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Sycp1 synaptonemal complex protein 1 [ Mus musculus (house mouse) ]

Gene ID: 20957, updated on 8-Feb-2024

Summary

Official Symbol
Sycp1provided by MGI
Official Full Name
synaptonemal complex protein 1provided by MGI
Primary source
MGI:MGI:105931
See related
Ensembl:ENSMUSG00000027855 AllianceGenome:MGI:105931
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
SCP1
Summary
Predicted to enable double-stranded DNA binding activity. Involved in reciprocal meiotic recombination and synaptonemal complex assembly. Acts upstream of or within meiosis I cell cycle process; regulation of protein localization; and sperm chromatin condensation. Located in central element; male germ cell nucleus; and transverse filament. Is expressed in brain and reproductive system. Orthologous to human SYCP1 (synaptonemal complex protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in testis adult (RPKM 3.6), cerebellum adult (RPKM 0.7) and 1 other tissue See more
Orthologs
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Genomic context

See Sycp1 in Genome Data Viewer
Location:
3 F2.2; 3 45.25 cM
Exon count:
34
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (102725815..102843416, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (102818499..102936100, complement)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene tetraspanin 2, opposite strand Neighboring gene tetraspanin 2 Neighboring gene STARR-seq mESC enhancer starr_08579 Neighboring gene STARR-positive B cell enhancer mm9_chr3:102608013-102608314 Neighboring gene thyroid stimulating hormone, beta subunit Neighboring gene STARR-seq mESC enhancer starr_08580 Neighboring gene predicted gene, 33866 Neighboring gene STARR-positive B cell enhancer ABC_E11206 Neighboring gene nuclear receptor subfamily 1, group H, member 5 Neighboring gene predicted gene, 22826 Neighboring gene STARR-positive B cell enhancer ABC_E4568 Neighboring gene suppressor of IKBKE 1

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables double-stranded DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within cell cycle IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within cell division IEA
Inferred from Electronic Annotation
more info
 
involved_in chiasma assembly IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within chiasma assembly IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in homologous chromosome pairing at meiosis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in lateral element assembly IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within lateral element assembly IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in meiotic DNA repair synthesis IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within meiotic DNA repair synthesis IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within meiotic DNA repair synthesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within meiotic cell cycle IEA
Inferred from Electronic Annotation
more info
 
involved_in protein homotetramerization ISO
Inferred from Sequence Orthology
more info
 
involved_in reciprocal meiotic recombination IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of protein localization IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within sperm DNA condensation IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within spermatogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in synaptonemal complex assembly IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within synaptonemal complex assembly IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within synaptonemal complex assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in synaptonemal complex assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in autosome IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in central element IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in central element IDA
Inferred from Direct Assay
more info
PubMed 
located_in chromosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in chromosome, centromeric region IEA
Inferred from Electronic Annotation
more info
 
located_in condensed nuclear chromosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in lateral element TAS
Traceable Author Statement
more info
PubMed 
is_active_in male germ cell nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in male germ cell nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
located_in synaptonemal complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in synaptonemal complex IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in synaptonemal complex ISO
Inferred from Sequence Orthology
more info
 
located_in synaptonemal complex ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
is_active_in transverse filament IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in transverse filament IDA
Inferred from Direct Assay
more info
PubMed 
located_in transverse filament ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
synaptonemal complex protein 1
Names
SCP-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)

  1. NM_011516.2NP_035646.2  synaptonemal complex protein 1

    See identical proteins and their annotated locations for NP_035646.2

    Status: VALIDATED

    Source sequence(s)
    AK015000, AK076780, AK133229, AV275615
    Consensus CDS
    CCDS38567.1
    UniProtKB/Swiss-Prot
    B2RQK2, E9QP17, O09205, P70192, Q62209, Q62329
    Related
    ENSMUSP00000029448.7, ENSMUST00000029448.11
    Conserved Domains (1) summary
    pfam05483
    Location:28805
    SCP-1; Synaptonemal complex protein 1 (SCP-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

  1. NC_000069.7 Reference GRCm39 C57BL/6J

    Range
    102725815..102843416 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006501229.1XP_006501292.1  synaptonemal complex protein 1 isoform X1

    Conserved Domains (1) summary
    pfam05483
    Location:1588
    SCP-1; Synaptonemal complex protein 1 (SCP-1)