Syndig1 synapse differentiation inducing 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Syndig1provided by MGI
Official Full Name: synapse differentiation inducing 1provided by MGI
Primary source: MGI:MGI:3702158
See related: Ensembl:ENSMUSG00000074736 AllianceGenome:MGI:3702158
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: DSPC2; Gm14134; Tmem90b; H2C20orf39
Summary: Enables glutamate receptor binding activity and protein homodimerization activity. Involved in intracellular protein transport and positive regulation of synapse assembly. Located in early endosome membrane; postsynaptic density membrane; and synaptic vesicle membrane. Orthologous to human SYNDIG1 (synapse differentiation inducing 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in cerebellum adult (RPKM 23.1), cortex adult (RPKM 10.0) and 11 other tissues See more
Orthologs: human all
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Genomic context

Location:: 2 G3; 2 73.8 cM

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	2	NC_000068.8 (149672703..149846312)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	2	NC_000068.7 (149830783..150004392)

Chromosome 2 - NC_000068.8 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?

Synapse differentiation-induced gene 1 regulates stress-induced depression through interaction with the AMPA receptor GluA2 subunit of nucleus accumbens in male mice.
Title: Synapse differentiation-induced gene 1 regulates stress-induced depression through interaction with the AMPA receptor GluA2 subunit of nucleus accumbens in male mice.
Mice with reduced SynDIG1 exhibit deficits in the structure and function of excitatory synapses. Mature synapses are still present, albeit at a significantly reduced number, suggesting that synapses can reach maturity without SynDIG1. However, the overall reduction in the number of mature synapses by multiple criteria suggests that SynDIG1 is important for normal development.
Title: Loss of SynDIG1 Reduces Excitatory Synapse Maturation But Not Formation In Vivo.
This study provides mechanistic insight into SynDIG1 structure and function to demonstrate that its stability and subcellular localization are regulated by activity-dependent palmitoylation
Title: Activity-Dependent Palmitoylation Controls SynDIG1 Stability, Localization, and Function.

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Variation

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Alleles

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

Endonuclease-mediated (2)
Gene trapped (1)
Targeted (3) 1 citation

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables glutamate receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in intracellular protein transport	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of synapse assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of synapse assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of postsynapse assembly	IEA Inferred from Electronic Annotation more info
involved_in synaptic vesicle clustering	IBA Inferred from Biological aspect of Ancestor more info
involved_in synaptic vesicle clustering	ISO Inferred from Sequence Orthology more info
involved_in synaptic vesicle clustering	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
NOT located_in Golgi membrane	IDA Inferred from Direct Assay more info	PubMed
located_in cell body	ISO Inferred from Sequence Orthology more info
located_in cell body	ISS Inferred from Sequence or Structural Similarity more info
located_in dendritic shaft	ISO Inferred from Sequence Orthology more info
located_in dendritic shaft	ISS Inferred from Sequence or Structural Similarity more info
located_in dendritic spine	ISO Inferred from Sequence Orthology more info
located_in dendritic spine	ISS Inferred from Sequence or Structural Similarity more info
located_in early endosome membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in excitatory synapse	IBA Inferred from Biological aspect of Ancestor more info
located_in excitatory synapse	ISO Inferred from Sequence Orthology more info
located_in excitatory synapse	ISS Inferred from Sequence or Structural Similarity more info
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in intracellular membrane-bounded organelle	IBA Inferred from Biological aspect of Ancestor more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in postsynaptic density	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic density membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in postsynaptic density membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in synaptic vesicle membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in synaptic vesicle membrane	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: synapse differentiation-inducing gene protein 1

Names: dispanin subfamily C member 2; transmembrane protein 90B

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_001085521.2 → NP_001078990.1 synapse differentiation-inducing gene protein 1 isoform 1

See identical proteins and their annotated locations for NP_001078990.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. All four variants encode the same protein.

Source sequence(s)

BB653505, BC147352, BQ176304, BY638665, CJ061528

Consensus CDS

CCDS38262.1

UniProtKB/Swiss-Prot

A2ANU3

Related

ENSMUSP00000105561.2, ENSMUST00000109935.8

Conserved Domains (1) summary

pfam04505
Location:177 → 242

CD225; Interferon-induced transmembrane protein
NM_001363094.2 → NP_001350023.1 synapse differentiation-inducing gene protein 1 isoform 1

Status: VALIDATED

Source sequence(s)

AL831742, AL845436, BX649512

Consensus CDS

CCDS38262.1

UniProtKB/Swiss-Prot

A2ANU3

Conserved Domains (1) summary

pfam04505
Location:177 → 242

CD225; Interferon-induced transmembrane protein
NM_001363095.1 → NP_001350024.1 synapse differentiation-inducing gene protein 1 isoform 1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. All four variants encode the same protein.

Source sequence(s)

AL831742, AL845436, BX649512

Consensus CDS

CCDS38262.1

UniProtKB/Swiss-Prot

A2ANU3

Conserved Domains (1) summary

pfam04505
Location:177 → 242

CD225; Interferon-induced transmembrane protein
NM_001363096.2 → NP_001350025.1 synapse differentiation-inducing gene protein 1 isoform 1

Status: VALIDATED

Source sequence(s)

AL831742, AL845436, BX649512

Consensus CDS

CCDS38262.1

UniProtKB/Swiss-Prot

A2ANU3

Conserved Domains (1) summary

pfam04505
Location:177 → 242

CD225; Interferon-induced transmembrane protein
NM_001409842.1 → NP_001396771.1 synapse differentiation-inducing gene protein 1 isoform 1

Status: VALIDATED

Source sequence(s)

AL831742, AL845436, BX649512, CR388226

UniProtKB/Swiss-Prot

A2ANU3
NM_001409844.1 → NP_001396773.1 synapse differentiation-inducing gene protein 1 isoform 1

Status: VALIDATED

Source sequence(s)

AL831742, AL845436, BX649512

UniProtKB/Swiss-Prot

A2ANU3
NM_001409845.1 → NP_001396774.1 synapse differentiation-inducing gene protein 1 isoform 1

Status: VALIDATED

Source sequence(s)

AL831742, AL845436, BX649512

UniProtKB/Swiss-Prot

A2ANU3
NM_001409846.1 → NP_001396775.1 synapse differentiation-inducing gene protein 1 isoform 2

Status: VALIDATED

Source sequence(s)

AL831742, AL845436, BX649512
NM_001409847.1 → NP_001396776.1 synapse differentiation-inducing gene protein 1 isoform 2

Status: VALIDATED

Source sequence(s)

AL831742, AL845436, BX649512