Sec13 SEC13 homolog, nuclear pore and COPII coat complex component [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sec13provided by RGD
Official Full Name: SEC13 homolog, nuclear pore and COPII coat complex componentprovided by RGD
Primary source: RGD:1359555
See related: EnsemblRapid:ENSRNOG00000010628 AllianceGenome:RGD:1359555
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: Sec13l1
Summary: Predicted to enable identical protein binding activity and structural molecule activity. Acts upstream of or within endoplasmic reticulum to Golgi vesicle-mediated transport. Part of nuclear pore. Orthologous to human SEC13 (SEC13 homolog, nuclear pore and COPII coat complex component). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 390.3), Thymus (RPKM 320.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q42

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (148433344..148446735, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (146877739..146891130, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (145686186..145699577, complement)

Chromosome 4 - NC_086022.1 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 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

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables structural molecule activity	IBA Inferred from Biological aspect of Ancestor more info
enables structural molecule activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in COPII-coated vesicle budding	IBA Inferred from Biological aspect of Ancestor more info
involved_in COPII-coated vesicle cargo loading	ISO Inferred from Sequence Orthology more info
involved_in cellular response to nutrient levels	ISO Inferred from Sequence Orthology more info
involved_in cellular response to nutrient levels	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within endoplasmic reticulum to Golgi vesicle-mediated transport	IDA Inferred from Direct Assay more info	PubMed
involved_in mRNA transport	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of TOR signaling	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of TORC1 signaling	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of TORC1 signaling	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein exit from endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein exit from endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
involved_in protein exit from endoplasmic reticulum	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein import into nucleus	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein localization to plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of COPII vesicle coat	IBA Inferred from Biological aspect of Ancestor more info
part_of COPII vesicle coat	ISO Inferred from Sequence Orthology more info
part_of GATOR2 complex	ISO Inferred from Sequence Orthology more info
part_of GATOR2 complex	ISS Inferred from Sequence or Structural Similarity more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in kinetochore	ISO Inferred from Sequence Orthology more info
located_in lysosomal membrane	IEA Inferred from Electronic Annotation more info
located_in lysosomal membrane	ISO Inferred from Sequence Orthology more info
located_in lysosomal membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in nuclear envelope	ISO Inferred from Sequence Orthology more info
part_of nuclear pore	IDA Inferred from Direct Assay more info	PubMed
part_of nuclear pore	IEA Inferred from Electronic Annotation more info
part_of nuclear pore outer ring	IBA Inferred from Biological aspect of Ancestor more info
part_of nuclear pore outer ring	ISO Inferred from Sequence Orthology more info
part_of nuclear pore outer ring	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: protein SEC13 homolog

Names: GATOR complex protein SEC13; GATOR2 complex protein SEC13; SEC13 homolog, nuclear pore and COPII coating complex component; SEC13-like protein 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_001006978.1 → NP_001006979.1 protein SEC13 homolog

See identical proteins and their annotated locations for NP_001006979.1

Status: PROVISIONAL

Source sequence(s)

BC084705

UniProtKB/Swiss-Prot

Q5XFW8

UniProtKB/TrEMBL

A0A8I6ATA8, A6IBU1

Related

ENSRNOP00000014377.5, ENSRNOT00000014377.6

Conserved Domains (2) summary

sd00039
Location:61 → 101

7WD40; WD40 repeat [structural motif]

cl29593
Location:10 → 289

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 ...