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RTCB RNA 2',3'-cyclic phosphate and 5'-OH ligase [ Homo sapiens (human) ]

Gene ID: 51493, updated on 13-Mar-2020

Summary

Official Symbol
RTCBprovided by HGNC
Official Full Name
RNA 2',3'-cyclic phosphate and 5'-OH ligaseprovided by HGNC
Primary source
HGNC:HGNC:26935
See related
Ensembl:ENSG00000100220 MIM:613901
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
FAAP; HSPC117; C22orf28; DJ149A16.6
Expression
Ubiquitous expression in duodenum (RPKM 45.6), small intestine (RPKM 40.2) and 25 other tissues See more
Orthologs

Genomic context

See RTCB in Genome Data Viewer
Location:
22q12.3
Exon count:
12
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 22 NC_000022.11 (32387582..32412247, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (32783562..32808274, complement)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene immunoglobulin lambda constant/OR22-2 (pseudogene) Neighboring gene uncharacterized LOC339666 Neighboring gene ral guanine nucleotide dissociation stimulator like 4 pseudogene Neighboring gene BPI fold containing family C Neighboring gene F-box protein 7

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Phenotypes

NHGRI GWAS Catalog

Description
Loci associated with N-glycosylation of human immunoglobulin G show pleiotropy with autoimmune diseases and haematological cancers.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Rev rev HIV-1 Rev interacting protein, chromosome 22 open reading frame 28 (C22orf28), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
GTP binding IEA
Inferred from Electronic Annotation
more info
 
RNA binding HDA PubMed 
RNA ligase (ATP) activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA ligase (ATP) activity IDA
Inferred from Direct Assay
more info
PubMed 
RNA ligase (ATP) activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
vinculin binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
endoplasmic reticulum membrane IDA
Inferred from Direct Assay
more info
PubMed 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
nuclear envelope IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
tRNA-splicing ligase complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
tRNA-splicing ligase complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
tRNA-splicing ligase RtcB homolog
Names
ankyrin repeat domain 54
focal adhesion-associated protein
NP_055121.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_014306.5NP_055121.1  tRNA-splicing ligase RtcB homolog

    See identical proteins and their annotated locations for NP_055121.1

    Status: VALIDATED

    Source sequence(s)
    AL050255, DC396330
    Consensus CDS
    CCDS13905.1
    UniProtKB/Swiss-Prot
    Q9Y3I0
    Related
    ENSP00000216038.5, ENST00000216038.6
    Conserved Domains (1) summary
    pfam01139
    Location:68505
    RtcB; tRNA-splicing ligase RtcB

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000022.11 Reference GRCh38.p13 Primary Assembly

    Range
    32387582..32412247 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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