Puf60 poly-U binding splicing factor 60 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Puf60provided by RGD
Official Full Name: poly-U binding splicing factor 60provided by RGD
Primary source: RGD:621674
See related: EnsemblRapid:ENSRNOG00000009960 AllianceGenome:RGD:621674
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Siahbp1
Summary: Predicted to enable identical protein binding activity. Predicted to be involved in alternative mRNA splicing, via spliceosome; mRNA splice site recognition; and regulation of alternative mRNA splicing, via spliceosome. Predicted to be located in cell junction and nucleoplasm. Predicted to be part of ribonucleoprotein complex. Orthologous to human PUF60 (poly(U) binding splicing factor 60). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Heart (RPKM 267.2), Thymus (RPKM 260.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q34

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (109663490..109674443, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (107782799..107793759, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (117129237..117140234, complement)

Chromosome 7 - NC_086025.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

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 identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in 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
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in 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
involved_in regulation of alternative mRNA splicing, via spliceosome	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cell junction	IEA Inferred from Electronic Annotation more info
located_in cell junction	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of ribonucleoprotein complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: poly(U)-binding-splicing factor PUF60

Names: 60 kDa poly(U)-binding-splicing factor; FBP interacting repressor; RNA-binding protein Siah-BP; Ro ribonucleoprotein-binding protein 1; poly-U binding splicing factor 60K; pyrimidine tract binding splicing factor; siah binding protein 1; FBP interacting repressor; pyrimidine tract binding splicing factor; Ro ribonucleoprotein-binding protein 1; siah-binding 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_001191880.2 → NP_001178809.1 poly(U)-binding-splicing factor PUF60 isoform 2

See identical proteins and their annotated locations for NP_001178809.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/TrEMBL

A0A8I6AQY8

Conserved Domains (1) summary

TIGR01645
Location:9 → 563

half-pint; poly-U binding splicing factor, half-pint family
NM_001399391.1 → NP_001386320.1 poly(U)-binding-splicing factor PUF60 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/Swiss-Prot

Q9WV25

UniProtKB/TrEMBL

A0A8I6AQY8, A6HS57

Related

ENSRNOP00000096818.2, ENSRNOT00000109562.2

Conserved Domains (1) summary

TIGR01645
Location:7 → 564

half-pint; poly-U binding splicing factor, half-pint family
NM_001399392.1 → NP_001386321.1 poly(U)-binding-splicing factor PUF60 isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/TrEMBL

A0A8I5ZME8, A6HS56

Related

ENSRNOP00000079179.2, ENSRNOT00000096390.2

Conserved Domains (1) summary

TIGR01645
Location:7 → 547

half-pint; poly-U binding splicing factor, half-pint family
NM_001399393.1 → NP_001386322.1 poly(U)-binding-splicing factor PUF60 isoform 4

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/TrEMBL

A0A8I5ZME8

Conserved Domains (1) summary

TIGR01645
Location:9 → 546

half-pint; poly-U binding splicing factor, half-pint family
NM_001399394.1 → NP_001386323.1 poly(U)-binding-splicing factor PUF60 isoform 5

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/TrEMBL

A0A0H2UHZ6, A0A8L2Q6G3

Conserved Domains (1) summary

TIGR01645
Location:9 → 513

half-pint; poly-U binding splicing factor, half-pint family

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086025.1 Reference GRCr8

Range

109663490..109674443 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006241897.5 → XP_006241959.2 poly(U)-binding-splicing factor PUF60 isoform X1

UniProtKB/TrEMBL

A0A0H2UHZ6, A0A8L2Q6G3

Related

ENSRNOP00000013353.6, ENSRNOT00000013353.8

Conserved Domains (1) summary

TIGR01645
Location:9 → 530

half-pint; poly-U binding splicing factor, half-pint family
XM_063264334.1 → XP_063120404.1 poly(U)-binding-splicing factor PUF60 isoform X3

UniProtKB/TrEMBL

A0A8I5ZME8
XM_063264333.1 → XP_063120403.1 poly(U)-binding-splicing factor PUF60 isoform X2

UniProtKB/TrEMBL

A0A0H2UHZ6, A0A8I5Y5C7, A0A8L2Q6G3

Related

ENSRNOP00000076557.1, ENSRNOT00000098671.2