fat1a FAT atypical cadherin 1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: fat1aprovided by ZNC
Official Full Name: FAT atypical cadherin 1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-050425-1
See related: Ensembl:ENSDARG00000017591 AllianceGenome:ZFIN:ZDB-GENE-050425-1
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: fat; fat1
Summary: Predicted to enable calcium ion binding activity. Acts upstream of or within closure of optic fissure and pronephros development. Predicted to be located in membrane. Is expressed in several structures, including digestive system; nervous system; otic vesicle; pleuroperitoneal region; and tail bud. Human ortholog(s) of this gene implicated in colorectal cancer; esophagus squamous cell carcinoma; lung non-small cell carcinoma; lung small cell carcinoma; and oral squamous cell carcinoma. Orthologous to human FAT1 (FAT atypical cadherin 1). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: all
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Genomic context

Location:: chromosome: 1

Exon count:: 38

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	1	NC_007112.7 (17374777..17524927)
105	previous assembly	GRCz10 (GCF_000002035.5)	1	NC_007112.6 (16681832..16830103)

Chromosome 1 - NC_007112.7 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?

Knockdown of fat1 in zebrafish causes pronephric cysts, which is partially rescued by RAC1/CDC42 activators, confirming a role of the two small GTPases in the pathogenesis.
Title: FAT1 mutations cause a glomerulotubular nephropathy.
During embryogenesis fat mRNA is expressed in the developing brain, specialised epithelial surfaces the notochord, ears, eyes and digestive tract, a pattern similar but distinct to that found in mammals.
Title: Cloning and expression of the large zebrafish protocadherin gene, Fat.

Submit: New GeneRIF Correction

General gene information

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Markers

Z9958 (e-PCR)
- UniSTS:10572

fc74a12.x1 (e-PCR)
- UniSTS:194415

z42937b (e-PCR), detects polymorphism
- UniSTS:238792

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables calcium ion binding	ISS Inferred from Sequence or Structural Similarity more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules	ISS Inferred from Sequence or Structural Similarity more info	PubMed
acts_upstream_of_or_within cell adhesion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell-cell adhesion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within closure of optic fissure	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within homophilic cell adhesion via plasma membrane adhesion molecules	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within pronephros development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	ISS Inferred from Sequence or Structural Similarity more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: protocadherin Fat 1a

Names: FAT tumor suppressor homolog 1; FAT tumor suppressor homolog 1a; protocadherin

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_212967.2 → NP_998132.2 protocadherin Fat 1a precursor

Status: VALIDATED

Source sequence(s)

BX511093, BX537280, BX908758

UniProtKB/TrEMBL

A0A8M1PMX5, A2BGT8

Related

ENSDARP00000112805.1, ENSDART00000145068.3

Conserved Domains (5) summary

cd11304
Location:1041 → 1133

Cadherin_repeat; Cadherin tandem repeat domain

smart00282
Location:3860 → 3988

LamG; Laminin G domain

cd00054
Location:4131 → 4167

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

pfam00008
Location:4097 → 4127

EGF; EGF-like domain

cl09101
Location:272 → 353

E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

17374777..17524927

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021469232.2 → XP_021324907.1 protocadherin Fat 1a isoform X1

UniProtKB/TrEMBL

A0A8M9PRG7

Conserved Domains (5) summary

cd11304
Location:1041 → 1133

Cadherin_repeat; Cadherin tandem repeat domain

smart00282
Location:3883 → 4011

LamG; Laminin G domain

cd00054
Location:4154 → 4190

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

pfam00008
Location:4120 → 4150

EGF; EGF-like domain

cl09101
Location:272 → 353

E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus
XM_021469206.2 → XP_021324881.1 protocadherin Fat 1a isoform X1

UniProtKB/TrEMBL

A0A8M9PRG7

Conserved Domains (5) summary

cd11304
Location:1041 → 1133

Cadherin_repeat; Cadherin tandem repeat domain

smart00282
Location:3883 → 4011

LamG; Laminin G domain

cd00054
Location:4154 → 4190

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

pfam00008
Location:4120 → 4150

EGF; EGF-like domain

cl09101
Location:272 → 353

E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus
XM_068215742.1 → XP_068071843.1 protocadherin Fat 1a isoform X2
XM_005168343.5 → XP_005168400.1 protocadherin Fat 1a isoform X3

See identical proteins and their annotated locations for XP_005168400.1

UniProtKB/TrEMBL

A0A8M2BG88

Conserved Domains (5) summary

cd11304
Location:1041 → 1133

Cadherin_repeat; Cadherin tandem repeat domain

smart00282
Location:3883 → 4011

LamG; Laminin G domain

cd00054
Location:4154 → 4190

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

pfam00008
Location:4120 → 4150

EGF; EGF-like domain

cl09101
Location:272 → 353

E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus
XM_005168345.5 → XP_005168402.1 protocadherin Fat 1a isoform X5

UniProtKB/TrEMBL

A0A8M2BFN2

Conserved Domains (5) summary

cd11304
Location:1041 → 1133

Cadherin_repeat; Cadherin tandem repeat domain

smart00282
Location:3883 → 4011

LamG; Laminin G domain

cd00054
Location:4154 → 4190

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

pfam00008
Location:4120 → 4150

EGF; EGF-like domain

cl09101
Location:272 → 353

E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus
XM_021469270.2 → XP_021324945.1 protocadherin Fat 1a isoform X4

UniProtKB/TrEMBL

A0A8M9PV49

Conserved Domains (5) summary

cd11304
Location:1041 → 1133

Cadherin_repeat; Cadherin tandem repeat domain

smart00282
Location:3860 → 3988

LamG; Laminin G domain

cd00054
Location:4131 → 4167

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

pfam00008
Location:4097 → 4127

EGF; EGF-like domain

cl09101
Location:272 → 353

E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus
XM_068215778.1 → XP_068071879.1 protocadherin Fat 1a isoform X6
XM_068215800.1 → XP_068071901.1 protocadherin Fat 1a isoform X7