clstn1 calsyntenin 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: clstn1provided by ZNC
Official Full Name: calsyntenin 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-040426-1064
See related: Ensembl:ENSDARG00000031720 AllianceGenome:ZFIN:ZDB-GENE-040426-1064
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: fm67g03; zgc:56528; wu:fk52g02; wu:fm67g03; zgc:153744
Summary: Predicted to enable calcium ion binding activity. Acts upstream of or within several processes, including axon arborization; establishment or maintenance of microtubule cytoskeleton polarity; and homophilic cell adhesion via plasma membrane adhesion molecules. Predicted to be located in Golgi membrane; cell projection; and synapse. Predicted to be integral component of membrane. Predicted to be active in cell surface and postsynaptic membrane. Is expressed in several structures, including axis; musculature system; nervous system; neural tube; and tail bud. Orthologous to human CLSTN1 (calsyntenin 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 23

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	23	NC_007134.7 (29580584..29667787, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	23	NC_007134.6 (29654043..29741264, complement)

Chromosome 23 - NC_007134.7 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?

Our results suggest a model in which Clstn-1 patterns separate axonal compartments and define their ability to branch by directing trafficking of specific endosomes.
Title: Calsyntenin-1 regulates axon branching and endosomal trafficking during sensory neuron development in vivo.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables X11-like protein binding	IEA Inferred from Electronic Annotation more info
enables amyloid-beta binding	IEA Inferred from Electronic Annotation more info
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables kinesin binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within axon arborization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within axonal transport	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cell adhesion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within endocytic recycling	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within establishment or maintenance of microtubule cytoskeleton polarity	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within homophilic cell adhesion via plasma membrane adhesion molecules	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within homophilic cell adhesion via plasma membrane adhesion molecules	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of synapse assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of collateral sprouting	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
located_in cell projection	IEA Inferred from Electronic Annotation more info
is_active_in cell surface	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
is_active_in postsynaptic membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in postsynaptic membrane	IEA Inferred from Electronic Annotation more info
located_in synapse	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: calsyntenin-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_001077784.2 → NP_001071252.2 calsyntenin-1 precursor

Status: VALIDATED

Source sequence(s)

BX571850, CR391934

UniProtKB/Swiss-Prot

A0A8M3ANN9, A0A8M3B657, A0A8N7UYF5, E7EYL3, E9QIY1, F1R520

Related

ENSDARP00000119688.1, ENSDART00000133902.3

Conserved Domains (1) summary

cd11304
Location:155 → 245

Cadherin_repeat; Cadherin tandem repeat domain

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_007134.7 Reference GRCz11 Primary Assembly

Range

29580584..29667787 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005162269.4 → XP_005162326.1 calsyntenin-1 isoform X1

UniProtKB/TrEMBL

A0A8M2B948

Conserved Domains (1) summary

cd11304
Location:165 → 255

Cadherin_repeat; Cadherin tandem repeat domain
XM_009296877.3 → XP_009295152.1 calsyntenin-1 isoform X2

UniProtKB/TrEMBL

A0A9F2UUN9

Related

ENSDARP00000109493.1, ENSDART00000129248.3

Conserved Domains (1) summary

cd11304
Location:155 → 245

Cadherin_repeat; Cadherin tandem repeat domain
XM_009296878.3 → XP_009295153.1 calsyntenin-1 isoform X3

UniProtKB/TrEMBL

A0A9F2Y9R0

Related

ENSDARP00000059338.5, ENSDART00000059339.6

Conserved Domains (1) summary

cd11304
Location:165 → 255

Cadherin_repeat; Cadherin tandem repeat domain

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_201011.1: Suppressed sequence

Description

NM_201011.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.