ddb1 damage-specific DNA binding protein 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: ddb1provided by ZNC
Official Full Name: damage-specific DNA binding protein 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-040426-1272
See related: AllianceGenome:ZFIN:ZDB-GENE-040426-1272
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: zgc:63840
Summary: Predicted to enable DNA binding activity. Acts upstream of or within negative regulation of apoptotic process and regulation of cell cycle process. Predicted to be active in nucleus and site of double-strand break. Is expressed in blastomere; endoderm; nervous system; pharyngeal arch; and somite. Orthologous to human DDB1 (damage specific DNA binding protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Annotation information: Annotation category: partial on reference assembly
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 18

Exon count:: 26

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	18	NC_007129.7 (50826591..50839096, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	18	NC_007129.6 (50803251..50808968)

Chromosome 18 - NC_007129.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

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?

Submit: New GeneRIF Correction

General gene information

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Markers

Z1417 (e-PCR)
- UniSTS:49411

z14929 (e-PCR), detects polymorphism
- UniSTS:238858

fc14d06.y1 (e-PCR)
- UniSTS:192682

Z7961 (e-PCR)
- UniSTS:72363

z6572 (e-PCR), detects polymorphism
- UniSTS:238272

Z6572 (e-PCR)
- UniSTS:15309

NoName (e-PCR)
- UniSTS:238318

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	IEA Inferred from Electronic Annotation more info
involved_in DNA repair	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within DNA repair	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein ubiquitination	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of cell cycle process	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
is_active_in site of double-strand break	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: DNA damage-binding protein 1

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_200626.1 → NP_956920.1 DNA damage-binding protein 1

See identical proteins and their annotated locations for NP_956920.1

Status: PROVISIONAL

Source sequence(s)

BC056837

UniProtKB/TrEMBL

Q6PGT6

Conserved Domains (2) summary

pfam03178
Location:789 → 897

CPSF_A; CPSF A subunit region

pfam10433
Location:75 → 543

MMS1_N; Mono-functional DNA-alkylating methyl methanesulfonate N-term