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Aliases for SECTM1 Gene

Aliases for SECTM1 Gene

  • Secreted And Transmembrane 1 2 3
  • K12 3 4 6
  • Type 1a Transmembrane Protein 2 3
  • Secreted And Transmembrane Protein 1 3
  • Protein K-12 4
  • K12 Protein 2

External Ids for SECTM1 Gene

Summaries for SECTM1 Gene

Entrez Gene Summary for SECTM1 Gene

  • This gene encodes a transmembrane and secreted protein with characteristics of a type 1a transmembrane protein. It is found in a perinuclear Golgi-like pattern and thought to be involved in hematopoietic and/or immune system processes. [provided by RefSeq, Jul 2008]

GeneCards Summary for SECTM1 Gene

SECTM1 (Secreted And Transmembrane 1) is a Protein Coding gene. Diseases associated with SECTM1 include amblyopia. Among its related pathways are TNF Signaling. GO annotations related to this gene include signal transducer activity and cytokine activity.

UniProtKB/Swiss-Prot for SECTM1 Gene

  • May be involved in thymocyte signaling.

Gene Wiki entry for SECTM1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SECTM1 Gene

Genomics for SECTM1 Gene

Genomic Location for SECTM1 Gene

Start:
82,321,024 bp from pter
End:
82,334,074 bp from pter
Size:
13,051 bases
Orientation:
Minus strand

Genomic View for SECTM1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SECTM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SECTM1 Gene

Regulatory Elements for SECTM1 Gene

Proteins for SECTM1 Gene

  • Protein details for SECTM1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8WVN6-SCTM1_HUMAN
    Recommended name:
    Secreted and transmembrane protein 1
    Protein Accession:
    Q8WVN6
    Secondary Accessions:
    • B2R7H0
    • O00466

    Protein attributes for SECTM1 Gene

    Size:
    248 amino acids
    Molecular mass:
    27039 Da
    Quaternary structure:
    • Interacts with CD7.

neXtProt entry for SECTM1 Gene

Proteomics data for SECTM1 Gene at MOPED

Post-translational modifications for SECTM1 Gene

No data available for DME Specific Peptides for SECTM1 Gene

Domains for SECTM1 Gene

Protein Domains for SECTM1 Gene

ProtoNet:

UniProtKB/Swiss-Prot:

SCTM1_HUMAN
Family:
  • Belongs to the SECTM family.:
    • Q8WVN6
genes like me logo Genes that share domains with SECTM1: view

No data available for Gene Families for SECTM1 Gene

Function for SECTM1 Gene

Molecular function for SECTM1 Gene

GENATLAS Biochemistry: Golgi-associated protein,expressed in breast cancer cell lines and peripheral blood leucocyte,upstream of CD7
UniProtKB/Swiss-Prot Function: May be involved in thymocyte signaling.
UniProtKB/Swiss-Prot Induction: By IFNG/IFN-gamma (at protein level).

Gene Ontology (GO) - Molecular Function for SECTM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004871 signal transducer activity IMP 12761501
GO:0005125 cytokine activity TAS 9480746
genes like me logo Genes that share ontologies with SECTM1: view

miRNA for SECTM1 Gene

miRTarBase miRNAs that target SECTM1

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for SECTM1 Gene

Localization for SECTM1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SECTM1 Gene

Cell membrane; Single-pass type I membrane protein. Secreted.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SECTM1 Gene COMPARTMENTS Subcellular localization image for SECTM1 gene
Compartment Confidence
extracellular 5
plasma membrane 5
golgi apparatus 4

Gene Ontology (GO) - Cellular Components for SECTM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space TAS 9480746
GO:0005794 Golgi apparatus TAS 9480746
GO:0005886 plasma membrane IEA --
GO:0016021 integral component of membrane IDA 9480746
GO:0070062 extracellular exosome IDA 19056867
genes like me logo Genes that share ontologies with SECTM1: view

Pathways for SECTM1 Gene

SuperPathways for SECTM1 Gene

Superpath Contained pathways
1 TNF Signaling
genes like me logo Genes that share pathways with SECTM1: view

Pathways by source for SECTM1 Gene

1 Sino Biological pathway for SECTM1 Gene

Interacting Proteins for SECTM1 Gene

STRING Interaction Network Preview (showing 2 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000269389%0d%0a9606.ENSP00000344818%0d%0a9606.ENSP00000312027%0d%0a
Selected Interacting proteins: ENSP00000269389 Q8WVN6-SCTM1_HUMAN for SECTM1 Gene via STRING I2D

Gene Ontology (GO) - Biological Process for SECTM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006955 immune response TAS 9480746
GO:0007165 signal transduction IMP 12761501
GO:0007498 mesoderm development TAS 9480746
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling IMP 12761501
genes like me logo Genes that share ontologies with SECTM1: view

Transcripts for SECTM1 Gene

Unigene Clusters for SECTM1 Gene

Secreted and transmembrane 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SECTM1 Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b ^ 10a · 10b · 10c
SP1: - - -
SP2: - - - - - -
SP3: -
SP4: - -
SP5: - - - -
SP6: - - - - -
SP7: - - -
SP8: -
SP9:
SP10: - - -
SP11: - -

Relevant External Links for SECTM1 Gene

GeneLoc Exon Structure for
SECTM1
ECgene alternative splicing isoforms for
SECTM1

Expression for SECTM1 Gene

mRNA expression in normal human tissues for SECTM1 Gene

mRNA differential expression in normal tissues according to GTEx for SECTM1 Gene

This gene is overexpressed in Whole Blood (26.2).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for SECTM1 Gene

SOURCE GeneReport for Unigene cluster for SECTM1 Gene Hs.558009

mRNA Expression by UniProt/SwissProt for SECTM1 Gene

Q8WVN6-SCTM1_HUMAN
Tissue specificity: Detected at the highest levels in peripheral blood leukocytes and breast cancer cell lines. Found in leukocytes of the myeloid lineage, with the strongest expression observed in granulocytes and no detectable expression in lymphocytes. Expressed in thymic epithelial cells and fibroblasts.
genes like me logo Genes that share expressions with SECTM1: view

Orthologs for SECTM1 Gene

This gene was present in the common ancestor of mammals.

Orthologs for SECTM1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SECTM1 36
  • 93.02 (n)
  • 91.22 (a)
SECTM1 37
  • 97 (a)
OneToOne
cow
(Bos Taurus)
Mammalia -- 37
  • 30 (a)
OneToMany
-- 37
  • 36 (a)
OneToMany
-- 37
  • 37 (a)
OneToMany
SECTM1 37
  • 31 (a)
OneToMany
SECTM1 37
  • 37 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Sectm1a 36
  • 65.13 (n)
  • 47.98 (a)
Sectm1a 16
Sectm1a 37
  • 39 (a)
OneToMany
Sectm1b 37
  • 34 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Sectm1 36
  • 71.15 (n)
  • 55.46 (a)
Species with no ortholog for SECTM1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for SECTM1 Gene

ENSEMBL:
Gene Tree for SECTM1 (if available)
TreeFam:
Gene Tree for SECTM1 (if available)

Paralogs for SECTM1 Gene

No data available for Paralogs for SECTM1 Gene

Variants for SECTM1 Gene

Sequence variations from dbSNP and Humsavar for SECTM1 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type MAF
rs1132114 -- 82,321,552(-) GACGC(C/T)GCCCT utr-variant-3-prime
rs1132115 -- 82,321,536(-) GCTGG(A/T)CGCGC utr-variant-3-prime
rs4452007 -- 82,325,194(-) GAAAT(A/G)TACAG intron-variant
rs4789684 -- 82,323,596(+) GCCCC(A/G)CACGG intron-variant
rs4789685 -- 82,323,887(+) GACAG(A/G)GAAGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SECTM1 Gene

Variant ID Type Subtype PubMed ID
nsv909052 CNV Loss 21882294
nsv428351 CNV Gain 18775914
dgv3332n71 CNV Loss 21882294
nsv909134 CNV Loss 21882294
esv21913 CNV Gain+Loss 19812545
dgv3341n71 CNV Loss 21882294
dgv3353n71 CNV Loss 21882294
dgv3354n71 CNV Loss 21882294
nsv833572 CNV Loss 17160897
dgv3355n71 CNV Loss 21882294
nsv909208 CNV Loss 21882294
nsv469561 CNV Complex 16826518
dgv3356n71 CNV Loss 21882294
nsv909217 CNV Loss 21882294
nsv833573 CNV Loss 17160897
dgv3357n71 CNV Loss 21882294
nsv909220 CNV Loss 21882294
dgv3358n71 CNV Loss 21882294
nsv909223 CNV Loss 21882294
esv1009380 CNV Insertion 20482838

Relevant External Links for SECTM1 Gene

HapMap Linkage Disequilibrium report
SECTM1

Disorders for SECTM1 Gene

(1) MalaCards Diseases for SECTM1 Gene

Search for SECTM1 Gene in MalaCards »

(2) University of Copenhagen DISEASES for SECTM1 Gene

Relevant External Links for SECTM1

Genetic Association Database (GAD)
SECTM1
Human Genome Epidemiology (HuGE) Navigator
SECTM1
genes like me logo Genes that share disorders with SECTM1: view

No data available for UniProtKB/Swiss-Prot for SECTM1 Gene

Publications for SECTM1 Gene

  1. Identification and characterization of K12 (SECTM1), a novel human gene that encodes a Golgi-associated protein with transmembrane and secreted isoforms. (PMID: 9480746) Slentz-Kesler K.A. … Kaufman R.E. (Genomics 1998) 2 3 4 23
  2. Identification of CD7 as a cognate of the human K12 (SECTM1) protein. (PMID: 10652336) Lyman S.D. … Fanslow W.C. (J. Biol. Chem. 2000) 3 4 23
  3. Expression of the CD7 ligand K-12 in human thymic epithelial cells: regulation by IFN-gamma. (PMID: 15742156) Lam G.K. … Haynes B.F. (J. Clin. Immunol. 2005) 4 23
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  5. Risk of meningioma and common variation in genes related to innate immunity. (PMID: 20406964) Rajaraman P. … Inskip P.D. (Cancer Epidemiol. Biomarkers Prev. 2010) 3 49

Products for SECTM1 Gene

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat
  • Pathway & Disease-focused RT² Profiler PCR Arrays
    • Inflammatory Response & Autoimmunity 384HT in human,mouse,rat
  • QIAGEN qRT-PCR Assays for microRNAs that regulate SECTM1
    • QuantiTect SYBR Green Assays in human,mouse,rat
    • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
    • QuantiFast Probe-based Assays in human,mouse,rat
    • Predesigned siRNA for gene silencing in human,mouse,rat for SECTM1
    • Block miRNA regulation of SECTM1 using miScript Target Protectors

    Sources for SECTM1 Gene

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