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Aliases for SECTM1 Gene

Aliases for SECTM1 Gene

  • Secreted And Transmembrane 1 2 3 5
  • Type 1a Transmembrane Protein 2 3
  • K12 3 4
  • Secreted And Transmembrane Protein 1 3
  • Protein K-12 4
  • K12 Protein 2

External Ids for SECTM1 Gene

Previous GeneCards Identifiers for SECTM1 Gene

  • GC17P079165
  • GC17M083193
  • GC17M080808
  • GC17M080957
  • GC17M077872
  • GC17M080278
  • GC17M075677

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 Ulceroglandular Tularemia. Gene Ontology (GO) annotations related to this gene include obsolete signal transducer activity and cytokine activity.

UniProtKB/Swiss-Prot for SECTM1 Gene

  • May be involved in thymocyte signaling.

Gene Wiki entry for SECTM1 Gene

Additional gene information for SECTM1 Gene

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

Genomics for SECTM1 Gene

GeneHancer (GH) Regulatory Elements for SECTM1 Gene

Promoters and enhancers for SECTM1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17J082332 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 702.1 +0.2 151 3.7 HDGF PKNOX1 FOXA2 ARNT SIN3A YY1 POLR2B ZNF263 SP3 REST SECTM1 CSNK1D TBCD TEX19 ENSG00000265678 HGS CCDC57 FAAP100 NARF-IT1 ENSG00000263321
GH17J082492 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 26.9 -161.4 -161419 6 CLOCK ZFP64 FEZF1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF416 ZNF143 FOXK2 TRX-CAT1-8 PIR58219 GC17M082510 TBCD ENSG00000260563 ARL2BPP9 GPS1 NARF-IT1 HGS
GH17J082291 Promoter/Enhancer 2.4 FANTOM5 Ensembl ENCODE dbSUPER 16.4 +35.4 35441 14.7 CLOCK MLX ZFP64 FEZF1 DMAP1 YBX1 IRF4 YY1 SLC30A9 ZNF213 CSNK1D ENSG00000260563 NARF-IT1 HGS ENSG00000262652 ARL2BPP9 ALYREF FAAP100 TEX19 DUS1L
GH17J082204 Enhancer 1.8 FANTOM5 Ensembl ENCODE dbSUPER 13.2 +128.2 128157 3.6 HDGF PKNOX1 SMAD1 MLX ARID4B SIN3A DMAP1 SLC30A9 POLR2B ZNF207 CCDC57 SLC16A3 SECTM1 CSNK1D NARF CYBC1 SIRT7 MAFG GC17M082163
GH17J082417 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 11.4 -85.0 -85045 2.7 ARNT ARID4B SIN3A YY1 ZNF207 ZNF143 KLF13 SP3 CEBPZ SP5 HEXDC OGFOD3 ENSG00000201239 ALYREF NPLOC4 LOC105371942 CYBC1 FOXK2 TEX19 UTS2R
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SECTM1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SECTM1 gene promoter:
  • MEF-2A
  • aMEF-2
  • RSRFC4
  • GCNF
  • GCNF-1
  • GCNF-2
  • IRF-7A
  • IRF-2
  • HNF-4alpha2
  • HNF-4alpha1

Genomic Locations for SECTM1 Gene

Genomic Locations for SECTM1 Gene
chr17:82,321,024-82,334,074
(GRCh38/hg38)
Size:
13,051 bases
Orientation:
Minus strand
chr17:80,278,900-80,291,950
(GRCh37/hg19)
Size:
13,051 bases
Orientation:
Minus strand

Genomic View for SECTM1 Gene

Genes around SECTM1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SECTM1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SECTM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence 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

Post-translational modifications for SECTM1 Gene

  • Glycosylation at posLast=5656
  • Ubiquitination at posLast=181181
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SECTM1 Gene

Domains & Families for SECTM1 Gene

Gene Families for SECTM1 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins
  • Predicted secreted proteins

Protein Domains for SECTM1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SECTM1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8WVN6

UniProtKB/Swiss-Prot:

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

Function for SECTM1 Gene

Molecular function for SECTM1 Gene

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

Phenotypes From GWAS Catalog for SECTM1 Gene

Gene Ontology (GO) - Molecular Function for SECTM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005125 cytokine activity IEA --
genes like me logo Genes that share ontologies with SECTM1: view
genes like me logo Genes that share phenotypes with SECTM1: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SECTM1

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets 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
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SECTM1 gene
Compartment Confidence
extracellular 5
plasma membrane 4
golgi apparatus 4

Gene Ontology (GO) - Cellular Components for SECTM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005615 extracellular space TAS 9480746
GO:0005794 Golgi apparatus TAS 9480746
GO:0005886 plasma membrane IEA --
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with SECTM1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SECTM1 Gene

Pathways & Interactions for SECTM1 Gene

SuperPathways for SECTM1 Gene

No Data Available

Interacting Proteins for SECTM1 Gene

Gene Ontology (GO) - Biological Process for SECTM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006955 immune response IEA --
GO:0007165 signal transduction IEA --
GO:0007498 mesoderm development TAS 9480746
GO:0010469 regulation of signaling receptor activity IEA --
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling HMP 12761501
genes like me logo Genes that share ontologies with SECTM1: view

No data available for Pathways by source and SIGNOR curated interactions for SECTM1 Gene

Drugs & Compounds for SECTM1 Gene

No Compound Related Data Available

Transcripts for SECTM1 Gene

mRNA/cDNA for SECTM1 Gene

Unigene Clusters for SECTM1 Gene

Secreted and transmembrane 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SECTM1

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 from GTEx, Illumina, BioGPS, and CGAP SAGE for SECTM1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Whole Blood (x26.2).

Protein differential expression in normal tissues from HIPED for SECTM1 Gene

This gene is overexpressed in Urine (65.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SECTM1 Gene



Protein tissue co-expression partners for SECTM1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SECTM1 Gene:

SECTM1

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.

Evidence on tissue expression from TISSUES for SECTM1 Gene

  • Liver(4.1)
  • Intestine(2.8)
genes like me logo Genes that share expression patterns with SECTM1: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for SECTM1 Gene

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 34 33
  • 93.02 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sectm1 33
  • 71.15 (n)
mouse
(Mus musculus)
Mammalia Sectm1a 16 34 33
  • 65.13 (n)
Sectm1b 34
  • 34 (a)
OneToMany
cow
(Bos Taurus)
Mammalia -- 34
  • 37 (a)
OneToMany
SECTM1 34 34
  • 37 (a)
OneToMany
-- 34
  • 36 (a)
OneToMany
-- 34
  • 30 (a)
OneToMany
Species where no ortholog for SECTM1 was found in the sources mined by GeneCards:
  • 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)
Aminode:
Evolutionary constrained regions (ECRs) for SECTM1: view image

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 Variation AA Info Type
rs1000048831 -- 82,328,139(-) T/A 5_prime_UTR_variant, intron_variant
rs1000262018 -- 82,331,010(-) C/G genic_upstream_transcript_variant, intron_variant
rs1000293046 -- 82,330,820(-) G/A genic_upstream_transcript_variant, intron_variant
rs1000504797 -- 82,334,501(-) C/T upstream_transcript_variant
rs1000625091 -- 82,335,321(-) T/C upstream_transcript_variant

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

Variant ID Type Subtype PubMed ID
esv1009380 CNV insertion 20482838
esv21913 CNV gain+loss 19812545
esv2760445 CNV gain 21179565
esv2762577 CNV gain+loss 21179565
nsv1059334 CNV gain 25217958
nsv1067194 CNV gain 25217958
nsv428351 CNV gain 18775914
nsv469561 CNV loss 16826518
nsv833572 CNV loss 17160897
nsv833573 CNV loss 17160897
nsv952394 CNV deletion 24416366

Variation tolerance for SECTM1 Gene

Residual Variation Intolerance Score: 82.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.72; 46.59% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SECTM1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SECTM1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SECTM1 Gene

Disorders for SECTM1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SECTM1 Gene - From: DISEASES

Disorder Aliases PubMed IDs
ulceroglandular tularemia
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for SECTM1

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with SECTM1: view

No data available for UniProtKB/Swiss-Prot and Genatlas 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 KA … Kaufman RE (Genomics 1998) 2 3 4 22 58
  2. Identification of CD7 as a cognate of the human K12 (SECTM1) protein. (PMID: 10652336) Lyman SD … Fanslow WC (The Journal of biological chemistry 2000) 3 4 22 58
  3. Risk of meningioma and common variation in genes related to innate immunity. (PMID: 20406964) Rajaraman P … Inskip PD (Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology 2010) 3 44 58
  4. Polymorphisms in innate immunity genes and risk of childhood leukemia. (PMID: 20438785) Han S … Kang D (Human immunology 2010) 3 44 58
  5. Expression of the CD7 ligand K-12 in human thymic epithelial cells: regulation by IFN-gamma. (PMID: 15742156) Lam GK … Haynes BF (Journal of clinical immunology 2005) 4 22 58

Products for SECTM1 Gene

Sources for SECTM1 Gene

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