lamb1a laminin, beta 1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: lamb1aprovided by ZNC
Official Full Name: laminin, beta 1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-021226-1
See related: Ensembl:ENSDARG00000101209 AllianceGenome:ZFIN:ZDB-GENE-021226-1
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: gup; cb95; lamb1; fc20b05; sb:cb95; wu:fc20b05
Summary: Predicted to enable integrin binding activity. Predicted to be an extracellular matrix structural constituent. Acts upstream of or within several processes, including animal organ development; detection of light stimulus involved in visual perception; and fin regeneration. Predicted to be located in membrane. Predicted to be part of laminin complex. Is expressed in several structures, including digestive system; fin; nervous system; optic cup; and pectoral fin bud. Used to study coloboma. Human ortholog(s) of this gene implicated in autistic disorder and lissencephaly 5. Orthologous to human LAMB1 (laminin subunit beta 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 25

Exon count:: 34

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	25	NC_007136.7 (31546828..31629095, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	25	NC_007136.6 (31135867..31218134, complement)

Chromosome 25 - NC_007136.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

Transient induction of lamb1a in epithelial cells is a key, growth factor-guided step in formation of a signaling-competent regeneration epidermis.
Title: Transient laminin beta 1a Induction Defines the Wound Epidermis during Zebrafish Fin Regeneration.
Data show that lamb1a regulates asymmetric left-right gene expression in the lateral plate mesoderm (LPM).
Title: Laminin β1a controls distinct steps during the establishment of digestive organ laterality.
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.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables integrin binding	IBA Inferred from Biological aspect of Ancestor more info
enables mechanoreceptor activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables structural constituent of synapse-associated extracellular matrix	IBA Inferred from Biological aspect of Ancestor more info

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
involved_in basement membrane assembly	IBA Inferred from Biological aspect of Ancestor more info
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
involved_in cell migration	IBA Inferred from Biological aspect of Ancestor 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 determination of left/right asymmetry in lateral mesoderm	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 eye morphogenesis	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 hypochord 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 formation	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 regulation of cilium assembly	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of secondary heart field cardioblast proliferation	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 somite development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in substrate adhesion-dependent cell spreading	IBA Inferred from Biological aspect of Ancestor more info
involved_in tissue development	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of laminin complex	IBA Inferred from Biological aspect of Ancestor more info
located_in perinuclear region of cytoplasm	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: laminin subunit beta-1a

Names: grumpy; laminin, beta 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_173275.1 → NP_775382.1 laminin subunit beta-1a precursor

See identical proteins and their annotated locations for NP_775382.1

Status: PROVISIONAL

Source sequence(s)

AF468049

UniProtKB/TrEMBL

Q8JHV7

Related

ENSDARP00000131540.2, ENSDART00000170673.2

Conserved Domains (12) summary

smart00180
Location:769 → 814

EGF_Lam; Laminin-type epidermal growth factor-like domai

COG1340
Location:1441 → 1730

COG1340; Uncharacterized coiled-coil protein, contains DUF342 domain [Function unknown]

cd00055
Location:394 → 452

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:817 → 865

Laminin_EGF; Laminin EGF domain

pfam00055
Location:40 → 266

Laminin_N; Laminin N-terminal (Domain VI)

pfam01442
Location:1246 → 1393

Apolipoprotein; Apolipoprotein A1/A4/E domain

pfam04156
Location:1697 → 1774

IncA; IncA protein

pfam04871
Location:1672 → 1774

Uso1_p115_C; Uso1 / p115 like vesicle tethering protein, C terminal region

cl00143
Location:1256 → 1374

SynN; Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may ...

cl00223
Location:1530 → 1611

NusB_Sun; RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the ...

cl14880
Location:552 → 612

CBM6-CBM35-CBM36_like; Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily

cl23763
Location:1448 → 1630

MCP_signal; Methyl-accepting chemotaxis protein (MCP), signaling domain