fn1b fibronectin 1b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: fn1bprovided by ZNC
Official Full Name: fibronectin 1bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-6545
See related: Ensembl:ENSDARG00000006526 AllianceGenome:ZFIN:ZDB-GENE-030131-6545
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: fn3; fn1l; cb1057; wu:fa14f11; wu:fb03c02
Summary: Predicted to enable integrin binding activity and proteoglycan binding activity. Acts upstream of or within atrioventricular valve morphogenesis; heart field specification; and somitogenesis. Predicted to be located in extracellular region. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Is expressed in several structures, including fin; integument; mesoderm; musculature system; and periderm. Human ortholog(s) of this gene implicated in calcium oxalate nephrolithiasis; membranoproliferative glomerulonephritis; and spondylometaphyseal dysplasia corner fracture type. Orthologous to human FN1 (fibronectin 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: chromosome: 1

Exon count:: 46

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	1	NC_007112.7 (5504131..5543086, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	1	NC_007112.6 (4806328..4845286, complement)

Chromosome 1 - NC_007112.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

the fibronectin extracellular matrix is essential for cell-surface Vangl2 expression, membrane-protrusive activity and directed migration.
Title: Vangl2-dependent regulation of membrane protrusions and directed migration requires a fibronectin extracellular matrix.
Heart valves originate from progenitors located in the ventricle and atrium that generate the valve leaflets through a coordinated set of endocardial tissue movements, dependent on the expression of fibronectin1b.
Title: klf2a couples mechanotransduction and zebrafish valve morphogenesis through fibronectin synthesis.
Revealed the fates of a major population of the regenerative epidermis (RE) cells that express fibronectin 1b (fn1b) during fin regeneration. These RE cells are mainly recruited from the inter-ray epidermis, and they follow heterogeneous cell fates.
Title: Heterogeneous fates and dynamic rearrangement of regenerative epidermis-derived cells during zebrafish fin regeneration.
fn1b has isoforms with different roles in zebrafish development
Title: Identification and characterization of a second fibronectin gene in zebrafish.

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

fi28c04.x1 (e-PCR)
- UniSTS:197177

fb58a11 (e-PCR)
- UniSTS:187241

atic (e-PCR), detects polymorphism
- UniSTS:205680

fb03c02.y1 (e-PCR)
- UniSTS:189833

fa14f11.s1 (e-PCR)
- UniSTS:202390

AI330838 (e-PCR)
- UniSTS:206815

fk23g12.y1 (e-PCR)
- UniSTS:200675

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables heparin binding	IEA Inferred from Electronic Annotation more info
enables integrin binding	IBA Inferred from Biological aspect of Ancestor more info
enables proteoglycan binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within acute-phase response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within atrioventricular valve morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in cell-matrix adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell-substrate junction assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in heart development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within heart field specification	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nervous system development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of cell shape	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within somitogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within somitogenesis	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in extracellular region	IEA Inferred from Electronic Annotation more info

General protein information

Go to the top of the page Help

Preferred Names: fibronectin 1b; fibronectin

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001013261.1 → NP_001013279.1 fibronectin 1b precursor

See identical proteins and their annotated locations for NP_001013279.1

Status: PROVISIONAL

Source sequence(s)

AY538257

UniProtKB/TrEMBL

Q6JAN2

Conserved Domains (6) summary

smart00059
Location:421 → 469

FN2; Fibronectin type 2 domain

smart00058
Location:2278 → 2320

FN1; Fibronectin type 1 domain

cd00061
Location:2323 → 2360

FN1; Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces ...

cd00063
Location:1270 → 1358

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00039
Location:235 → 274

fn1; Fibronectin type I domain

pfam00041
Location:1452 → 1533

fn3; Fibronectin type III 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_007112.7 Reference GRCz11 Primary Assembly

Range

5504131..5543086 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_009305554.3 → XP_009303829.1 fibronectin isoform X2

UniProtKB/TrEMBL

A0A8M3BD92, A2CEW3

Related

ENSDARP00000094530.2, ENSDART00000103755.4

Conserved Domains (6) summary

smart00059
Location:421 → 469

FN2; Fibronectin type 2 domain

smart00058
Location:2370 → 2412

FN1; Fibronectin type 1 domain

cd00061
Location:2413 → 2452

FN1; Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces ...

cd00063
Location:1362 → 1450

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00039
Location:235 → 274

fn1; Fibronectin type I domain

pfam00041
Location:1544 → 1625

fn3; Fibronectin type III domain
XM_005160284.3 → XP_005160341.1 fibronectin isoform X1

UniProtKB/TrEMBL

A0A8M2B744

Conserved Domains (6) summary

smart00059
Location:421 → 469

FN2; Fibronectin type 2 domain

smart00058
Location:2277 → 2319

FN1; Fibronectin type 1 domain

cd00061
Location:2320 → 2359

FN1; Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces ...

cd00063
Location:1269 → 1357

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00039
Location:235 → 274

fn1; Fibronectin type I domain

pfam00041
Location:1451 → 1532

fn3; Fibronectin type III domain