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Aliases for SFT2D1 Gene

Aliases for SFT2D1 Gene

  • SFT2 Domain Containing 1 2 3 5
  • SFT2 Domain-Containing Protein 1 3 4
  • C6orf83 3 4
  • PRGR1 3 4
  • Chromosome 6 Open Reading Frame 83 2
  • Vesicle Transport Protein SFT2A 3

External Ids for SFT2D1 Gene

Previous HGNC Symbols for SFT2D1 Gene

  • C6orf83

Previous GeneCards Identifiers for SFT2D1 Gene

  • GC06M166704
  • GC06M166654
  • GC06M164204
  • GC06M166736

Summaries for SFT2D1 Gene

GeneCards Summary for SFT2D1 Gene

SFT2D1 (SFT2 Domain Containing 1) is a Protein Coding gene. An important paralog of this gene is SFT2D2.

UniProtKB/Swiss-Prot for SFT2D1 Gene

  • May be involved in fusion of retrograde transport vesicles derived from an endocytic compartment with the Golgi complex.

Additional gene information for SFT2D1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SFT2D1 Gene

Genomics for SFT2D1 Gene

Regulatory Elements for SFT2D1 Gene

Enhancers for SFT2D1 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
GH06H166340 1.4 FANTOM5 ENCODE 24.7 +0.1 136 2 HDGF PKNOX1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 CBX5 ZNF143 SFT2D1 MPC1 PRR18 HNRNPA1P49
GH06H166317 1 ENCODE dbSUPER 30.4 +24.0 24002 2 HDAC1 PKNOX1 NFIB KLF17 ZIC2 RFX5 ZFHX2 ZNF316 LCORL CTBP1 SFT2D1 MPC1 HNRNPA1P49 PRR18
GH06H166330 1.5 Ensembl ENCODE dbSUPER 18.9 +11.8 11771 0 HDGF ATF1 MLX ARID4B DMAP1 GLIS2 ZNF143 ATF7 MXD4 NFYC SFT2D1 PRR18 HNRNPA1P49
GH06H166257 1.4 FANTOM5 Ensembl ENCODE 17.8 +83.4 83408 2 FOXA2 PKNOX1 MAX EBF1 BATF FOSL1 POLR2A HNF4G FOS NR2F6 SFT2D1 PRR18 MPC1 GNG5P1 ENSG00000280850
GH06H166275 1.4 FANTOM5 ENCODE dbSUPER 11.2 +66.9 66864 0 ELF3 RB1 ARID4B BMI1 ZSCAN9 RAD21 ZNF143 THAP11 SMARCA5 ZNF654 SFT2D1 PRR18 ENSG00000280850 GNG5P1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SFT2D1 on UCSC Golden Path with GeneCards custom track

Promoters for SFT2D1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000206813 206 2001 HDGF PKNOX1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 CBX5 ZNF143

Genomic Location for SFT2D1 Gene

Chromosome:
6
Start:
166,319,728 bp from pter
End:
166,342,606 bp from pter
Size:
22,879 bases
Orientation:
Minus strand

Genomic View for SFT2D1 Gene

Genes around SFT2D1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SFT2D1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SFT2D1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SFT2D1 Gene

Proteins for SFT2D1 Gene

  • Protein details for SFT2D1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8WV19-SFT2A_HUMAN
    Recommended name:
    Vesicle transport protein SFT2A
    Protein Accession:
    Q8WV19
    Secondary Accessions:
    • Q5TI64
    • Q9UIC7

    Protein attributes for SFT2D1 Gene

    Size:
    159 amino acids
    Molecular mass:
    17804 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAF18564.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for SFT2D1 Gene

Post-translational modifications for SFT2D1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SFT2D1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SFT2D1 Gene

Domains & Families for SFT2D1 Gene

Gene Families for SFT2D1 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for SFT2D1 Gene

Suggested Antigen Peptide Sequences for SFT2D1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8WV19

UniProtKB/Swiss-Prot:

SFT2A_HUMAN :
  • Belongs to the SFT2 family.
Family:
  • Belongs to the SFT2 family.
genes like me logo Genes that share domains with SFT2D1: view

Function for SFT2D1 Gene

Molecular function for SFT2D1 Gene

UniProtKB/Swiss-Prot Function:
May be involved in fusion of retrograde transport vesicles derived from an endocytic compartment with the Golgi complex.
genes like me logo Genes that share phenotypes with SFT2D1: view

Animal Model Products

CRISPR Products

miRNA for SFT2D1 Gene

miRTarBase miRNAs that target SFT2D1

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SFT2D1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SFT2D1 Gene

Localization for SFT2D1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SFT2D1 Gene

Membrane; Multi-pass membrane protein.

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 SFT2D1 gene
Compartment Confidence
plasma membrane 3
nucleus 2
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nuclear bodies (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SFT2D1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IBA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SFT2D1: view

Pathways & Interactions for SFT2D1 Gene

SuperPathways for SFT2D1 Gene

No Data Available

Interacting Proteins for SFT2D1 Gene

Gene Ontology (GO) - Biological Process for SFT2D1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0015031 protein transport IEA --
GO:0016192 vesicle-mediated transport IBA --
genes like me logo Genes that share ontologies with SFT2D1: view

No data available for Pathways by source and SIGNOR curated interactions for SFT2D1 Gene

Drugs & Compounds for SFT2D1 Gene

No Compound Related Data Available

Transcripts for SFT2D1 Gene

Unigene Clusters for SFT2D1 Gene

SFT2 domain containing 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SFT2D1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for SFT2D1 Gene

No ASD Table

Relevant External Links for SFT2D1 Gene

GeneLoc Exon Structure for
SFT2D1
ECgene alternative splicing isoforms for
SFT2D1

Expression for SFT2D1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SFT2D1 Gene

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SFT2D1 Gene



NURSA nuclear receptor signaling pathways regulating expression of SFT2D1 Gene:

SFT2D1

SOURCE GeneReport for Unigene cluster for SFT2D1 Gene:

Hs.487143

Evidence on tissue expression from TISSUES for SFT2D1 Gene

  • Nervous system(3)
genes like me logo Genes that share expression patterns with SFT2D1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein 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 SFT2D1 Gene

Orthologs for SFT2D1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SFT2D1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SFT2D1 33 34
  • 98.95 (n)
mouse
(Mus musculus)
Mammalia Gm12166 34
  • 91 (a)
OneToMany
Sft2d1 33 16 34
  • 86.29 (n)
dog
(Canis familiaris)
Mammalia SFT2D1 33 34
  • 90.99 (n)
cow
(Bos Taurus)
Mammalia SFT2D1 33 34
  • 87.84 (n)
-- 34
  • 79 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Sft2d1 33
  • 86.37 (n)
oppossum
(Monodelphis domestica)
Mammalia SFT2D1 34
  • 84 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SFT2D1 34
  • 70 (a)
OneToOne
chicken
(Gallus gallus)
Aves SFT2D1 33 34
  • 76.1 (n)
lizard
(Anolis carolinensis)
Reptilia SFT2D1 34
  • 73 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sft2d1 33
  • 73.38 (n)
Str.11136 33
zebrafish
(Danio rerio)
Actinopterygii sft2d1 33 34
  • 67.71 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG5104 33 34
  • 59.33 (n)
worm
(Caenorhabditis elegans)
Secernentea F27D4.7 34
  • 31 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G24170 33
  • 47.96 (n)
rice
(Oryza sativa)
Liliopsida Os01g0219100 33
  • 49.89 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 46 (a)
OneToMany
Species where no ortholog for SFT2D1 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 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SFT2D1 Gene

ENSEMBL:
Gene Tree for SFT2D1 (if available)
TreeFam:
Gene Tree for SFT2D1 (if available)

Paralogs for SFT2D1 Gene

Paralogs for SFT2D1 Gene

(1) SIMAP similar genes for SFT2D1 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with SFT2D1: view

Variants for SFT2D1 Gene

Sequence variations from dbSNP and Humsavar for SFT2D1 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs1000106944 -- 166,327,346(+) CTGAA(C/T)ACCCA intron-variant
rs1000221317 -- 166,327,119(+) GATTA(A/G)AGTTA intron-variant
rs1000250935 -- 166,326,911(+) ACTTA(C/T)ATTCT intron-variant
rs1000274571 -- 166,333,181(+) ACCCT(C/G)AGGCC intron-variant
rs1000306496 -- 166,340,479(+) TCTGC(C/T)CCGCT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SFT2D1 Gene

Variant ID Type Subtype PubMed ID
nsv981205 CNV duplication 23825009

Variation tolerance for SFT2D1 Gene

Residual Variation Intolerance Score: 70.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.72; 15.33% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SFT2D1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SFT2D1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SFT2D1 Gene

Disorders for SFT2D1 Gene

Relevant External Links for SFT2D1

Genetic Association Database (GAD)
SFT2D1
Human Genome Epidemiology (HuGE) Navigator
SFT2D1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SFT2D1

No disorders were found for SFT2D1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SFT2D1 Gene

Publications for SFT2D1 Gene

  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  2. The DNA sequence and analysis of human chromosome 6. (PMID: 14574404) Mungall AJ … Beck S (Nature 2003) 3 4 60
  3. Initial characterization of the human central proteome. (PMID: 21269460) Burkard TR … Colinge J (BMC systems biology 2011) 4 60
  4. Genetic associations of variants in genes encoding HIV-dependency factors required for HIV-1 infection. (PMID: 21083371) Chinn LW … O'Brien SJ (The Journal of infectious diseases 2010) 45 60
  5. Identification of host proteins required for HIV infection through a functional genomic screen. (PMID: 18187620) Brass AL … Elledge SJ (Science (New York, N.Y.) 2008) 3 60

Products for SFT2D1 Gene

Sources for SFT2D1 Gene

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