scfd1 sec1 family domain containing 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: scfd1provided by ZNC
Official Full Name: sec1 family domain containing 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-030116-3
See related: Ensembl:ENSDARG00000000779 AllianceGenome:ZFIN:ZDB-GENE-030116-3
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: sly1; dZ234G15.2; SI:dZ115O7.1; SI:dZ234G15.3; SI:dZ234G15.4; SI:dZ234G15.5; SI:dZ234G15.7; si:dz234g15.2; si:busm1-234g15.2
Summary: Predicted to enable syntaxin binding activity. Acts upstream of or within several processes, including fin regeneration; glycoprotein transport; and skeletal system development. Predicted to be active in Golgi membrane. Is expressed in digestive system; head; myotome; notochord; and pharyngeal arch. Orthologous to human SCFD1 (sec1 family domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
Annotation information: Annotation category: partial on reference assembly
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 17

Exon count:: 25

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	17	NC_007128.7 (28771027..28797395, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	17	NC_007128.6 (28754064..28780432, complement)

Chromosome 17 - NC_007128.7 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?

the existence of a specific export pathway, mediated by a complex containing SCFD1 and STX18 that plays an essential role in secretion of large extracellular matrix proteins during chondrogenesis.
Title: The Sec domain protein Scfd1 facilitates trafficking of ECM components during chondrogenesis.
sly1 is essential for blastemal organization and proliferation during two stages of fin regeneration
Title: Positional cloning of a temperature-sensitive mutant emmental reveals a role for sly1 during cell proliferation in zebrafish fin regeneration.

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General gene information

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Markers

fi89c03.x1 (e-PCR)
- UniSTS:198170

fe24c12.x1 (e-PCR)
- UniSTS:196310

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables syntaxin binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cartilage development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic neurocranium morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within endoplasmic reticulum to Golgi vesicle-mediated transport	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within fin regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within glycoprotein transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intracellular protein transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within protein transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within vesicle-mediated transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in Golgi membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: sec1 family domain-containing protein 1

Names: emm; emmental; suppressor of ypt1; vesicle-transport

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.