Alyref Aly/REF export factor [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Alyrefprovided by RGD
Official Full Name: Aly/REF export factorprovided by RGD
Primary source: RGD:1594679
See related: EnsemblRapid:ENSRNOG00000036687 AllianceGenome:RGD:1594679
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: Thoc4
Summary: Predicted to enable C5-methylcytidine-containing RNA reader activity; RNA folding chaperone; and nucleic acid binding activity. Predicted to be involved in mRNA export from nucleus. Predicted to be located in chromosome, telomeric region; cytoplasm; and nuclear speck. Predicted to be part of catalytic step 2 spliceosome; exon-exon junction complex; and transcription export complex. Predicted to be active in nucleus. Orthologous to human ALYREF (Aly/REF export factor). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 166.5), Spleen (RPKM 110.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q32.3

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (106369750..106373395, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (105871424..105875076, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (109768593..109774639, complement)

Chromosome 10 - NC_086028.1 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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Markers

Refbp2 (e-PCR), detects polymorphism
- UniSTS:479247

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables C5-methylcytidine-containing RNA reader activity	ISO Inferred from Sequence Orthology more info
enables RNA binding	ISO Inferred from Sequence Orthology more info
enables RNA folding chaperone	ISO Inferred from Sequence Orthology more info
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables molecular adaptor activity	ISO Inferred from Sequence Orthology more info
enables single-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in RNA export from nucleus	ISO Inferred from Sequence Orthology more info
involved_in RNA folding	IEA Inferred from Electronic Annotation more info
involved_in biological_process	ND No biological Data available more info
involved_in mRNA export from nucleus	IBA Inferred from Biological aspect of Ancestor more info
involved_in mRNA export from nucleus	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of catalytic step 2 spliceosome	ISO Inferred from Sequence Orthology more info
located_in chromosome, telomeric region	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
part_of exon-exon junction complex	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
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of transcription export complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: THO complex subunit 4

Names: THO complex 4

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_001394394.1 → NP_001381323.1 THO complex subunit 4

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

UniProtKB/TrEMBL

A6HLF7, M0RBB1

Related

ENSRNOP00000066841.3, ENSRNOT00000071823.4

Conserved Domains (1) summary

cd12680
Location:107 → 180

RRM_THOC4; RNA recognition motif (RRM) found in THO complex subunit 4 (THOC4) and similar proteins