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Syndig1 Gene Detail
Summary
  • Symbol
    Syndig1
  • Name
    synapse differentiation inducing 1
  • Synonyms
    SynDIG1, Tmem90b
  • Feature Type
    protein coding gene
  • IDs
    MGI:3702158
    NCBI Gene: 433485
  • Alliance
    genome feature page
  • Transcription Start Sites
    5 TSS
Location &
Maps
more
  • Sequence Map
    Chr2:149672703-149846312 bp, + strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 2, 73.80 cM
  • Mapping Data
    3 experiments
Strain
Comparison
more
  • SNPs within 2kb
    4888 from dbSNP Build 142
  • Strain Annotations
    19
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_3702158
 protein coding gene Chr2:149671131-149846312 (+)
129S1/SvImJ ENSMUSG00200029516
 protein coding gene Chr2:146783120-146958299 (+)
A/J ENSMUSG00195017007
 protein coding gene Chr2:146900460-147075656 (+)
AKR/J ENSMUSG00220040531
 protein coding gene Chr2:146493952-146669127 (+)
BALB/cJ ENSMUSG00180041889
 protein coding gene Chr2:146567237-146742413 (+)
C3H/HeJ ENSMUSG00175040385
 protein coding gene Chr2:147114283-147289460 (+)
C57BL/6NJ ENSMUSG00215015122
 protein coding gene Chr2:146638954-146814145 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0024421
 protein coding gene Chr2:141902861-142077410 (+)
CAST/EiJ ENSTCUG00005039658
 protein coding gene Chr2:145748559-145919527 (+)
CBA/J ENSMUSG00210043833
 protein coding gene Chr2:147033376-147208544 (+)
DBA/2J ENSMUSG00185044543
 protein coding gene Chr2:146673461-146848647 (+)
FVB/NJ ENSMUSG00205021112
 protein coding gene Chr2:145822355-145997541 (+)
JF1/MsJ ENSUMUG00000033088
 protein coding gene Chr2:146498827-146688007 (+)
LP/J ENSMUSG00230029005
 protein coding gene Chr2:148365545-148540712 (+)
NOD/ShiLtJ ENSMUSG00190027609
 protein coding gene Chr2:146787566-146976701 (+)
NZO/HlLtJ ENSMUSG00225003372
 protein coding gene Chr2:156361619-156536794 (+)
PWK/PhJ ENSLUMG00010039022
 protein coding gene Chr2:146488953-146683076 (+)
SPRET/EiJ ENSMSPG00010023323
 protein coding gene Chr2:149173976-149358370 (+)
WSB/EiJ ENSIUOG00005046150
 protein coding gene Chr2:146483454-146650337 (+)



Homology
more
  • Human Ortholog
    SYNDIG1, synapse differentiation inducing 1
  • Vertebrate Orthologs
    2
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    SYNDIG1, synapse differentiation inducing 1
  • Synonyms
    C20orf39, DSPC2, IFITMD5, TMEM90B
  • Links
    NCBI Gene ID: 79953
    UniProt: Q9H7V2

  • Chr Location
    20p11.21; chr20:24468025-24666616 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    9 phenotype references
  • All Mutations and Alleles
    9
  • Chemically induced (other)
    1
  • Endonuclease-mediated
    2
  • Gene trapped
    1
  • Radiation induced
    1
  • Targeted
    4
  • Genomic Mutations
    2 involving Syndig1
  • Incidental Mutations
    APF
  • Find Mice (IMSR)
    21 strains or lines available
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    50
  • GO References
    9
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    597
  • cDNA Data
    4
  • Literature Summary
    1
Sequences &
Gene Models
less
Representative SequencesLengthStrain/SpeciesFlank
genomic 433485 NCBI Gene Model | MGI Sequence Detail 173610 C57BL/6J ±  kb
transcript NM_001363094 RefSeq | MGI Sequence Detail 2200 C57BL/6  
polypeptide A2ANU3 UniProt | EBI | MGI Sequence Detail 258 Not Applicable  
For the selected sequence
Protein
Information
less
Molecular
Reagents
less
  • All nucleic 4
    cDNA 4

    Microarray probesets 3
Other
Accession IDs
less
MGI:2139314
References
more
  • Summaries
    All 39
    Developmental Gene Expression 1
    Gene Ontology 9
    Phenotypes 9
  • Earliest
    J:109968 Roderick TH, et al., Nineteen paracentric chromosomal inversions in mice. Genetics. 1974 Jan;76(1):109-17
  • Latest
    J:389864 Murata K, et al., A novel miniTurbo knock-in mouse reveals a protein interaction network of USP46 in the brain. Exp Anim. 2026 Jan 1;75(1):63-72
Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources
Funding Information
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Send questions and comments to User Support. 		last database update
09/01/2026
MGI 6.24 		The Jackson Laboratory