lamc1 laminin, gamma 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: lamc1provided by ZNC
Official Full Name: laminin, gamma 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-021226-3
See related: Ensembl:ENSDARG00000036279 AllianceGenome:ZFIN:ZDB-GENE-021226-3
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: sly
Summary: Acts upstream of or within several processes, including detection of light stimulus involved in visual perception; nervous system development; and optokinetic behavior. Predicted to be located in extracellular region. Predicted to be active in basement membrane. Is expressed in several structures, including eye; heart; median fin fold; musculature system; and optic cup. Orthologous to human LAMC1 (laminin subunit gamma 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 2

Exon count:: 28

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	2	NC_007113.7 (35880600..35979095)
105	previous assembly	GRCz10 (GCF_000002035.5)	2	NC_007113.6 (35898143..35996638)

Chromosome 2 - NC_007113.7 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?

Hh signaling is indirectly required via slow fiber specification for recovery of fast fiber elongation in laminin gamma1 mutant embryos
Title: Hedgehog signaling and laminin play unique and synergistic roles in muscle development.
Two zebrafish loci, grumpy and sleepy, encode laminin beta1 and laminin gamma1, respectively. These genes are required for the formation of the laminin-dependent basement membrane is essential for the differentiation of chordamesoderm to notochord.
Title: Zebrafish mutants identify an essential role for laminins in notochord formation.

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General gene information

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Gene Ontology Provided by ZFIN

Process	Evidence Code	Pubs
involved_in animal organ morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in axon guidance	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within brain development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within brain morphogenesis	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 detection of light stimulus involved in visual perception	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within eye development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within muscle organ development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within notochord development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within notochord morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within optokinetic behavior	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retinal ganglion cell axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within skeletal muscle tissue development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within somite development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in tissue development	IBA Inferred from Biological aspect of Ancestor more info

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

General protein information

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Preferred Names: laminin subunit gamma-1

Names: shortstop; shp; sleepy

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_173277.1 → NP_775384.1 laminin subunit gamma-1 precursor

See identical proteins and their annotated locations for NP_775384.1

Status: PROVISIONAL

Source sequence(s)

AF468048

UniProtKB/Swiss-Prot

Q1LVF0, Q8JHV8

Related

ENSDARP00000024860.6, ENSDART00000004277.8

Conserved Domains (7) summary

smart00136
Location:30 → 268

LamNT; Laminin N-terminal domain (domain VI)

smart00180
Location:919 → 964

EGF_Lam; Laminin-type epidermal growth factor-like domai

cd00055
Location:707 → 749

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam00053
Location:382 → 429

Laminin_EGF; Laminin EGF domain

pfam09728
Location:1035 → 1308

Taxilin; Myosin-like coiled-coil protein

cl02488
Location:1033 → 1233

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

cl02548
Location:537 → 662

Laminin_B; Laminin B (Domain IV)