Sf3a1 splicing factor 3A subunit 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sf3a1provided by RGD
Official Full Name: splicing factor 3A subunit 1provided by RGD
Primary source: RGD:1311477
See related: Ensembl:ENSRNOG00000005218 AllianceGenome:RGD:1311477
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable RNA binding activity. Predicted to be involved in U2-type prespliceosome assembly. Predicted to be located in nuclear speck. Predicted to be part of U2 snRNP and spliceosomal complex. Orthologous to human SF3A1 (splicing factor 3a subunit 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 143.8), Kidney (RPKM 100.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 14q21

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	14	NC_086032.1 (83254971..83275720)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	14	NC_051349.1 (79031394..79052144)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	14	NC_005113.4 (84393182..84413931)

Chromosome 14 - NC_086032.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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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Markers

RH142726 (e-PCR)
- UniSTS:231973

RH132382 (e-PCR)
- UniSTS:215665

RH133159 (e-PCR)
- UniSTS:216442

BE116323 (e-PCR)
- UniSTS:248467

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in U2-type prespliceosome assembly	ISO Inferred from Sequence Orthology more info
involved_in mRNA cis splicing, via spliceosome	IEA Inferred from Electronic Annotation more info
involved_in mRNA processing	ISO Inferred from Sequence Orthology more info
involved_in mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of U2 snRNP	IBA Inferred from Biological aspect of Ancestor more info
part_of U2 snRNP	ISO Inferred from Sequence Orthology more info
part_of U2-type precatalytic spliceosome	ISO Inferred from Sequence Orthology more info
part_of U2-type prespliceosome	IBA Inferred from Biological aspect of Ancestor more info
part_of U2-type prespliceosome	ISO Inferred from Sequence Orthology more info
part_of U2-type spliceosomal complex	ISO Inferred from Sequence Orthology more info
part_of catalytic step 2 spliceosome	IBA Inferred from Biological aspect of Ancestor more info
part_of catalytic step 2 spliceosome	ISO Inferred from Sequence Orthology more info
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of spliceosomal complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: splicing factor 3A subunit 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_001107235.1 → NP_001100705.1 splicing factor 3A subunit 1

See identical proteins and their annotated locations for NP_001100705.1

Status: PROVISIONAL

Source sequence(s)

CH473963

UniProtKB/TrEMBL

A6IKF2, D3ZQM0

Related

ENSRNOP00000008355.4, ENSRNOT00000008355.6

Conserved Domains (5) summary

cd01800
Location:716 → 791

SF3a120_C; Ubiquitin-like domain of Mammalian splicing factor SF3a_120

smart00648
Location:50 → 103

SWAP; Suppressor-of-White-APricot splicing regulator

smart00213
Location:716 → 784

UBQ; Ubiquitin homologues

pfam01805
Location:165 → 215

Surp; Surp module

pfam12230
Location:229 → 469

PRP21_like_P; Pre-mRNA splicing factor PRP21 like protein