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Protein

RNA binding protein fox-1 homolog 3

Gene

RBFOX3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Pre-mRNA alternative splicing regulator. Regulates alternative splicing of RBFOX2 to enhance the production of mRNA species that are targeted for nonsense-mediated decay (NMD).By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
RNA binding protein fox-1 homolog 3
Alternative name(s):
Fox-1 homolog C
Neuronal nuclei antigen
Short name:
NeuN antigen
Gene namesi
Name:RBFOX3
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 17

Organism-specific databases

HGNCiHGNC:27097. RBFOX3.

Subcellular locationi

  • Nucleus 1 Publication
  • Cytoplasm 1 Publication

  • Note: Largely restricted to neuronal nuclei. However, significant cytoplasmic localization in neurons from brains from HIV-infected individuals with cognitive impairment.1 Publication

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi146713.
OpenTargetsiENSG00000167281.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003492071 – 312RNA binding protein fox-1 homolog 3Add BLAST312

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei223Asymmetric dimethylarginine; alternateBy similarity1
Modified residuei223Omega-N-methylarginine; alternateBy similarity1
Modified residuei272Asymmetric dimethylarginineBy similarity1

Keywords - PTMi

Methylation

Proteomic databases

MaxQBiA6NFN3.
PaxDbiA6NFN3.
PRIDEiA6NFN3.

PTM databases

iPTMnetiA6NFN3.
PhosphoSitePlusiA6NFN3.

Expressioni

Gene expression databases

BgeeiENSG00000167281.
ExpressionAtlasiA6NFN3. baseline and differential.

Organism-specific databases

HPAiHPA030790.

Interactioni

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei100Interaction with RNABy similarity1
Sitei108Interaction with RNABy similarity1
Sitei109Interaction with RNABy similarity1
Sitei133Interaction with RNABy similarity1
Sitei138Interaction with RNABy similarity1
Sitei142Interaction with RNABy similarity1
Sitei166Interaction with RNABy similarity1
Sitei176Interaction with RNABy similarity1

Protein-protein interaction databases

BioGridi127004. 6 interactors.
STRINGi9606.ENSP00000393262.

Structurei

3D structure databases

ProteinModelPortaliA6NFN3.
SMRiA6NFN3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini100 – 175RRMPROSITE-ProRule annotationAdd BLAST76

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi4 – 40Pro-richAdd BLAST37
Compositional biasi277 – 282Poly-Ala6

Sequence similaritiesi

Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0125. Eukaryota.
ENOG4111WJT. LUCA.
GeneTreeiENSGT00390000013767.
HOGENOMiHOG000230971.
HOVERGENiHBG000044.
InParanoidiA6NFN3.
KOiK14946.
PhylomeDBiA6NFN3.
TreeFamiTF315942.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR025670. Fox-1_C_dom.
IPR012677. Nucleotide-bd_a/b_plait.
IPR017325. RNA-bd_Fox-1.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF12414. Fox-1_C. 1 hit.
PF00076. RRM_1. 1 hit.
[Graphical view]
PIRSFiPIRSF037932. Ataxin_2_bd_A2BP. 1 hit.
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: A6NFN3-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MAQPYPPAQY PPPPQNGIPA EYAPPPPHPT QDYSGQTPVP TEHGMTLYTP
60 70 80 90 100
AQTHPEQPGS EASTQPIAGT QTVPQTDEAA QTDSQPLHPS DPTEKQQPKR
110 120 130 140 150
LHVSNIPFRF RDPDLRQMFG QFGKILDVEI IFNERGSKGF GFVTFETSSD
160 170 180 190 200
ADRAREKLNG TIVEGRKIEV NNATARVMTN KKTGNPYTNG WKLNPVVGAV
210 220 230 240 250
YGPEFYAVTG FPYPTTGTAV AYRGAHLRGR GRAVYNTFRA APPPPPIPTY
260 270 280 290 300
GAVVYQDGFY GAEIYGGYAA YRYAQPAAAA AAYSDSYGRV YAAADPYHHT
310
IGPAATYSIG TM
Length:312
Mass (Da):33,873
Last modified:February 8, 2011 - v4
Checksum:i62D564F8A7862862
GO
Isoform 2 (identifier: A6NFN3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     312-312: M → MVRSPGPPSPGCQS

Note: No experimental confirmation available.
Show »
Length:325
Mass (Da):35,123
Checksum:i53ECD61C4CC86F5B
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_056241312M → MVRSPGPPSPGCQS in isoform 2. 1 Publication1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK293617 mRNA. Translation: BAG57077.1.
AK293905 mRNA. Translation: BAG57290.1.
AC020689 Genomic DNA. No translation available.
AC021534 Genomic DNA. No translation available.
AC027824 Genomic DNA. No translation available.
AC055858 Genomic DNA. No translation available.
AC073624 Genomic DNA. No translation available.
AC142247 Genomic DNA. No translation available.
CCDSiCCDS45805.1. [A6NFN3-1]
RefSeqiNP_001076044.1. NM_001082575.2. [A6NFN3-1]
XP_016879699.1. XM_017024210.1. [A6NFN3-1]
UniGeneiHs.135229.
Hs.574437.

Genome annotation databases

EnsembliENST00000580155; ENSP00000463653; ENSG00000167281. [A6NFN3-1]
ENST00000584778; ENSP00000462007; ENSG00000167281. [A6NFN3-2]
GeneIDi146713.
KEGGihsa:146713.
UCSCiuc010dhs.5. human. [A6NFN3-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK293617 mRNA. Translation: BAG57077.1.
AK293905 mRNA. Translation: BAG57290.1.
AC020689 Genomic DNA. No translation available.
AC021534 Genomic DNA. No translation available.
AC027824 Genomic DNA. No translation available.
AC055858 Genomic DNA. No translation available.
AC073624 Genomic DNA. No translation available.
AC142247 Genomic DNA. No translation available.
CCDSiCCDS45805.1. [A6NFN3-1]
RefSeqiNP_001076044.1. NM_001082575.2. [A6NFN3-1]
XP_016879699.1. XM_017024210.1. [A6NFN3-1]
UniGeneiHs.135229.
Hs.574437.

3D structure databases

ProteinModelPortaliA6NFN3.
SMRiA6NFN3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi127004. 6 interactors.
STRINGi9606.ENSP00000393262.

PTM databases

iPTMnetiA6NFN3.
PhosphoSitePlusiA6NFN3.

Proteomic databases

MaxQBiA6NFN3.
PaxDbiA6NFN3.
PRIDEiA6NFN3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000580155; ENSP00000463653; ENSG00000167281. [A6NFN3-1]
ENST00000584778; ENSP00000462007; ENSG00000167281. [A6NFN3-2]
GeneIDi146713.
KEGGihsa:146713.
UCSCiuc010dhs.5. human. [A6NFN3-1]

Organism-specific databases

CTDi146713.
DisGeNETi146713.
GeneCardsiRBFOX3.
HGNCiHGNC:27097. RBFOX3.
HPAiHPA030790.
MIMi616999. gene.
neXtProtiNX_A6NFN3.
OpenTargetsiENSG00000167281.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0125. Eukaryota.
ENOG4111WJT. LUCA.
GeneTreeiENSGT00390000013767.
HOGENOMiHOG000230971.
HOVERGENiHBG000044.
InParanoidiA6NFN3.
KOiK14946.
PhylomeDBiA6NFN3.
TreeFamiTF315942.

Miscellaneous databases

ChiTaRSiRBFOX3. human.
GenomeRNAii146713.
PROiA6NFN3.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000167281.
ExpressionAtlasiA6NFN3. baseline and differential.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR025670. Fox-1_C_dom.
IPR012677. Nucleotide-bd_a/b_plait.
IPR017325. RNA-bd_Fox-1.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF12414. Fox-1_C. 1 hit.
PF00076. RRM_1. 1 hit.
[Graphical view]
PIRSFiPIRSF037932. Ataxin_2_bd_A2BP. 1 hit.
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRFOX3_HUMAN
AccessioniPrimary (citable) accession number: A6NFN3
Secondary accession number(s): B4DEG6, B4DF29
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 2, 2008
Last sequence update: February 8, 2011
Last modified: November 2, 2016
This is version 76 of the entry and version 4 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 17
    Human chromosome 17: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.