xpc xeroderma pigmentosum, complementation group C [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: xpcprovided by ZNC
Official Full Name: xeroderma pigmentosum, complementation group Cprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-8461
See related: Ensembl:ENSDARG00000039754 AllianceGenome:ZFIN:ZDB-GENE-030131-8461
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: wu:fb12d05; wu:fb12d09; zgc:113032
Summary: Predicted to enable damaged DNA binding activity and single-stranded DNA binding activity. Predicted to be involved in mismatch repair and nucleotide-excision repair. Predicted to act upstream of or within DNA repair. Predicted to be located in nucleus. Predicted to be part of XPC complex and nucleotide-excision repair factor 2 complex. Predicted to be active in cytoplasm. Is expressed in liver. Human ortholog(s) of this gene implicated in pancreatic cancer; serous cystadenocarcinoma; xeroderma pigmentosum; and xeroderma pigmentosum group C. Orthologous to human XPC (XPC complex subunit, DNA damage recognition and repair factor). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 8

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	8	NC_007119.7 (26007990..26030951)
105	previous assembly	GRCz10 (GCF_000002035.5)	8	NC_007119.6 (25988851..26011811)

Chromosome 8 - NC_007119.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables damaged DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables damaged DNA binding	IEA Inferred from Electronic Annotation more info
enables single-stranded DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA repair	IEA Inferred from Electronic Annotation more info
involved_in mismatch repair	IBA Inferred from Biological aspect of Ancestor more info
involved_in nucleotide-excision repair	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within nucleotide-excision repair	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of XPC complex	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
part_of nucleotide-excision repair factor 2 complex	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: DNA repair protein complementing XP-C cells

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_001045210.1 → NP_001038675.1 DNA repair protein complementing XP-C cells

Status: PROVISIONAL

Source sequence(s)

BX784025

UniProtKB/TrEMBL

A0A8M1NA71, Q1LVE4

Related

ENSDARP00000058099.6, ENSDART00000058100.7

Conserved Domains (5) summary

smart01032
Location:686 → 760

BHD_3; Rad4 beta-hairpin domain 3

smart01030
Location:566 → 617

BHD_1; Rad4 beta-hairpin domain 1

smart01031
Location:620 → 678

BHD_2; Rad4 beta-hairpin domain 2

TIGR00605
Location:135 → 801

rad4; DNA repair protein rad4

pfam03835
Location:466 → 562

Rad4; Rad4 transglutaminase-like domain

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007119.7 Reference GRCz11 Primary Assembly

Range

26007990..26030951

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021478247.2 → XP_021333922.1 DNA repair protein complementing XP-C cells isoform X1

UniProtKB/TrEMBL

A0A8M9PQU6

Conserved Domains (1) summary

cl26537
Location:100 → 766

BHD_3; Rad4 beta-hairpin domain 3