sema6ca sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6Ca [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: sema6caprovided by ZNC
Official Full Name: sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6Caprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040426-1933
See related: Ensembl:ENSDARG00000002748 AllianceGenome:ZFIN:ZDB-GENE-040426-1933
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: sema6d; zgc:56170; wu:fi06a12; wu:fi76a10
Summary: Predicted to enable chemorepellent activity; neuropilin binding activity; and semaphorin receptor binding activity. Acts upstream of or within axonogenesis; branching involved in blood vessel morphogenesis; and optic cup morphogenesis involved in camera-type eye development. Predicted to be located in membrane. Predicted to be active in plasma membrane. Is expressed in blood vessel; central nervous system; neural rod; optic vesicle; and retina. Orthologous to several human genes including SEMA6C (semaphorin 6C). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 19

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	19	NC_007130.7 (390297..417381)
105	previous assembly	GRCz10 (GCF_000002035.5)	19	NC_007130.6 (390090..417174)

Chromosome 19 - NC_007130.7 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?

Sema6D is expressed predominantly in the nervous system during embryogenesis, as determined by in situ hybridization.
Title: Identification and characterization of zebrafish semaphorin 6D.

Submit: New GeneRIF Correction

General gene information

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Markers

G40030 (e-PCR)
- UniSTS:59727

fi76a10.x1 (e-PCR)
- UniSTS:197995

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables chemorepellent activity	IBA Inferred from Biological aspect of Ancestor more info
enables semaphorin receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables semaphorin receptor binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in axon guidance	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within axonogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within branching involved in blood vessel morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neural crest cell migration	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within optic cup morphogenesis involved in camera-type eye development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in semaphorin-plexin signaling pathway	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: semaphorin-6C

Names: sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D

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_212999.3 → NP_998164.3 semaphorin-6C

Status: VALIDATED

Source sequence(s)

CU571385

UniProtKB/TrEMBL

A0A8M1PEE7, B8JMB1

Related

ENSDARP00000121171.1, ENSDART00000136361.2

Conserved Domains (1) summary

cl15693
Location:64 → 523

Sema; The Sema domain, a protein interacting module, of semaphorins and plexins