rtcb.L RNA 2',3'-cyclic phosphate and 5'-OH ligase L homeolog [Xenopus laevis (African clawed frog)] - Gene

Summary

Official Symbol: rtcb.L
Official Full Name: RNA 2',3'-cyclic phosphate and 5'-OH ligase L homeolog
Primary source: Xenbase:XB-GENE-974756
Locus tag: XELAEV_18002487mg
See related: EnsemblRapid:ENSXLAG00005010585 AllianceGenome:Xenbase:XB-GENE-974756
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Xenopus laevis
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
Also known as: rtcb; c22orf28
Summary: Predicted to enable GTP binding activity; ligase activity, forming phosphoric ester bonds; and metal ion binding activity. Predicted to act upstream of or within tRNA splicing, via endonucleolytic cleavage and ligation. Predicted to be located in cytoplasm and nucleus. Predicted to be part of tRNA-splicing ligase complex. Orthologous to human RTCB (RNA 2',3'-cyclic phosphate and 5'-OH ligase). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

Location:: chromosome: 3L

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
101	current	Xenopus_laevis_v10.1 (GCF_017654675.1)	3L	NC_054375.1 (6590490..6603262)
100	previous assembly	Xenopus_laevis_v2 (GCF_001663975.1)	Unplaced Scaffold	NW_016694822.1 (1657563..1670617)

Chromosome 3L - NC_054375.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by Xenbase

Function	Evidence Code	Pubs
enables GTP binding	IEA Inferred from Electronic Annotation more info
enables RNA ligase (ATP) activity	IEA Inferred from Electronic Annotation more info
enables RNA ligase (GTP) activity	IEA Inferred from Electronic Annotation more info
enables ligase activity	IEA Inferred from Electronic Annotation more info
enables ligase activity, forming phosphoric ester bonds	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within tRNA processing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within tRNA splicing, via endonucleolytic cleavage and ligation	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of tRNA-splicing ligase complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: RNA-splicing ligase RtcB homolog-like; uncharacterized protein LOC779280

NCBI Reference Sequences (RefSeq)

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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)

NM_001096900.1 → NP_001090369.1 RNA-splicing ligase RtcB homolog-like

See identical proteins and their annotated locations for NP_001090369.1

Status: PROVISIONAL

Source sequence(s)

BC123248

UniProtKB/TrEMBL

Q05AW6

Related

ENSXLAP00005031306.1, ENSXLAT00005032071.1

Conserved Domains (2) summary

COG1690
Location:28 → 505

RtcB; RNA-splicing ligase RtcB, repairs tRNA damage [Translation, ribosomal structure and biogenesis]

pfam01139
Location:65 → 505

RtcB; tRNA-splicing ligase RtcB

RefSeqs of Annotated Genomes: Xenopus laevis Annotation Release 101 details...

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

Reference Xenopus_laevis_v10.1 Primary Assembly

Genomic

NC_054375.1 Reference Xenopus_laevis_v10.1 Primary Assembly

Range

6590490..6603262

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_041585290.1 → XP_041441224.1 uncharacterized protein LOC779280 isoform X1

UniProtKB/TrEMBL

A0A8J1MHM2

Conserved Domains (1) summary

COG1690
Location:20 → 460

RtcB; RNA-splicing ligase RtcB, repairs tRNA damage [Translation, ribosomal structure and biogenesis]