Sdf2l1 stromal cell-derived factor 2-like 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sdf2l1provided by RGD
Official Full Name: stromal cell-derived factor 2-like 1provided by RGD
Primary source: RGD:1585844
See related: EnsemblRapid:ENSRNOG00000001859 AllianceGenome:RGD:1585844
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
Summary: Enables ATPase binding activity; chaperone binding activity; and misfolded protein binding activity. Acts upstream of or within ER-associated misfolded protein catabolic process and regulation of apoptotic process. Located in endoplasmic reticulum and membrane. Used to study type 2 diabetes mellitus. Orthologous to human SDF2L1 (stromal cell derived factor 2 like 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Testes (RPKM 129.2), Spleen (RPKM 120.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 11q23

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	11	NC_086029.1 (97376878..97379120)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	11	NC_051346.1 (83872659..83874902)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	11	NC_005110.4 (88122271..88124513)

Chromosome 11 - NC_086029.1 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?

SDF2L1 increases the time that misfolded proteins have to achieve a correctly folded conformation and thus that SDF2L1 can act as a buffer for substrate availability for ERAD in pancreatic beta-cells.
Title: SDF2L1 interacts with the ER-associated degradation machinery and retards the degradation of mutant proinsulin in pancreatic β-cells.

Submit: New GeneRIF Correction

General gene information

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Markers

RH129696 (e-PCR)
- UniSTS:212992

BI287777 (e-PCR)
- UniSTS:245871

RH129561 (e-PCR)
- UniSTS:212863

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATPase binding	IDA Inferred from Direct Assay more info	PubMed
enables misfolded protein binding	IDA Inferred from Direct Assay more info	PubMed
enables misfolded protein binding	ISO Inferred from Sequence Orthology more info
enables protein-folding chaperone binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within ERAD pathway	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cellular response to misfolded protein	IDA Inferred from Direct Assay more info	PubMed
involved_in chaperone cofactor-dependent protein refolding	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within response to endoplasmic reticulum stress	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in endoplasmic reticulum	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
part_of endoplasmic reticulum chaperone complex	ISO Inferred from Sequence Orthology more info
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
part_of protein folding chaperone complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: stromal cell-derived factor 2-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_001109433.1 → NP_001102903.1 stromal cell-derived factor 2-like protein 1 precursor

See identical proteins and their annotated locations for NP_001102903.1

Status: PROVISIONAL

Source sequence(s)

CH473999

UniProtKB/TrEMBL

A6JSN0, D4A9Y0

Related

ENSRNOP00000002540.4, ENSRNOT00000002540.7

Conserved Domains (1) summary

COG1928
Location:52 → 199

PMT1; Dolichyl-phosphate-mannose--protein O-mannosyl transferase [Posttranslational modification, protein turnover, chaperones]