lig1 ligase I, DNA, ATP-dependent [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: lig1provided by ZNC
Official Full Name: ligase I, DNA, ATP-dependentprovided by ZNC
Primary source: ZFIN:ZDB-GENE-110404-2
See related: Ensembl:ENSDARG00000060041 AllianceGenome:ZFIN:ZDB-GENE-110404-2
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:fc54a11; si:dkeyp-35b8.5; si:dkeyp-35b8.7
Summary: Predicted to enable DNA ligase (ATP) activity. Predicted to be involved in DNA ligation and Okazaki fragment processing involved in mitotic DNA replication. Predicted to act upstream of or within DNA metabolic process and DNA replication. Predicted to be active in mitochondrion and nucleus. Human ortholog(s) of this gene implicated in inherited metabolic disorder and primary immunodeficiency disease. Orthologous to human LIG1 (DNA ligase 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 2

Exon count:: 27

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	2	NC_007113.7 (44301475..44344136, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	2	NC_007113.6 (44448477..44491138, complement)

Chromosome 2 - NC_007113.7 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 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 ATP binding	IEA Inferred from Electronic Annotation more info
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA ligase (ATP) activity	IBA Inferred from Biological aspect of Ancestor more info
enables DNA ligase (ATP) activity	IEA Inferred from Electronic Annotation more info
enables DNA ligase activity	IEA Inferred from Electronic Annotation more info
enables ligase activity	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA biosynthetic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA damage response	IEA Inferred from Electronic Annotation more info
involved_in DNA ligation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within DNA recombination	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA repair	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA replication	IEA Inferred from Electronic Annotation more info
involved_in Okazaki fragment processing involved in mitotic DNA replication	IBA Inferred from Biological aspect of Ancestor more info
involved_in lagging strand elongation	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in mitochondrion	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: DNA ligase 1

Names: LIG1, ligase I, DNA, ATP-dependent

NP_001119860.1

EC 6.5.1.1

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_001126388.1 → NP_001119860.1 DNA ligase 1

Status: PROVISIONAL

Source sequence(s)

BX005060, BX294126

UniProtKB/TrEMBL

A0A8M1NJ81, B0S533

Related

ENSDARP00000078609.5, ENSDART00000084174.6

Conserved Domains (4) summary

cd07969
Location:896 → 1041

OBF_DNA_ligase_I; The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase I is a DNA-binding module that is part of the catalytic core unit

cd07900
Location:673 → 891

Adenylation_DNA_ligase_I_Euk; Adenylation domain of eukaryotic DNA Ligase I

PLN03113
Location:301 → 1053

PLN03113; DNA ligase 1; Provisional

pfam04675
Location:430 → 601

DNA_ligase_A_N; DNA ligase N terminus