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Aliases for SNED1 Gene

Aliases for SNED1 Gene

  • Sushi, Nidogen And EGF Like Domains 1 2 3 5
  • IRE-BP1 3 4
  • Sushi, Nidogen And EGF-Like Domain-Containing Protein 1 3
  • Insulin Responsive Sequence DNA Binding Protein-1 3
  • Insulin-Responsive Sequence DNA-Binding Protein 1 4
  • Sushi, Nidogen And EGF-Like Domains 1 2
  • 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 NOTCH2.

Additional gene information for SNED1 Gene

No data available for Entrez Gene Summary , CIViC 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

Enhancers for SNED1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH02H241616 1.2 ENCODE dbSUPER 66.9 +621.4 621410 4.1 HDGF PKNOX1 GLI4 YY1 ETS1 ZNF143 FOS SP3 YY2 REST ENSG00000223374 ING5 SNED1 ENSG00000235351 MTERF4 FARP2 BOK D2HGDH DTYMK SEPT2
GH02H241880 1.3 ENCODE dbSUPER 29.8 +884.5 884468 3 HDGF PKNOX1 SIN3A FEZF1 ZNF2 ZBTB7B YY1 CBX5 ZNF416 ZNF143 SNED1 ENSG00000223374 ENSG00000224272 D2HGDH MTERF4 ENSG00000235861 ING5 ATG4B NEU4 LINC01237
GH02H241543 1.3 Ensembl ENCODE 21.3 +548.6 548605 4.4 HDGF PKNOX1 ZNF133 ARID4B YBX1 ZNF2 ZNF121 ZNF766 FOS ZNF548 ENSG00000223374 MTERF4 ATG4B ANKMY1 ING5 CAPN10 FARP2 SNED1 D2HGDH DTYMK
GH02H241609 1.9 FANTOM5 Ensembl ENCODE dbSUPER 10.7 +612.7 612651 2.1 HDGF PKNOX1 MLX ARID4B SIN3A DMAP1 GLIS2 ELK1 ZNF143 ZNF207 BOK ENSG00000223374 BOK-AS1 D2HGDH SNED1 ANO7 ENSG00000235351 RNA5SP122 ATG4B
GH02H241100 1.4 ENCODE dbSUPER 11.1 +104.8 104784 3.1 PKNOX1 MLX ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 CBX5 MTERF4 ENSG00000223374 PASK LINC01881 ING5 SNED1 D2HGDH ANKMY1 FARP2 GC02M241112
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SNED1 on UCSC Golden Path with GeneCards custom track

Promoters for SNED1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000133215 1303 1401 TBP RB1 ZFP64 SIN3A DMAP1 RAD21 GLIS2 SCRT2 EGR2 SP3

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

Genomic Locations for SNED1 Gene

Genomic Locations for SNED1 Gene
chr2:240,997,597-241,095,568
(GRCh38/hg38)
Size:
97,972 bases
Orientation:
Plus strand
chr2:241,938,255-242,034,983
(GRCh37/hg19)

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

Post-translational modifications for SNED1 Gene

  • Glycosylation at Asn145, isoforms=3, 4, 5408, Asn977, and Ser1247
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SNED1 Gene

Domains & Families for SNED1 Gene

Gene Families for SNED1 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted secreted proteins

Suggested Antigen Peptide Sequences for SNED1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

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

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

Function for SNED1 Gene

Phenotypes From GWAS Catalog 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

CRISPR Products

Inhibitory RNA Products

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
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 SNED1 gene
Compartment Confidence
extracellular 5
plasma membrane 4
peroxisome 1
nucleus 1

Gene Ontology (GO) - Cellular Components for SNED1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0070062 extracellular exosome IDA 23376485
genes like me logo Genes that share ontologies with SNED1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SNED1 Gene

Pathways & Interactions for SNED1 Gene

SuperPathways for SNED1 Gene

No Data Available

Interacting Proteins for SNED1 Gene

STRING Interaction Network Preview (showing 5 interactants - click image to see 25)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000308893%0d%0a9606.ENSP00000358795%0d%0a9606.ENSP00000358815%0d%0a9606.ENSP00000360200%0d%0a9606.ENSP00000282493%0d%0a9606.ENSP00000361467%0d%0a
Selected Interacting proteins: ENSP00000308893 Q8TER0-SNED1_HUMAN for SNED1 Gene via STRING IID

Gene Ontology (GO) - Biological Process for SNED1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007160 cell-matrix adhesion IEA --
genes like me logo Genes that share ontologies with SNED1: view

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:

CRISPR Products

Inhibitory RNA Products

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 from GTEx, Illumina, BioGPS, and CGAP SAGE 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



NURSA nuclear receptor signaling pathways regulating expression of SNED1 Gene:

SNED1

SOURCE GeneReport for Unigene cluster for SNED1 Gene:

Hs.471834

Evidence on tissue expression from TISSUES for SNED1 Gene

  • Lung(4.3)
  • Spleen(4.2)
  • Nervous system(2.4)
genes like me logo Genes that share expression patterns with SNED1: view

Primer Products

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer 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 33 34
  • 98.82 (n)
dog
(Canis familiaris)
Mammalia SNED1 33 34
  • 85.07 (n)
rat
(Rattus norvegicus)
Mammalia Sned1 33
  • 84.21 (n)
mouse
(Mus musculus)
Mammalia Sned1 33 16 34
  • 84.04 (n)
cow
(Bos Taurus)
Mammalia SNED1 34
  • 81 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SNED1 34
  • 71 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SNED1 34
  • 70 (a)
OneToOne
chicken
(Gallus gallus)
Aves SNED1 33 34
  • 74.19 (n)
lizard
(Anolis carolinensis)
Reptilia SNED1 34
  • 68 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sned1 33
  • 58.2 (n)
zebrafish
(Danio rerio)
Actinopterygii sned1 33 34
  • 57.34 (n)
fruit fly
(Drosophila melanogaster)
Insecta C901 34
  • 23 (a)
ManyToMany
uif 34
  • 9 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea lin-12 34
  • 15 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 30 (a)
ManyToMany
Species where no ortholog for SNED1 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)
  • 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

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
rs1000015077 -- 241,076,422(+) TTCCT(G/T)ATTAT intron-variant
rs1000028502 -- 241,033,281(+) ACGCT(G/T)CCTGC intron-variant
rs1000081873 -- 241,032,936(+) TTTTC(A/T)CATTG intron-variant
rs1000107414 -- 241,090,887(+) AAAGA(A/G)AAAAG intron-variant
rs1000165938 -- 240,999,539(+) CCCTT(C/G)CCCAG intron-variant, upstream-variant-2KB

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

Variant ID Type Subtype PubMed ID
nsv955298 CNV deletion 24416366
nsv955297 CNV deletion 24416366
nsv584954 CNV loss 21841781
nsv584940 CNV loss 21841781
nsv584861 CNV gain 21841781
nsv472069 CNV novel sequence insertion 20440878
nsv460167 CNV gain 19166990
nsv213970 CNV deletion 16902084
nsv1144929 CNV deletion 24896259
nsv1140156 CNV insertion 24896259
nsv1125217 CNV insertion 24896259
nsv1072510 CNV deletion 25765185
esv3594817 CNV loss 21293372
esv3594816 CNV loss 21293372
esv3594813 CNV loss 21293372
esv3584396 CNV loss 25503493
esv3584392 CNV loss 25503493
esv3575345 CNV gain 25503493
esv2721972 CNV deletion 23290073
esv2721971 CNV deletion 23290073
esv2721970 CNV deletion 23290073
esv2721969 CNV deletion 23290073
esv2721968 CNV deletion 23290073
esv2721967 CNV deletion 23290073
esv2721966 CNV deletion 23290073
esv2721965 CNV deletion 23290073
esv2675882 CNV deletion 23128226
esv2200022 CNV deletion 18987734
esv2077609 CNV deletion 18987734
esv1654437 CNV insertion 17803354
esv1359552 CNV insertion 17803354
dgv772e199 CNV deletion 23128226
dgv2194n106 CNV deletion 24896259
dgv1222e212 CNV loss 25503493

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

SNPedia medical, phenotypic, and genealogical associations of SNPs for
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. Cloning and expression analysis of the mouse stroma marker Snep encoding a novel nidogen domain protein. (PMID: 15162516) Leimeister C … Gessler M (Developmental dynamics : an official publication of the American Association of Anatomists 2004) 2 3 60
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 2 3 60
  3. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. (PMID: 23376485) Prunotto M … Moll S (Journal of proteomics 2013) 3 60
  4. 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 60
  5. Anxiolytic and antidepressant actions of somatostatin: the role of sst2 and sst3 receptors. (PMID: 19609508) Engin E … Treit D (Psychopharmacology 2009) 22 60

Products for SNED1 Gene

Sources for SNED1 Gene

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