Rimklbl1 (ribosomal modification protein rimK-like family member B like 1) - Rat Genome Database

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Gene: Rimklbl1 (ribosomal modification protein rimK-like family member B like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Rimklbl1 (Ensembl: LOC100362344)
Name: ribosomal modification protein rimK-like family member B like 1 (Ensembl:mKIAA1238 protein-like)
RGD ID: 2318342
Description: Predicted to enable N-acetyl-L-aspartate-L-glutamate ligase activity. Predicted to be involved in protein modification process. Predicted to be active in cytoplasm. Orthologous to human RIMKLB (ribosomal modification protein rimK like family member B).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: beta-citrylglutamate synthase B-like; LOC100362344; mKIAA1238 protein-like
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84184,287,064 - 184,288,891 (-)NCBIGRCr8
mRatBN7.24182,555,728 - 182,557,523 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4182,556,345 - 182,557,508 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.04184,095,026 - 184,096,884 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4184,095,643 - 184,096,806 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04248,213,416 - 248,215,242 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44186,999,579 - 187,000,742 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera4171,022,135 - 171,023,993 (-)NCBICelera
Cytogenetic Map4q44NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IBA)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Rimklbl1
3 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4144639524182687754Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4144639524182687754Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4155561574182687754Rat
1300109Rf13Renal function QTL 133.91renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)4157710145182687754Rat


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 integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium
Low 1 7 1 1
Below cutoff 2 3 5 1 3 13 8 11 7 1

Sequence


RefSeq Acc Id: ENSRNOT00000055433   ⟹   ENSRNOP00000052301
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4182,556,345 - 182,557,508 (-)Ensembl
Rnor_6.0 Ensembl4184,095,643 - 184,096,806 (-)Ensembl
RefSeq Acc Id: XM_039108939   ⟹   XP_038964867
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84184,287,064 - 184,288,891 (-)NCBI
mRatBN7.24182,555,728 - 182,557,523 (-)NCBI
Protein Sequences
Protein RefSeqs XP_038964867 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000052301
  ENSRNOP00000052301.1
  ENSRNOP00000090575.1
RefSeq Acc Id: ENSRNOP00000052301   ⟸   ENSRNOT00000055433
RefSeq Acc Id: XP_038964867   ⟸   XM_039108939
- UniProtKB: D4ADZ3 (UniProtKB/TrEMBL),   A0A8I6A9U5 (UniProtKB/TrEMBL)
Protein Domains
ATP-grasp

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ADZ3-F1-model_v2 AlphaFold D4ADZ3 1-387 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:2318342 AgrOrtholog
BioCyc Gene G2FUF-42346 BioCyc
Ensembl Genes ENSRNOG00000036910 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000064238 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000055433.2 UniProtKB/TrEMBL
  ENSRNOT00000104857.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.1490.20 UniProtKB/TrEMBL
  3.40.50.20 UniProtKB/TrEMBL
  ATP-grasp fold, B domain UniProtKB/TrEMBL
InterPro ATP-grasp UniProtKB/TrEMBL
  ATP-grasp_RimK-type UniProtKB/TrEMBL
  ATP_grasp_subdomain_1 UniProtKB/TrEMBL
  RimK_fam UniProtKB/TrEMBL
NCBI Gene 100362344 ENTREZGENE
PANTHER BETA-CITRYLGLUTAMATE SYNTHASE B UniProtKB/TrEMBL
  RIBOSOMAL PROTEIN S6 MODIFICATION PROTEIN UniProtKB/TrEMBL
Pfam RimK UniProtKB/TrEMBL
PhenoGen Rimklbl1 PhenoGen
PROSITE ATP_GRASP UniProtKB/TrEMBL
RatGTEx ENSRNOG00000036910 RatGTEx
  ENSRNOG00000064238 RatGTEx
Superfamily-SCOP Glutathione synthetase ATP-binding domain-like UniProtKB/TrEMBL
UniProt A0A8I6A9U5 ENTREZGENE, UniProtKB/TrEMBL
  D4ADZ3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 Rimklbl1  ribosomal modification protein rimK-like family member B like 1  LOC100362344  mKIAA1238 protein-like  Symbol and Name Changed 1299863 APPROVED
2010-05-05 LOC100362344  mKIAA1238 protein-like      Symbol and Name status set to provisional 70820 PROVISIONAL