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    Sycp2 synaptonemal complex protein 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 83820, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Sycp2provided by RGD
    Official Full Name
    synaptonemal complex protein 2provided by RGD
    Primary source
    RGD:69429
    See related
    EnsemblRapid:ENSRNOG00000061690 AllianceGenome:RGD:69429
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable DNA binding activity. Predicted to be involved in cell division. Predicted to act upstream of or within several processes, including male genitalia morphogenesis; meiotic nuclear division; and negative regulation of apoptotic process. Located in lateral element. Human ortholog(s) of this gene implicated in spermatogenic failure 1. Orthologous to human SYCP2 (synaptonemal complex protein 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 180.0) and Heart (RPKM 10.3) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sycp2 in Genome Data Viewer
    Location:
    3q43
    Exon count:
    45
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (185814033..185876516, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (165431715..165502134, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (173884559..173948304, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein L7a, pseudogene 1 Neighboring gene phosphatase and actin regulator 3 Neighboring gene 60S ribosomal protein L19-like Neighboring gene aldo-keto reductase family 1, member B1 (aldose reductase), pseudogene 3 Neighboring gene protein phosphatase 1, regulatory subunit 3D Neighboring gene family with sequence similarity 217, member B

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Protein SYCP2 provides a link between transverse filaments and lateral elements of mammalian synaptonemal complexes. Winkel K, et al. Chromosoma, 2009 Apr. PMID 19034475
    2. Localization of SCP2 and SCP3 protein molecules within synaptonemal complexes of the rat. Schalk JA, et al. Chromosoma, 1998 Dec. PMID 9933407
    3. SCP2: a major protein component of the axial elements of synaptonemal complexes of the rat. Offenberg HH, et al. Nucleic Acids Res, 1998 Jun 1. PMID 9592139, Free PMC Article
    4. Isolation and characterization of the human SCP2 cDNA and chromosomal localization of the gene. Schalk JA, et al. Mamm Genome, 1999 Jun. PMID 10341103
    5. Mouse SYCP2 is required for synaptonemal complex assembly and chromosomal synapsis during male meiosis. Yang F, et al. J Cell Biol, 2006 May 22. PMID 16717126, Free PMC Article

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Using the yeast two-hybrid system, the C-terminus of SYCP1 directly interacts with SYCP2.
      Title: Protein SYCP2 provides a link between transverse filaments and lateral elements of mammalian synaptonemal complexes.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within animal organ morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ectopic germ cell programmed cell death IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of ectopic germ cell programmed cell death ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in female meiotic nuclear division IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within female meiotic nuclear division ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in fertilization IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within fertilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in male genitalia morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within male genitalia morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in male meiotic nuclear division IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within male meiotic nuclear division ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within negative regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of developmental process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within negative regulation of developmental process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of reproductive process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within negative regulation of reproductive process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in condensed chromosome, centromeric region IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in lateral element IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in lateral element IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in lateral element IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in lateral element ISO
    Inferred from Sequence Orthology
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    synaptonemal complex protein 2
    Names
    SCP-2
    rnSCP2
    synaptonemal complex lateral element protein

    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_130735.1 → NP_570091.1  synaptonemal complex protein 2

      See identical proteins and their annotated locations for NP_570091.1

      Status: PROVISIONAL

      Source sequence(s)
      Y08981
      UniProtKB/Swiss-Prot
      O70608
      UniProtKB/TrEMBL
      A0A8L2R2I5
      Related
      ENSRNOP00000075596.3, ENSRNOT00000079019.3
      Conserved Domains (2) summary
      pfam18581
      Location:10 → 184
      SYCP2_ARLD; Synaptonemal complex 2 armadillo-repeat-like domain
      pfam18584
      Location:278 → 389
      SYCP2_SLD; Synaptonemal complex 2 Spt16M-like domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086021.1 Reference GRCr8

      Range
      185814033..185876516 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063284681.1 → XP_063140751.1  synaptonemal complex protein 2 isoform X2

      UniProtKB/TrEMBL
      A0A8L2R2I5

    2. XM_063284684.1 → XP_063140754.1  synaptonemal complex protein 2 isoform X3

      UniProtKB/TrEMBL
      A0A8L2R2I5
      Related
      ENSRNOP00000107503.1, ENSRNOT00000153265.1

    3. XM_063284678.1 → XP_063140748.1  synaptonemal complex protein 2 isoform X1

      UniProtKB/Swiss-Prot
      O70608
      UniProtKB/TrEMBL
      A0A8L2R2I5

    4. XM_063284679.1 → XP_063140749.1  synaptonemal complex protein 2 isoform X1

      UniProtKB/Swiss-Prot
      O70608
      UniProtKB/TrEMBL
      A0A8L2R2I5

    5. XM_063284682.1 → XP_063140752.1  synaptonemal complex protein 2 isoform X2

      UniProtKB/TrEMBL
      A0A8L2R2I5

    6. XM_063284680.1 → XP_063140750.1  synaptonemal complex protein 2 isoform X1

      UniProtKB/Swiss-Prot
      O70608
      UniProtKB/TrEMBL
      A0A8L2R2I5

    7. XM_063284683.1 → XP_063140753.1  synaptonemal complex protein 2 isoform X2

      UniProtKB/TrEMBL
      A0A8L2R2I5

    8. XM_039105970.2 → XP_038961898.1  synaptonemal complex protein 2 isoform X4

      UniProtKB/TrEMBL
      A0A8L2RBT5
      Conserved Domains (1) summary
      pfam18584
      Location:53 → 164
      SYCP2_SLD; Synaptonemal complex 2 Spt16M-like domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O70608.1 GenPept UniProtKB/Swiss-Prot:O70608

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