Sidt2 SID1 transmembrane family, member 2 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Sidt2provided by MGI
Official Full Name: SID1 transmembrane family, member 2provided by MGI
Primary source: MGI:MGI:2446134
See related: Ensembl:ENSMUSG00000034908 AllianceGenome:MGI:2446134
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: CGI-40; B930096O19
Summary: Enables several functions, including AP-1 adaptor complex binding activity; AP-2 adaptor complex binding activity; and double-stranded RNA binding activity. Involved in RNA catabolic process and RNA transport. Acts upstream of or within several processes, including regulation of insulin secretion involved in cellular response to glucose stimulus; type B pancreatic cell development; and type B pancreatic cell proliferation. Located in lysosomal membrane and plasma membrane. Is expressed in several structures, including inner ear; submandibular gland primordium; and vibrissa. Used to study non-alcoholic fatty liver disease. Orthologous to human SIDT2 (SID1 transmembrane family member 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in adrenal adult (RPKM 124.6), ovary adult (RPKM 91.3) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 9 A5.2; 9 25.36 cM

Exon count:: 27

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	9	NC_000075.7 (45849155..45869299, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	9	NC_000075.6 (45937857..45958000, complement)

Chromosome 9 - NC_000075.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Sidt2 is a key protein in the autophagy-lysosomal degradation pathway and is essential for the maintenance of kidney structure and filtration function.
Title: Sidt2 is a key protein in the autophagy-lysosomal degradation pathway and is essential for the maintenance of kidney structure and filtration function.
Cytosolic domain of SIDT2 carries an arginine-rich motif that binds to RNA/DNA and is important for the direct transport of nucleic acids into lysosomes.
Title: Cytosolic domain of SIDT2 carries an arginine-rich motif that binds to RNA/DNA and is important for the direct transport of nucleic acids into lysosomes.
The lysosomal membrane protein Sidt2 is a vital regulator of mitochondrial quality control in skeletal muscle.
Title: The lysosomal membrane protein Sidt2 is a vital regulator of mitochondrial quality control in skeletal muscle.
The Effects of Sidt2 on the Inflammatory Pathway in Mouse Mesangial Cells.
Title: The Effects of Sidt2 on the Inflammatory Pathway in Mouse Mesangial Cells.
The Sidt2 plays an important role in mouse hepatic lipid homeostasis by regulating autophagy at the terminal stage.
Title: Sidt2 regulates hepatocellular lipid metabolism through autophagy.
This study provides new insight into lysosomal targeting of proteins and intracellular RNA degradation, and further confirms the critical function of SIDT2 in RNautophagy.
Title: Lysosomal targeting of SIDT2 via multiple YxxΦ motifs is required for SIDT2 function in the process of RNautophagy.
SIDT2 (SID1 transmembrane family, member 2), an ortholog of the Caenorhabditis elegans putative RNA transporter SID-1 (systemic RNA interference defective-1), mediates RNA translocation during RNautophagy
Title: Lysosomal membrane protein SIDT2 mediates the direct uptake of DNA by lysosomes.
We conclude that Sidt2 is involved in NAADP-mediated release of calcium from insulin secretory granules and thus regulates insulin secretion.
Title: SIDT2 is involved in the NAADP-mediated release of calcium from insulin secretory granules.
SIDT2, is required to transport internalized extracellular dsRNA from endocytic compartments into the cytoplasm for immune activation. Sidt2-deficient mice exposed to extracellular dsRNA, encephalomyocarditis virus (EMCV), and herpes simplex virus 1 (HSV-1) show impaired production of antiviral cytokines and-in the case of EMCV and HSV-1-reduced survival.
Title: SIDT2 Transports Extracellular dsRNA into the Cytoplasm for Innate Immune Recognition.
Sidt2 plays an important role in the pathogenesis of spontaneous nonalcoholic fatty liver disease.
Title: Spontaneous nonalcoholic fatty liver disease and ER stress in Sidt2 deficiency mice.

Submit: New GeneRIF Correction See all GeneRIFs (15)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (4) 1 citation
Endonuclease-mediated (3)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D9Mit287 (e-PCR), detects polymorphism
- UniSTS:131856

MHAa67e1.seq (e-PCR)
- UniSTS:125273

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables AP-1 adaptor complex binding	IDA Inferred from Direct Assay more info	PubMed
enables AP-2 adaptor complex binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables double-stranded RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables double-stranded RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables nucleic acid transmembrane transporter activity	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in RNA catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in RNA transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in RNA transport	IDA Inferred from Direct Assay more info	PubMed
involved_in RNA transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within glucose homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of insulin secretion involved in cellular response to glucose stimulus	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within response to glucose	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within type B pancreatic cell development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within type B pancreatic cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in lysosomal membrane	IDA Inferred from Direct Assay more info	PubMed
located_in lysosomal membrane	ISO Inferred from Sequence Orthology more info
is_active_in lysosome	IBA Inferred from Biological aspect of Ancestor more info
located_in lysosome	IDA Inferred from Direct Assay more info	PubMed
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: SID1 transmembrane family member 2

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_001289668.1 → NP_001276597.1 SID1 transmembrane family member 2 isoform 1 precursor

See identical proteins and their annotated locations for NP_001276597.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longest isoform (1).

Source sequence(s)

AC122273

Consensus CDS

CCDS72225.1

UniProtKB/Swiss-Prot

Q8CIF6

Related

ENSMUSP00000110220.3, ENSMUST00000114573.9

Conserved Domains (1) summary

pfam13965
Location:172 → 853

SID-1_RNA_chan; dsRNA-gated channel SID-1
NM_001359653.1 → NP_001346582.1 SID1 transmembrane family member 2 isoform 3 precursor

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks an exon and has an alternate exon in the coding region, compared to variant 1. The encoded isoform (3) is shorter, compared to isoform 1.

Source sequence(s)

AC122273

Conserved Domains (1) summary

pfam13965
Location:170 → 836

SID-1_RNA_chan; dsRNA-gated channel SID-1
NM_172257.4 → NP_758461.1 SID1 transmembrane family member 2 isoform 2 precursor

See identical proteins and their annotated locations for NP_758461.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an exon in the coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1.

Source sequence(s)

AC122273, BQ179223, BQ749207, CA315096, CB247121, CF950439, CK639655

Consensus CDS

CCDS23138.1

UniProtKB/Swiss-Prot

Q80XD7, Q8CIF6, Q922R2

UniProtKB/TrEMBL

Q3U1L8

Related

ENSMUSP00000044290.10, ENSMUST00000038488.17

Conserved Domains (1) summary

pfam13965
Location:172 → 832

SID-1_RNA_chan; dsRNA-gated channel SID-1

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000075.7 Reference GRCm39 C57BL/6J

Range

45849155..45869299 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006510144.4 → XP_006510207.1 SID1 transmembrane family member 2 isoform X4

Conserved Domains (1) summary

pfam13965
Location:170 → 857

SID-1_RNA_chan; dsRNA-gated channel SID-1
XM_006510145.5 → XP_006510208.1 SID1 transmembrane family member 2 isoform X5

Conserved Domains (1) summary

pfam13965
Location:170 → 855

SID-1_RNA_chan; dsRNA-gated channel SID-1
XM_006510143.5 → XP_006510206.1 SID1 transmembrane family member 2 isoform X3

Conserved Domains (1) summary

pfam13965
Location:170 → 876

SID-1_RNA_chan; dsRNA-gated channel SID-1
XM_006510142.4 → XP_006510205.1 SID1 transmembrane family member 2 isoform X2

Conserved Domains (1) summary

pfam13965
Location:170 → 901

SID-1_RNA_chan; dsRNA-gated channel SID-1
XM_006510141.3 → XP_006510204.1 SID1 transmembrane family member 2 isoform X1

Conserved Domains (1) summary

pfam13965
Location:170 → 922

SID-1_RNA_chan; dsRNA-gated channel SID-1