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Scfd2 Sec1 family domain containing 2 [ Mus musculus (house mouse) ]

Gene ID: 212986, updated on 30-Apr-2024

Summary

Official Symbol
Scfd2provided by MGI
Official Full Name
Sec1 family domain containing 2provided by MGI
Primary source
MGI:MGI:2443446
See related
Ensembl:ENSMUSG00000062110 AllianceGenome:MGI:2443446
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
STXBP1L1; E430013M20Rik
Summary
Predicted to enable syntaxin binding activity. Predicted to be involved in intracellular protein transport and vesicle docking involved in exocytosis. Predicted to act upstream of or within protein transport. Predicted to be active in plasma membrane and secretory granule. Orthologous to human SCFD2 (sec1 family domain containing 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in adrenal adult (RPKM 2.3), genital fat pad adult (RPKM 2.1) and 28 other tissues See more
Orthologs
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Genomic context

See Scfd2 in Genome Data Viewer
Location:
5 C3.3; 5 39.44 cM
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (74365477..74692436, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (74204816..74531742, complement)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 32002 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:74596657-74596859 Neighboring gene RAS-like, family 11, member B Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:74656347-74656530 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:74656616-74656725 Neighboring gene STARR-seq mESC enhancer starr_13406 Neighboring gene predicted gene, 32064 Neighboring gene VISTA enhancer mm139 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:74762842-74763025 Neighboring gene STARR-seq mESC enhancer starr_13407 Neighboring gene STARR-positive B cell enhancer ABC_E2746 Neighboring gene STARR-positive B cell enhancer ABC_E6339 Neighboring gene factor interacting with PAPOLA and CPSF1 Neighboring gene ligand of numb-protein X 1 Neighboring gene predicted gene, 32304

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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

General gene information

Markers

Clone Names

  • 9330137G15

Gene Ontology Provided by MGI

Process Evidence Code Pubs
involved_in intracellular protein transport IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within protein transport IEA
Inferred from Electronic Annotation
more info
 
involved_in vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
sec1 family domain-containing protein 2
Names
neuronal Sec1
syntaxin-binding protein 1-like 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_001114660.2NP_001108132.1  sec1 family domain-containing protein 2 isoform a

    See identical proteins and their annotated locations for NP_001108132.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (a) encodes the longest isoform (a).
    Source sequence(s)
    AC115823, AI850693, AK140246
    Consensus CDS
    CCDS51519.1
    UniProtKB/Swiss-Prot
    Q3USN5, Q8BFV9, Q8BKU5, Q8BKZ0, Q8BTP6, Q8BTQ9, Q8BTY8, Q8BXI1, Q8BXS0, Q8BZ58
    UniProtKB/TrEMBL
    Q3UPD0
    Related
    ENSMUSP00000072636.7, ENSMUST00000072857.13
    Conserved Domains (1) summary
    cl15415
    Location:625665
    Sec1; Sec1 family
  2. NM_001286437.1NP_001273366.1  sec1 family domain-containing protein 2 isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (c) lacks an alternate in-frame exon in the 3' coding region, compared to variant a. It encodes isoform c, which is shorter than isoform a.
    Source sequence(s)
    AC115823, AI850693, AK135666, AK140246
    Consensus CDS
    CCDS71603.1
    UniProtKB/TrEMBL
    Q3UPD0
    Related
    ENSMUSP00000109170.3, ENSMUST00000113542.9
  3. NM_178672.7NP_848787.2  sec1 family domain-containing protein 2 isoform b

    See identical proteins and their annotated locations for NP_848787.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (b) lacks several exons and includes an alternate 3' terminal exon, compared to variant a. It encodes isoform b which is shorter and has a distinct C-terminus, compared to isoform a.
    Source sequence(s)
    AK034000, AK140246, AK163028
    Consensus CDS
    CCDS19345.1
    UniProtKB/TrEMBL
    Q3TR67
    Related
    ENSMUSP00000121098.2, ENSMUST00000151474.3

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_000071.7 Reference GRCm39 C57BL/6J

    Range
    74365477..74692436 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036164982.1XP_036020875.1  sec1 family domain-containing protein 2 isoform X1