glra4a glycine receptor, alpha 4a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: glra4aprovided by ZNC
Official Full Name: glycine receptor, alpha 4aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-010410-3
See related: Ensembl:ENSDARG00000006865 AllianceGenome:ZFIN:ZDB-GENE-010410-3
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: [a]Z2; glra2; zgc:113093
Summary: Enables extracellularly glycine-gated chloride channel activity. Acts upstream of or within several processes, including chloride transport; startle response; and thigmotaxis. Predicted to be located in cell projection and postsynaptic membrane. Predicted to be integral component of membrane. Predicted to be part of chloride channel complex. Predicted to be active in neuron projection and synapse. Predicted to be integral component of plasma membrane. Is expressed in eye; hindbrain; myotome; spinal cord; and telencephalon. Orthologous to human GLRA4 (glycine receptor alpha 4 (pseudogene)). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 14

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (39002115..39074732, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	14	NC_007125.6 (38661801..38734414, complement)

Chromosome 14 - NC_007125.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
contributes_to chloride channel activity	IBA Inferred from Biological aspect of Ancestor more info
enables chloride channel activity	IEA Inferred from Electronic Annotation more info
enables excitatory extracellular ligand-gated monoatomic ion channel activity	IBA Inferred from Biological aspect of Ancestor more info
enables extracellular ligand-gated monoatomic ion channel activity	IEA Inferred from Electronic Annotation more info
enables extracellularly glycine-gated chloride channel activity	IDA Inferred from Direct Assay more info
enables extracellularly glycine-gated chloride channel activity	IEA Inferred from Electronic Annotation more info
enables extracellularly glycine-gated ion channel activity	IDA Inferred from Direct Assay more info	PubMed
enables glycine binding	IEA Inferred from Electronic Annotation more info
enables monoatomic ion channel activity	IEA Inferred from Electronic Annotation more info
enables neurotransmitter receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables transmembrane signaling receptor activity	IEA Inferred from Electronic Annotation more info
enables transmitter-gated monoatomic ion channel activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within central nervous system development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chemical synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
involved_in chloride transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within chloride transport	IDA Inferred from Direct Assay more info
acts_upstream_of_or_within chloride transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within excitatory postsynaptic potential	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within monoatomic ion transmembrane transport	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within monoatomic ion transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within monoatomic ion transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of neuron apoptotic process	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within negative regulation of neuron apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of membrane potential	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within response to amino acid	IDA Inferred from Direct Assay more info
acts_upstream_of_or_within startle response	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within thigmotaxis	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cell projection	IEA Inferred from Electronic Annotation more info
part_of chloride channel complex	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in neuron projection	IBA Inferred from Biological aspect of Ancestor more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in postsynaptic membrane	IEA Inferred from Electronic Annotation more info
is_active_in synapse	IBA Inferred from Biological aspect of Ancestor more info
located_in synapse	IEA Inferred from Electronic Annotation more info
part_of transmembrane transporter complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: glycine receptor subunit alpha-4; glycine receptor, alpha 4a

Names: GlyR [a]Z2; glyR alpha; glycine receptor, alpha 2

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_131782.2 → NP_571857.1 glycine receptor, alpha 4a

See identical proteins and their annotated locations for NP_571857.1

Status: PROVISIONAL

Source sequence(s)

AJ404970

UniProtKB/TrEMBL

Q9DES9

Related

ENSDARP00000027157.7, ENSDART00000026194.9

Conserved Domains (3) summary

TIGR00860
Location:39 → 444

LIC; Cation transporter family protein

pfam02931
Location:47 → 253

Neur_chan_LBD; Neurotransmitter-gated ion-channel ligand binding domain

pfam02932
Location:260 → 441

Neur_chan_memb; Neurotransmitter-gated ion-channel transmembrane region

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

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

Reference GRCz11 Primary Assembly

Genomic

NC_007125.7 Reference GRCz11 Primary Assembly

Range

39002115..39074732 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005169598.4 → XP_005169655.1 glycine receptor subunit alpha-4 isoform X1

UniProtKB/TrEMBL

A0A8M2BGV4, F1RDZ6

Related

ENSDARP00000030826.7, ENSDART00000030509.10

Conserved Domains (3) summary

TIGR00860
Location:27 → 445

LIC; Cation transporter family protein

pfam02931
Location:48 → 254

Neur_chan_LBD; Neurotransmitter-gated ion-channel ligand binding domain

pfam02932
Location:261 → 442

Neur_chan_memb; Neurotransmitter-gated ion-channel transmembrane region