Smu1 SMU1, DNA replication regulator and spliceosomal factor [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Smu1provided by RGD
Official Full Name: SMU1, DNA replication regulator and spliceosomal factorprovided by RGD
Primary source: RGD:620694
See related: EnsemblRapid:ENSRNOG00000007671 AllianceGenome:RGD:620694
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
Also known as: Bwd; Smu-1
Summary: Predicted to be involved in mRNA splicing, via spliceosome and regulation of alternative mRNA splicing, via spliceosome. Predicted to be located in nuclear speck. Predicted to be part of U2-type precatalytic spliceosome. Orthologous to human SMU1 (SMU1 DNA replication regulator and spliceosomal factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 366.4), Thymus (RPKM 350.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q22

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (60652680..60671251, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (55856691..55875262, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (57042301..57061379, complement)

Chromosome 5 - NC_086023.1 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 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

RH130392 (e-PCR)
- UniSTS:213676

AW556129 (e-PCR)
- UniSTS:185577

Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
involved_in RNA splicing	IBA Inferred from Biological aspect of Ancestor more info
involved_in mRNA splicing, via spliceosome	IEA Inferred from Electronic Annotation more info
involved_in mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
involved_in mRNA splicing, via spliceosome	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of alternative mRNA splicing, via spliceosome	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of U2-type precatalytic spliceosome	IEA Inferred from Electronic Annotation more info
part_of U2-type precatalytic spliceosome	ISO Inferred from Sequence Orthology more info
part_of U2-type precatalytic spliceosome	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in nuclear speck	IEA Inferred from Electronic Annotation more info
located_in nuclear speck	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
part_of precatalytic spliceosome	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: WD40 repeat-containing protein SMU1

Names: DNA replication regulator and spliceosomal factor; brain-enriched WD repeat-containing protein; brain-enriched WD-repeat protein; homolog of C. elegans smu-1; smu-1 suppressor of mec-8 and unc-52 homolog; smu-1 suppressor of mec-8 and unc-52 protein homolog; suppressor of Mec and Unc defects 1 homolog

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_057195.1 → NP_476543.1 WD40 repeat-containing protein SMU1

See identical proteins and their annotated locations for NP_476543.1

Status: PROVISIONAL

Source sequence(s)

AY029526

UniProtKB/Swiss-Prot

Q99M63

UniProtKB/TrEMBL

A0A8I5YCN7

Related

ENSRNOP00000094346.2, ENSRNOT00000105273.2

Conserved Domains (5) summary

smart00667
Location:5 → 38

LisH; Lissencephaly type-1-like homology motif

smart00668
Location:40 → 90

CTLH; C-terminal to LisH motif

COG2319
Location:212 → 513

WD40; WD40 repeat [General function prediction only]

cd00200
Location:205 → 512

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:219 → 262

7WD40; WD40 repeat [structural motif]