Snrpa1 small nuclear ribonucleoprotein polypeptide A' [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Snrpa1provided by RGD
Official Full Name: small nuclear ribonucleoprotein polypeptide A'provided by RGD
Primary source: RGD:2320494
See related: Ensembl:ENSRNOG00000011932 AllianceGenome:RGD:2320494
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
Summary: Predicted to enable U2 snRNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome and spermatogenesis. Predicted to be located in nuclear speck. Predicted to be part of U2 snRNP; U2-type catalytic step 2 spliceosome; and U2-type precatalytic spliceosome. Human ortholog(s) of this gene implicated in connective tissue disease. Orthologous to human SNRPA1 (small nuclear ribonucleoprotein polypeptide A'). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 142.1), Spleen (RPKM 99.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q22

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (129051492..129065114)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (119641402..119654653)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (126961389..126974453)

Chromosome 1 - NC_086019.1 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: 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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General gene information

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Markers

Snrpa1 (e-PCR), detects polymorphism
- UniSTS:479275

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables U2 snRNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
involved_in mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
involved_in spermatogenesis	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-type catalytic step 2 spliceosome	ISO Inferred from Sequence Orthology more info
part_of U2-type precatalytic spliceosome	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	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nuclear speck	IEA Inferred from Electronic Annotation 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: U2 small nuclear ribonucleoprotein A'

Names: U2 small nuclear ribonucleoprotein polypeptide A'

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_001271323.1 → NP_001258252.1 U2 small nuclear ribonucleoprotein A'

Status: VALIDATED

Source sequence(s)

FM044635, JAXUCZ010000001

UniProtKB/TrEMBL

A6JBP1, D3ZZR5

Related

ENSRNOP00000016758.4, ENSRNOT00000016758.9

Conserved Domains (2) summary

sd00031
Location:22 → 43

LRR_1; leucine-rich repeat [structural motif]

pfam14580
Location:1 → 175

LRR_9; Leucine-rich repeat

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_086019.1 Reference GRCr8

Range

129051492..129065114

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063282005.1 → XP_063138075.1 U2 small nuclear ribonucleoprotein A' isoform X2

UniProtKB/TrEMBL

A6JBP2, A6JBP4
XM_006229323.5 → XP_006229385.1 U2 small nuclear ribonucleoprotein A' isoform X1

UniProtKB/TrEMBL

A0A8I6A4V4, D3ZLF6

Related

ENSRNOP00000041496.4

Conserved Domains (4) summary

smart00446
Location:105 → 123

LRRcap; occurring C-terminal to leucine-rich repeats

sd00031
Location:43 → 66

LRR_1; leucine-rich repeat [structural motif]

pfam12799
Location:65 → 104

LRR_4; Leucine Rich repeats (2 copies)

pfam13855
Location:41 → 96

LRR_8; Leucine rich repeat