ncs1a neuronal calcium sensor 1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: ncs1aprovided by ZNC
Official Full Name: neuronal calcium sensor 1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-021220-1
See related: Ensembl:ENSDARG00000055229 AllianceGenome:ZFIN:ZDB-GENE-021220-1
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: freq; freqa; zgc:63620
Summary: Predicted to enable calcium ion binding activity and calcium sensitive guanylate cyclase activator activity. Acts upstream of or within semicircular canal morphogenesis. Predicted to be located in postsynaptic density. Is expressed in several structures, including intermediate cell mass of mesoderm; mesoderm; nervous system; otic vesicle; and pharynx. Orthologous to human NCS1 (neuronal calcium sensor 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 5

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	5	NC_007116.7 (32402877..32445789, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	5	NC_007116.6 (31802724..31845636, complement)

Chromosome 5 - NC_007116.7 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?

findings reveal a novel signalling pathway involved in development of the semicircular canal system, and suggest a previously unrecognized role for NCS-1 in mitochondrial function via its association with several mitochondrial proteins.
Title: Proteomic and functional analysis of NCS-1 binding proteins reveals novel signaling pathways required for inner ear development in zebrafish.

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables calcium ion binding	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables calcium sensitive guanylate cyclase activator activity	IBA Inferred from Biological aspect of Ancestor more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in regulation of signal transduction	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within semicircular canal development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within semicircular canal morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in postsynaptic density	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: neuronal calcium sensor 1a

Names: frequenin homolog a; ncs-1a

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_001328512.1 → NP_001315441.1 neuronal calcium sensor 1a

Status: VALIDATED

Source sequence(s)

AY190280, BX510649, FO704774

UniProtKB/TrEMBL

A0A8M1PAD3, Q804C0, X1WEC7

Related

ENSDARP00000136419.1, ENSDART00000170919.3

Conserved Domains (2) summary

COG5126
Location:15 → 179

FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]

cd00051
Location:100 → 172

EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

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_007116.7 Reference GRCz11 Primary Assembly

Range

32402877..32445789 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_200465.1: Suppressed sequence

Description

NM_200465.1: This RefSeq was removed because currently there is insufficient support for the transcript.