hars histidyl-tRNA synthetase [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: harsprovided by ZNC
Official Full Name: histidyl-tRNA synthetaseprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040912-152
See related: Ensembl:ENSDARG00000003693 AllianceGenome:ZFIN:ZDB-GENE-040912-152
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: zgc:92215; im:7136719
Summary: Predicted to enable RNA binding activity; histidine-tRNA ligase activity; and identical protein binding activity. Acts upstream of or within regulation of vasculature development and sprouting angiogenesis. Located in mitochondrion. Is expressed in nervous system; optic cup; optic vesicle; and otic vesicle. Human ortholog(s) of this gene implicated in Charcot-Marie-Tooth disease, axonal type 2W; Perrault syndrome; and Usher syndrome type 3B. Orthologous to several human genes including HARS1 (histidyl-tRNA synthetase 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 14

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (7377587..7395997)
105	previous assembly	GRCz10 (GCF_000002035.5)	14	NC_007125.6 (7071178..7089588)

Chromosome 14 - NC_007125.7 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?

Neuropathy-associated histidyl-tRNA synthetase variants attenuate protein synthesis in vitro and disrupt axon outgrowth in developing zebrafish.
Title: Neuropathy-associated histidyl-tRNA synthetase variants attenuate protein synthesis in vitro and disrupt axon outgrowth in developing zebrafish.
single Danio rerio hars gene encodes both cytoplasmic and mitochondrial histidyl-tRNA synthetases
Title: A single Danio rerio hars gene encodes both cytoplasmic and mitochondrial histidyl-tRNA synthetases.

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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 RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables aminoacyl-tRNA ligase activity	IEA Inferred from Electronic Annotation more info
enables histidine-tRNA ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables histidine-tRNA ligase activity	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IBA Inferred from Biological aspect of Ancestor 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
involved_in histidyl-tRNA aminoacylation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within histidyl-tRNA aminoacylation	IEA Inferred from Electronic Annotation more info
involved_in mitochondrial translation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of vasculature development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of vasculature development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within sprouting angiogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within tRNA aminoacylation for protein translation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within translation	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
is_active_in mitochondrion	IBA Inferred from Biological aspect of Ancestor more info
located_in mitochondrion	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrion	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: histidine--tRNA ligase

Names: histidine--tRNA ligase, cytoplasmic

NP_001289185.1

EC 6.1.1.21

NP_001289191.1

EC 6.1.1.21

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_001302256.1 → NP_001289185.1 histidine--tRNA ligase isoform 1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

BX890575, EH436569, EH456430, EH463417, EH501824, EH586415

UniProtKB/TrEMBL

F1Q5D5

Related

ENSDARP00000123163.1, ENSDART00000141471.3

Conserved Domains (4) summary

COG0124
Location:63 → 518

HisS; Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

cd00773
Location:76 → 411

HisRS-like_core; Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent ...

cd00859
Location:425 → 516

HisRS_anticodon; HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is ...

cl00349
Location:37 → 56

S15_NS1_EPRS_RNA-bind; S15/NS1/EPRS_RNA-binding domain. This short domain consists of a helix-turn-helix structure, which can bind to several types of RNA. It is found in the ribosomal protein S15, the influenza A viral nonstructural protein (NSA) and in several eukaryotic ...
NM_001302262.1 → NP_001289191.1 histidine--tRNA ligase isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate upstream start codon, compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.

Source sequence(s)

EH436569, EH456430, EH463417, EH501824, EH586415

UniProtKB/Swiss-Prot

E9QI36, F1Q5D5

Related

ENSDARP00000113894.2, ENSDART00000142158.3

Conserved Domains (2) summary

PLN02972
Location:57 → 511

PLN02972; Histidyl-tRNA synthetase

cd00938
Location:5 → 49

HisRS_RNA; HisRS_RNA binding domain. This short RNA-binding domain is found at the N-terminus of HisRS in several higher eukaryote aminoacyl-tRNA synthetases (aaRSs). This domain consists of a helix- turn- helix structure, which is similar to other RNA-binding ...