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Aliases for SNED1 Gene

Aliases for SNED1 Gene

  • Sushi, Nidogen And EGF Like Domains 1 2 3
  • Sushi, Nidogen And EGF-Like Domains 1 2 3 5
  • Insulin-Responsive Sequence DNA-Binding Protein 1 3 4
  • IRE-BP1 3 4
  • Insulin Responsive Sequence DNA Binding Protein-1 3
  • 6720455I24Rik Homolog 3
  • SST3 3
  • Snep 3

External Ids for SNED1 Gene

Previous GeneCards Identifiers for SNED1 Gene

  • GC02P241658
  • GC02P241586
  • GC02P241938
  • GC02P233694

Summaries for SNED1 Gene

GeneCards Summary for SNED1 Gene

SNED1 (Sushi, Nidogen And EGF Like Domains 1) is a Protein Coding gene. Diseases associated with SNED1 include cortical thymoma. GO annotations related to this gene include calcium ion binding. An important paralog of this gene is JAG1.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNED1 Gene

Genomics for SNED1 Gene

Regulatory Elements for SNED1 Gene

Promoters for SNED1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around SNED1 on UCSC Golden Path with GeneCards custom track

Transcription factor binding sites by QIAGEN in the SNED1 gene promoter:

Genomic Location for SNED1 Gene

Chromosome:
2
Start:
240,997,597 bp from pter
End:
241,095,568 bp from pter
Size:
97,972 bases
Orientation:
Plus strand

Genomic View for SNED1 Gene

Genes around SNED1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNED1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNED1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNED1 Gene

Proteins for SNED1 Gene

  • Protein details for SNED1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8TER0-SNED1_HUMAN
    Recommended name:
    Sushi, nidogen and EGF-like domain-containing protein 1
    Protein Accession:
    Q8TER0
    Secondary Accessions:
    • B5MDC3
    • B7WNK6
    • B7WPM0
    • Q336F4
    • Q336F5
    • Q8N369
    • Q8TEP7

    Protein attributes for SNED1 Gene

    Size:
    1413 amino acids
    Molecular mass:
    152204 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH27939.1; Type=Miscellaneous discrepancy; Note=Intron retention. The N-terminal region arises from intron retention.; Evidence={ECO:0000305}; Sequence=AAQ04558.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for SNED1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SNED1 Gene

Proteomics data for SNED1 Gene at MOPED

Post-translational modifications for SNED1 Gene

  • Glycosylation at Asn 145, Asn 408, Asn 977, and Ser 1247
  • Modification sites at PhosphoSitePlus

Other Protein References for SNED1 Gene

No data available for DME Specific Peptides for SNED1 Gene

Domains & Families for SNED1 Gene

Suggested Antigen Peptide Sequences for SNED1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8TER0

UniProtKB/Swiss-Prot:

SNED1_HUMAN :
  • Contains 15 EGF-like domains.
Domain:
  • Contains 15 EGF-like domains.
  • Contains 3 fibronectin type-III domains.
  • Contains 2 follistatin-like domains.
  • Contains 1 NIDO domain.
  • Contains 1 Sushi (CCP/SCR) domain.
genes like me logo Genes that share domains with SNED1: view

Function for SNED1 Gene

Gene Ontology (GO) - Molecular Function for SNED1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with SNED1: view

Phenotypes for SNED1 Gene

genes like me logo Genes that share phenotypes with SNED1: view

Animal Model Products

  • Taconic Biosciences Mouse Models for SNED1

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SNED1 Gene

Localization for SNED1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SNED1 Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SNED1 Gene COMPARTMENTS Subcellular localization image for SNED1 gene
Compartment Confidence
extracellular 5
plasma membrane 4
nucleus 1
peroxisome 1

No data available for Gene Ontology (GO) - Cellular Components for SNED1 Gene

Pathways & Interactions for SNED1 Gene

SuperPathways for SNED1 Gene

No Data Available

Interacting Proteins for SNED1 Gene

Gene Ontology (GO) - Biological Process for SNED1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SNED1 Gene

Drugs & Compounds for SNED1 Gene

(1) Drugs for SNED1 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with SNED1: view

Transcripts for SNED1 Gene

Unigene Clusters for SNED1 Gene

Sushi, nidogen and EGF-like domains 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SNED1 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16 ^ 17a · 17b ^ 18 ^ 19 ^ 20
SP1: - -
SP2:
SP3: -
SP4:
SP5:

Relevant External Links for SNED1 Gene

GeneLoc Exon Structure for
SNED1
ECgene alternative splicing isoforms for
SNED1

Expression for SNED1 Gene

mRNA expression in normal human tissues for SNED1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SNED1 Gene

This gene is overexpressed in Serum (63.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SNED1 Gene



SOURCE GeneReport for Unigene cluster for SNED1 Gene Hs.471834

genes like me logo Genes that share expression patterns with SNED1: view

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for SNED1 Gene

Orthologs for SNED1 Gene

This gene was present in the common ancestor of animals.

Orthologs for SNED1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SNED1 36
  • 98 (a)
OneToOne
SNED1 35
  • 98.82 (n)
  • 98.44 (a)
cow
(Bos Taurus)
Mammalia SNED1 36
  • 81 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SNED1 36
  • 85 (a)
OneToOne
SNED1 35
  • 85.07 (n)
  • 84.38 (a)
mouse
(Mus musculus)
Mammalia Sned1 16
Sned1 35
  • 84.04 (n)
  • 84.54 (a)
Sned1 36
  • 84 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SNED1 36
  • 71 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SNED1 36
  • 70 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sned1 35
  • 84.21 (n)
  • 84.69 (a)
chicken
(Gallus gallus)
Aves SNED1 35
  • 74.19 (n)
  • 71.71 (a)
SNED1 36
  • 68 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SNED1 36
  • 68 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sned1 35
  • 58.2 (n)
  • 53.13 (a)
zebrafish
(Danio rerio)
Actinopterygii sned1 36
  • 52 (a)
OneToOne
sned1 35
  • 57.34 (n)
  • 53.43 (a)
fruit fly
(Drosophila melanogaster)
Insecta C901 36
  • 23 (a)
ManyToMany
uif 36
  • 9 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea lin-12 36
  • 15 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 30 (a)
ManyToMany
Species with no ortholog for SNED1:
  • 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)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)
  • wheat (Triticum aestivum)

Evolution for SNED1 Gene

ENSEMBL:
Gene Tree for SNED1 (if available)
TreeFam:
Gene Tree for SNED1 (if available)

Paralogs for SNED1 Gene

Paralogs for SNED1 Gene

Pseudogenes.org Pseudogenes for SNED1 Gene

genes like me logo Genes that share paralogs with SNED1: view

Variants for SNED1 Gene

Sequence variations from dbSNP and Humsavar for SNED1 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs17440466 - 241,071,669(+) GGAGC(C/T)GCGCC intron-variant, nc-transcript-variant, reference, missense
rs6721345 - 241,073,314(+) CAAGC(A/G)GGTCA intron-variant, nc-transcript-variant, downstream-variant-500B, reference, missense, utr-variant-3-prime
rs6708120 - 241,073,344(+) TGAAC(A/G)CGGCA intron-variant, nc-transcript-variant, downstream-variant-500B, reference, missense, utr-variant-3-prime
VAR_034850 -
rs740392 -- 241,068,515(-) GCCCC(A/T)GGAAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SNED1 Gene

Variant ID Type Subtype PubMed ID
nsv876116 CNV Loss 21882294
nsv460167 CNV Gain 19166990
dgv4487n71 CNV Loss 21882294
nsv876204 CNV Loss 21882294
dgv4490n71 CNV Loss 21882294
nsv876219 CNV Loss 21882294
dgv4491n71 CNV Loss 21882294
esv2675882 CNV Deletion 23128226
esv2721965 CNV Deletion 23290073
esv2721966 CNV Deletion 23290073
esv2721967 CNV Deletion 23290073
esv1359552 CNV Insertion 17803354
esv2721968 CNV Deletion 23290073
esv2721969 CNV Deletion 23290073
esv1654437 CNV Insertion 17803354
esv2721970 CNV Deletion 23290073
esv2200022 CNV Deletion 18987734
dgv772e199 CNV Deletion 23128226
esv2721971 CNV Deletion 23290073
esv2077609 CNV Deletion 18987734
nsv213970 CNV Loss 16902084
esv2721972 CNV Deletion 23290073

Variation tolerance for SNED1 Gene

Residual Variation Intolerance Score: 9.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 12.86; 94.83% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SNED1 Gene

HapMap Linkage Disequilibrium report
SNED1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SNED1 Gene

Disorders for SNED1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SNED1 Gene - From: DISEASES

Disorder Aliases PubMed IDs
cortical thymoma
  • polygonal cell thymoma
- elite association - COSMIC cancer census association via MalaCards
Search SNED1 in MalaCards View complete list of genes associated with diseases

Relevant External Links for SNED1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SNED1
genes like me logo Genes that share disorders with SNED1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SNED1 Gene

Publications for SNED1 Gene

  1. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 2 3 67
  2. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. (PMID: 23376485) Prunotto M. … Moll S. (J Proteomics 2013) 3
  3. Genome-wide association study of circulating estradiol, testosterone, and sex hormone-binding globulin in postmenopausal women. (PMID: 22675492) Prescott J. … De Vivo I. (PLoS ONE 2012) 3
  4. Anxiolytic and antidepressant actions of somatostatin: the role of sst2 and sst3 receptors. (PMID: 19609508) Engin E. … Treit D. (Psychopharmacology (Berl.) 2009) 23
  5. Cloning and expression analysis of the mouse stroma marker Snep encoding a novel nidogen domain protein. (PMID: 15162516) Leimeister C. … Gessler M. (Dev. Dyn. 2004) 3

Products for SNED1 Gene

Sources for SNED1 Gene

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