Lsm7 LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lsm7provided by RGD
Official Full Name: LSM7 homolog, U6 small nuclear RNA and mRNA degradation associatedprovided by RGD
Primary source: RGD:1305354
See related: Ensembl:ENSRNOG00000019552 AllianceGenome:RGD:1305354
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 contribute to RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in nucleus. Predicted to be part of several cellular components, including Lsm1-7-Pat1 complex; spliceosomal complex; and spliceosomal snRNP complex. Orthologous to human LSM7 (LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 136.8), Spleen (RPKM 122.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q11

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (9507373..9509787)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (8856698..8859113)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (11724932..11732020)

Chromosome 7 - NC_086025.1 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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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
contributes_to RNA 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	ISO Inferred from Sequence Orthology more info
involved_in nuclear-transcribed mRNA catabolic process	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of Lsm1-7-Pat1 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of Lsm2-8 complex	ISO Inferred from Sequence Orthology more info
part_of U12-type spliceosomal complex	IBA Inferred from Biological aspect of Ancestor 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 U4/U6 x U5 tri-snRNP complex	ISO Inferred from Sequence Orthology more info
part_of U6 snRNP	IBA Inferred from Biological aspect of Ancestor more info
part_of catalytic step 2 spliceosome	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of spliceosomal tri-snRNP complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: U6 snRNA-associated Sm-like protein LSm7

Names: LSM7 U6 small nuclear RNA and mRNA degradation associated; LSM7 homolog, U6 small nuclear RNA associated

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_001108732.2 → NP_001102202.1 U6 snRNA-associated Sm-like protein LSm7 isoform 1

See identical proteins and their annotated locations for NP_001102202.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/TrEMBL

A6K8E6, D4A2D8

Related

ENSRNOP00000026551.5, ENSRNOT00000026551.6

Conserved Domains (1) summary

cd01729
Location:9 → 97

LSm7; Like-Sm protein 7
NM_001401075.1 → NP_001388004.1 U6 snRNA-associated Sm-like protein LSm7 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/TrEMBL

D4A2D8
NM_001401076.1 → NP_001388005.1 U6 snRNA-associated Sm-like protein LSm7 isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/TrEMBL

D4A2D8

Conserved Domains (1) summary

cd01729
Location:17 → 103

LSm7; Like-Sm protein 7