8
mRatBN7.21954,936,516 - 54,956,810 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1954,936,531 - 54,956,715 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1961,726,589 - 61,746,792 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01962,586,490 - 62,606,693 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01964,669,028 - 64,689,216 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01959,874,745 - 59,894,981 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1959,874,752 - 59,894,937 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01970,541,736 - 70,562,213 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41956,864,501 - 56,885,217 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11956,869,567 - 56,890,277 (-)NCBI
Celera1954,275,935 - 54,296,237 (-)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromosome  (ISO)
nucleolus  (IBA,ISO)
nucleoplasm  (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
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:22658674   PMID:22681889  


Genomics

Comparative Map Data
Rbm34
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81971,832,189 - 71,854,038 (-)NCBIGRCr8
mRatBN7.21954,936,516 - 54,956,810 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1954,936,531 - 54,956,715 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1961,726,589 - 61,746,792 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01962,586,490 - 62,606,693 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01964,669,028 - 64,689,216 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01959,874,745 - 59,894,981 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1959,874,752 - 59,894,937 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01970,541,736 - 70,562,213 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41956,864,501 - 56,885,217 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11956,869,567 - 56,890,277 (-)NCBI
Celera1954,275,935 - 54,296,237 (-)NCBICelera
Cytogenetic Map19q12NCBI
RBM34
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381235,131,183 - 235,161,250 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1235,131,183 - 235,161,283 (-)EnsemblGRCh38hg38GRCh38
GRCh371235,294,498 - 235,324,565 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361233,361,572 - 233,391,194 (-)NCBINCBI36Build 36hg18NCBI36
Celera1208,537,121 - 208,567,232 (-)NCBICelera
Cytogenetic Map1q42.3NCBI
HuRef1205,743,078 - 205,773,006 (-)NCBIHuRef
CHM1_11236,566,820 - 236,596,900 (-)NCBICHM1_1
T2T-CHM13v2.01234,522,898 - 234,552,956 (-)NCBIT2T-CHM13v2.0
Rbm34
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398127,673,922 - 127,697,799 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8127,673,922 - 127,697,821 (-)EnsemblGRCm39 Ensembl
GRCm388126,947,172 - 126,971,127 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8126,947,172 - 126,971,071 (-)EnsemblGRCm38mm10GRCm38
MGSCv378129,471,072 - 129,494,979 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368129,833,262 - 129,857,169 (-)NCBIMGSCv36mm8
Celera8131,263,287 - 131,287,183 (-)NCBICelera
Cytogenetic Map8E2NCBI
cM Map874.64NCBI
Rbm34
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554924,733,800 - 4,754,069 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554924,732,249 - 4,754,433 (+)NCBIChiLan1.0ChiLan1.0
RBM34
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2114,030,987 - 14,062,633 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1114,243,091 - 14,273,555 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01210,676,840 - 210,706,360 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11215,695,090 - 215,723,466 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1215,695,166 - 215,723,408 (-)Ensemblpanpan1.1panPan2
RBM34
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.144,755,574 - 4,780,963 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl44,755,620 - 4,780,958 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha44,738,127 - 4,763,520 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.044,777,806 - 4,803,174 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl44,777,832 - 4,803,172 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.144,788,616 - 4,814,002 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.044,906,229 - 4,931,599 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.045,127,935 - 5,153,322 (+)NCBIUU_Cfam_GSD_1.0
Rbm34
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934441,096,471 - 41,116,009 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648417,260,907 - 17,281,273 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648417,261,715 - 17,281,240 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARID4B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1456,085,353 - 56,108,141 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11456,087,685 - 56,108,141 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21460,193,268 - 60,213,712 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RBM34
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12572,306,821 - 72,335,619 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2572,304,264 - 72,334,359 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605574,337,488 - 74,368,049 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rbm34
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477515,304,205 - 15,325,344 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477515,293,143 - 15,325,344 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rbm34
60 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:350
Count of miRNA genes:210
Interacting mature miRNAs:253
Transcripts:ENSRNOT00000027145
Prediction methods:Microtar, Miranda
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat

Markers in Region
RH134841  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21954,936,547 - 54,936,729 (+)MAPPERmRatBN7.2
Rnor_6.01959,874,771 - 59,874,952NCBIRnor6.0
Rnor_5.01970,541,762 - 70,541,943UniSTSRnor5.0
RGSC_v3.41956,864,527 - 56,864,708UniSTSRGSC3.4
Celera1954,275,961 - 54,276,142UniSTS
Cytogenetic Map19q12UniSTS
RH140946  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21954,936,688 - 54,936,884 (+)MAPPERmRatBN7.2
Rnor_6.01959,874,912 - 59,875,107NCBIRnor6.0
Rnor_5.01970,541,903 - 70,542,098UniSTSRnor5.0
RGSC_v3.41956,864,668 - 56,864,863UniSTSRGSC3.4
Celera1954,276,102 - 54,276,297UniSTS
Cytogenetic Map19q12UniSTS


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 22 37 22 19 22 1 1 74 24 35 11 1
Low 21 20 19 19 7 10 11 6 7
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000027145   ⟹   ENSRNOP00000027145
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1954,936,531 - 54,956,715 (-)Ensembl
Rnor_6.0 Ensembl1959,874,752 - 59,894,937 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000099190   ⟹   ENSRNOP00000081464
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1954,936,531 - 54,956,715 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000120307   ⟹   ENSRNOP00000089418
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1954,936,531 - 54,956,715 (-)Ensembl
RefSeq Acc Id: NM_001014015   ⟹   NP_001014037
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81971,833,754 - 71,853,946 (-)NCBI
mRatBN7.21954,936,522 - 54,956,715 (-)NCBI
Rnor_6.01959,874,745 - 59,894,937 (-)NCBI
Rnor_5.01970,541,736 - 70,562,213 (-)NCBI
RGSC_v3.41956,864,501 - 56,885,217 (-)RGD
Celera1954,275,935 - 54,296,237 (-)RGD
Sequence:
RefSeq Acc Id: XM_017601305   ⟹   XP_017456794
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81971,832,189 - 71,854,038 (-)NCBI
mRatBN7.21954,936,516 - 54,956,810 (-)NCBI
Rnor_6.01959,874,745 - 59,894,981 (-)NCBI
Sequence:
RefSeq Acc Id: XR_005496660
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81971,839,099 - 71,854,037 (-)NCBI
mRatBN7.21954,941,870 - 54,956,810 (-)NCBI
RefSeq Acc Id: NP_001014037   ⟸   NM_001014015
- UniProtKB: Q5M9F1 (UniProtKB/Swiss-Prot),   A6KJ55 (UniProtKB/TrEMBL),   A0A8I5ZSK8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456794   ⟸   XM_017601305
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000027145   ⟸   ENSRNOT00000027145
RefSeq Acc Id: ENSRNOP00000089418   ⟸   ENSRNOT00000120307
RefSeq Acc Id: ENSRNOP00000081464   ⟸   ENSRNOT00000099190
Protein Domains
RRM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5M9F1-F1-model_v2 AlphaFold Q5M9F1 1-428 view protein structure

Transcriptome

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

Promoters
RGD ID:13701254
Promoter ID:EPDNEW_R11778
Type:multiple initiation site
Name:Rbm34_1
Description:RNA binding motif protein 34
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_6.01959,894,930 - 59,894,990EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310161 AgrOrtholog
BioCyc Gene G2FUF-5146 BioCyc
Ensembl Genes ENSRNOG00000020004 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055005437 UniProtKB/Swiss-Prot
  ENSRNOG00060005170 UniProtKB/Swiss-Prot
  ENSRNOG00065019329 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000027145 ENTREZGENE
  ENSRNOT00000027145.7 UniProtKB/Swiss-Prot
  ENSRNOT00000099190.1 UniProtKB/TrEMBL
  ENSRNOT00000120307.1 UniProtKB/TrEMBL
  ENSRNOT00055008748 UniProtKB/Swiss-Prot
  ENSRNOT00060008603 UniProtKB/Swiss-Prot
  ENSRNOT00065032522 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7133162 IMAGE-MGC_LOAD
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RBM34_RRM2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:307956 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:95242 IMAGE-MGC_LOAD
NCBI Gene 307956 ENTREZGENE
PANTHER EUKARYOTIC TRANSLATION INITIATION FACTOR 4B/4H UniProtKB/TrEMBL
  HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN M-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  OS02G0815200 PROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RNA-BINDING PROTEIN 34 UniProtKB/TrEMBL
Pfam RRM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rbm34 PhenoGen
PROSITE RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000020004 RatGTEx
  ENSRNOG00055005437 RatGTEx
  ENSRNOG00060005170 RatGTEx
  ENSRNOG00065019329 RatGTEx
SMART RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZSK8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A778_RAT UniProtKB/TrEMBL
  A6KJ55 ENTREZGENE, UniProtKB/TrEMBL
  Q5M9F1 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Rbm34  RNA binding motif protein 34  RGD1310161  similar to DNA segment, Chr 8, ERATO Doi 233, expressed  Symbol and Name updated 1299863 APPROVED
2005-12-06 RGD1310161  similar to DNA segment, Chr 8, ERATO Doi 233, expressed  RGD1310161_predicted  similar to DNA segment, Chr 8, ERATO Doi 233, expressed (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1310161_predicted  similar to DNA segment, Chr 8, ERATO Doi 233, expressed (predicted)  LOC307956_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC307956_predicted  similar to DNA segment, Chr 8, ERATO Doi 233, expressed (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL