rbfox1l RNA binding fox-1 homolog 1, like [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: rbfox1lprovided by ZNC
Official Full Name: RNA binding fox-1 homolog 1, likeprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040923-2
See related: Ensembl:ENSDARG00000021184 AllianceGenome:ZFIN:ZDB-GENE-040923-2
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: Fox-1; fox1l; a2bp1l; zeh0082; hm:zeh0082
Summary: Enables RNA binding activity. Acts upstream of or within several processes, including RNA splicing; muscle cell development; and regulation of RNA splicing. Located in nucleus. Is expressed in several structures, including cardiovascular system; fin bud; musculature system; paraxial mesoderm; and skeletal muscle satellite cell. [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 16

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	16	NC_007127.7 (31900129..31919281, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	16	NC_007127.6 (31944541..31963693, complement)

Chromosome 16 - NC_007127.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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?

Data show that Rbfox1l and Rbfox2 have unique and redundant roles in splicing regulation.
Title: Rbfox-regulated alternative splicing is critical for zebrafish cardiac and skeletal muscle functions.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	IGI Inferred from Genetic Interaction more info	PubMed
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within RNA splicing	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within RNA splicing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cardiac muscle cell development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within heart process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in nervous system development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within nervous system development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of RNA splicing	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of RNA splicing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of RNA splicing	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of RNA splicing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of alternative mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of alternative mRNA splicing, via spliceosome	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within skeletal muscle fiber development	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: RNA binding protein fox-1 homolog 1-like

Names: RNA-binding protein; ZFmu1A11s; ataxin 2-binding protein 1-like; fox-1 homolog-like protein 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_214775.1 → NP_999940.1 RNA binding protein fox-1 homolog 1-like

See identical proteins and their annotated locations for NP_999940.1

Status: PROVISIONAL

Source sequence(s)

AB074763

UniProtKB/Swiss-Prot

Q7ZT82

UniProtKB/TrEMBL

B3DK66

Related

ENSDARP00000016637.7, ENSDART00000027364.8

Conserved Domains (3) summary

COG0724
Location:143 → 237

RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]

cd12407
Location:147 → 222

RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins

pfam12414
Location:257 → 353

Fox-1_C; Calcitonin gene-related peptide regulator C terminal

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_007127.7 Reference GRCz11 Primary Assembly

Range

31900129..31919281 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005158173.4 → XP_005158230.1 RNA binding protein fox-1 homolog 1-like isoform X1

UniProtKB/TrEMBL

A0A8M2B4J5

Conserved Domains (3) summary

COG0724
Location:131 → 225

RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]

cd12407
Location:135 → 210

RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins

pfam12414
Location:245 → 341

Fox-1_C; Calcitonin gene-related peptide regulator C terminal
XM_021466672.1 → XP_021322347.1 RNA binding protein fox-1 homolog 1-like isoform X2

UniProtKB/TrEMBL

A0A8M9P7V7

Conserved Domains (2) summary

pfam12414
Location:92 → 188

Fox-1_C; Calcitonin gene-related peptide regulator C terminal

cl17169
Location:1 → 57

RRM_SF; RNA recognition motif (RRM) superfamily
XM_021466673.1 → XP_021322348.1 RNA binding protein fox-1 homolog 1-like isoform X2

UniProtKB/TrEMBL

A0A8M9P7V7

Conserved Domains (2) summary

pfam12414
Location:92 → 188

Fox-1_C; Calcitonin gene-related peptide regulator C terminal

cl17169
Location:1 → 57

RRM_SF; RNA recognition motif (RRM) superfamily
XM_021466671.1 → XP_021322346.1 RNA binding protein fox-1 homolog 1-like isoform X2

UniProtKB/TrEMBL

A0A8M9P7V7

Conserved Domains (2) summary

pfam12414
Location:92 → 188

Fox-1_C; Calcitonin gene-related peptide regulator C terminal

cl17169
Location:1 → 57

RRM_SF; RNA recognition motif (RRM) superfamily