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Sycp2 Gene Detail
Summary
  • Symbol
    Sycp2
  • Name
    synaptonemal complex protein 2
  • Synonyms
    3830402K23Rik, 4930518F03Rik
  • Feature Type
    protein coding gene
  • IDs
    MGI:1933281
    NCBI Gene: 320558
  • Alliance
    genome feature page
  • Transcription Start Sites
    5 TSS
Location &
Maps
more
  • Sequence Map
    Chr2:177987086-178049478 bp, - strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 2, 99.81 cM, cytoband H4
  • Mapping Data
    4 experiments
Strain
Comparison
more
  • SNPs within 2kb
    1091 from dbSNP Build 142
  • Strain Annotations
    19
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1933281
 protein coding gene Chr2:177987086-178051580 (-)
129S1/SvImJ ENSMUSG00200002166
 protein coding gene Chr2:174011646-174074049 (-)
A/J ENSMUSG00195001037
 protein coding gene Chr2:174246189-174308581 (-)
AKR/J ENSMUSG00220033845
 protein coding gene Chr2:171925122-171987521 (-)
BALB/cJ ENSMUSG00180000241
 protein coding gene Chr2:172047609-172110001 (-)
C3H/HeJ ENSMUSG00175004182
 protein coding gene Chr2:173211813-173274207 (-)
C57BL/6NJ ENSMUSG00215020088
 protein coding gene Chr2:172146572-172208971 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0024766
 protein coding gene Chr2:167871298-167872196 (-)
CAST/EiJ ENSTCUG00005008234
 protein coding gene Chr2:171502450-171569745 (-)
CBA/J ENSMUSG00210000700
 protein coding gene Chr2:172525746-172588127 (-)
DBA/2J ENSMUSG00185019158
 protein coding gene Chr2:173771207-173833596 (-)
FVB/NJ ENSMUSG00205002208
 protein coding gene Chr2:172571786-172634179 (-)
JF1/MsJ ENSUMUG00000033811
 protein coding gene Chr2:174937349-175004650 (-)
LP/J ENSMUSG00230020271
 protein coding gene Chr2:175662759-175725158 (-)
NOD/ShiLtJ ENSMUSG00190015268
 protein coding gene Chr2:172066177-172128564 (-)
NZO/HlLtJ ENSMUSG00225006264
 protein coding gene Chr2:183750658-183813053 (-)
PWK/PhJ ENSLUMG00010037905
 protein coding gene Chr2:172362537-172430047 (-)
SPRET/EiJ ENSMSPG00010003388
 protein coding gene Chr2:174839409-174914876 (-)
WSB/EiJ ENSIUOG00005021913
 protein coding gene Chr2:172106685-172169078 (-)



Homology
more
  • Human Ortholog
    SYCP2, synaptonemal complex protein 2
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    SYCP2, synaptonemal complex protein 2
  • Synonyms
    SCP-2, SCP2, SPGF1
  • Links
    NCBI Gene ID: 10388
    UniProt: Q9BX26

  • Chr Location
    20q13.33; chr20:59863564-59933655 (-)  GRCh38
Human Diseases
more
  • Diseases
    1 with human SYCP2 associations

Human Disease Mouse Models
      
IDs
Click on a disease name to see all genes associated with that disease.

Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    14 phenotypes from 2 alleles in 2 genetic backgrounds
    3 images
    12 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Male mice homozygous for a knock-out allele are sterile due to lack of axial element formation and subsequent failure of chromosome synapsis in prophase I spermatocytes, while females are subfertile with a sharply reduced litter size.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    21
  • GO References
    11
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
    622
  • Tissues
    5
  • cDNA Data
    14
  • Literature Summary
    14
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000060445 Ensembl Gene Model | MGI Sequence Detail 62393 C57BL/6J ±  kb
    transcript ENSMUST00000081134 Ensembl | MGI Sequence Detail 5717 Not Applicable  
    polypeptide ENSMUSP00000079909 Ensembl | MGI Sequence Detail 1500 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    • UniProt
      3 Sequences
    • Protein Ontology
      PR:000015863 synaptonemal complex protein 2
      (term hierarchy)
    • PDB
      5IWZ
    • InterPro Domains
      IPR041322 Synaptonemal complex protein 2, armadillo-repeat-like domain
      IPR024835 Synaptonemal complex protein 2-like
      IPR040560 Synaptonemal complex protein 2, Spt16M-like domain
    Molecular
    Reagents
    less
    • All nucleic 15
      cDNA 14
      Primer pair 1
      Antibodies 2

      Microarray probesets 2
    Other
    Accession IDs
    less
    MGI:1917938, MGI:2444271
    References
    more
    • Summaries
      All 63
      Developmental Gene Expression 14
      Gene Ontology 11
      Phenotypes 12
    • Earliest
      J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
    • Latest
      J:366599 Wu Y, et al., S100PBP interacts with nucleoporin TPR and facilitates XY crossover formation in mice. EMBO Rep. 2025 May;26(9):2280-2299
    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
    09/08/2026
    MGI 6.24     		The Jackson Laboratory