U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

puf60b poly-U binding splicing factor b [ Danio rerio (zebrafish) ]

Gene ID: 415211, updated on 27-Mar-2024

Summary

Go to the top of the page Help
Official Symbol
puf60bprovided by ZNC
Official Full Name
poly-U binding splicing factor bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-040625-116
See related
Ensembl:ENSDARG00000001241 AllianceGenome:ZFIN:ZDB-GENE-040625-116
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
SIAHBP1; fe37c05; repressor; zgc:86806; wu:fb33e11; wu:fe37c05; si:zc12p8.2; si:ch211-12p8.2
Summary
Predicted to enable DNA binding activity and RNA binding activity. Predicted to be involved in alternative mRNA splicing, via spliceosome; mRNA splice site selection; and regulation of alternative mRNA splicing, via spliceosome. Predicted to act upstream of or within RNA splicing; apoptotic process; and mRNA processing. Predicted to be located in nucleus. Is expressed in endocrine system; nervous system; pectoral fin; pharynx; and somite. Orthologous to human PUF60 (poly(U) binding splicing factor 60). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
chromosome: 7
Exon count:
12
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (41146543..41158142)
105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (40866513..40878069)

Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene si:dkey-151p11.2 Neighboring gene insulin induced gene 1 Neighboring gene 5-hydroxytryptamine (serotonin) receptor 5A, genome duplicate b Neighboring gene scribble planar cell polarity protein Neighboring gene kinesin family member 9

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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 pageHelp

Related articles in PubMed

  1. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

Pathways from PubChem

Go to the top of the page

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within RNA splicing IEA
Inferred from Electronic Annotation
more info
  
involved_in alternative mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within apoptotic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA splice site recognition IBA
Inferred from Biological aspect of Ancestor
more info
  
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
  
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
part_of ribonucleoprotein complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
poly(U)-binding-splicing factor PUF60-B
Names
fuse-binding protein-interacting repressor

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)

  1. NM_001002121.1 → NP_001002121.1  poly(U)-binding-splicing factor PUF60-B

    See identical proteins and their annotated locations for NP_001002121.1

    Status: PROVISIONAL

    Source sequence(s)
    BC071467
    UniProtKB/Swiss-Prot
    Q6IQE0, Q7ZZ33, Q7ZZ34
    Related
    ENSDARP00000141568.2, ENSDART00000166448.2
    Conserved Domains (4) summary
    TIGR01645
    Location:1 → 502
    half-pint; poly-U binding splicing factor, half-pint family
    cd12370
    Location:69 → 144
    RRM1_PUF60; RNA recognition motif 1 in (U)-binding-splicing factor PUF60 and similar proteins
    cd12371
    Location:166 → 242
    RRM2_PUF60; RNA recognition motif 2 in (U)-binding-splicing factor PUF60 and similar proteins
    cd12648
    Location:404 → 501
    RRM3_UHM_PUF60; RNA recognition motif 3 in UHM domain of poly(U)-binding-splicing factor PUF60 and similar proteins

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007118.7 Reference GRCz11 Primary Assembly

    Range
    41146543..41158142
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_009303395.3 → XP_009301670.1  poly(U)-binding-splicing factor PUF60-B isoform X1

    UniProtKB/Swiss-Prot
    Q6IQE0, Q7ZZ33, Q7ZZ34
    UniProtKB/TrEMBL
    A0A2R8RVR3, A0A8M3AUG9
    Related
    ENSDARP00000153956.1, ENSDART00000185388.1
    Conserved Domains (5) summary
    TIGR01645
    Location:2 → 520
    half-pint; poly-U binding splicing factor, half-pint family
    cd12370
    Location:87 → 162
    RRM1_PUF60; RNA recognition motif 1 in (U)-binding-splicing factor PUF60 and similar proteins
    cd12371
    Location:184 → 260
    RRM2_PUF60; RNA recognition motif 2 in (U)-binding-splicing factor PUF60 and similar proteins
    cd12648
    Location:422 → 519
    RRM3_UHM_PUF60; RNA recognition motif 3 in UHM domain of poly(U)-binding-splicing factor PUF60 and similar proteins
    cl21455
    Location:20 → 111
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6IQE0.2 GenPept UniProtKB/Swiss-Prot:Q6IQE0

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.