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Aliases for IFT20 Gene

Aliases for IFT20 Gene

  • Intraflagellar Transport 20 2 3 5
  • Intraflagellar Transport 20 Homolog (Chlamydomonas) 2
  • HIFT20 4

External Ids for IFT20 Gene

Previous GeneCards Identifiers for IFT20 Gene

  • GC17M023680
  • GC17M026655
  • GC17M022863
  • GC17M028329
  • GC17M028421
  • GC17M028528
  • GC17M028622

Summaries for IFT20 Gene

Entrez Gene Summary for IFT20 Gene

  • This gene encodes a intraflagellar transport protein important for intracellular transport. The encoded protein forms part of a complex involved in trafficking of proteins from the Golgi body, including recycling of immune signalling components (Finetti et al., PubMed: 19855387). This gene is part of a complex set of sense-antisense loci that may be co-regulated. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. A pseudogene of this gene is located on the long arm of chromosome 14.[provided by RefSeq, Jun 2012]

GeneCards Summary for IFT20 Gene

IFT20 (Intraflagellar Transport 20) is a Protein Coding gene. Diseases associated with IFT20 include Retinitis Pigmentosa. Among its related pathways are Organelle biogenesis and maintenance and Intraflagellar transport. GO annotations related to this gene include opsin binding.

UniProtKB/Swiss-Prot for IFT20 Gene

  • Part of intraflagellar transport (IFT) particles involved in ciliary process assembly. May play a role in the trafficking of ciliary membrane proteins from the Golgi complex to the cilium. Also involved in autophagy since it is required for trafficking of ATG16L and the expansion of the autophagic compartment.

Gene Wiki entry for IFT20 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for IFT20 Gene

Genomics for IFT20 Gene

Regulatory Elements for IFT20 Gene

Enhancers for IFT20 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
GH17F028380 1.2 Ensembl ENCODE 21.7 -45.6 -45608 2.2 PKNOX1 ATF1 SIN3A FEZF1 BRCA1 ZNF207 FOS DEK SP5 ZHX2 IFT20 SLC46A1 TNFAIP1 VTN PIGS ENSG00000279532 GC17M028814
GH17F029175 1.6 FANTOM5 ENCODE 10.1 -843.1 -843129 5.7 HDGF PKNOX1 CREB3L1 MLX ARID4B SIN3A DMAP1 YBX1 YY1 SLC30A9 MYO18A IFT20 ENSG00000264044 MIR4723 TIAF1 ENSG00000265474 TLCD1 TRAF4 GIT1 LOC105371717
GH17F027347 1.5 FANTOM5 Ensembl ENCODE 10.1 +986.4 986368 2.6 SREBF2 ZFP64 SIN3A RAD21 GLIS2 ZNF143 ZNF207 ZNF202 REST ZNF518A ITM2BP1 WSB1 IFT20 LGALS9 LOC100132972 ENSG00000266313
GH17F028393 1.1 Ensembl ENCODE 11.3 -61.4 -61378 5.7 BCOR GTF2F1 TBP TFAP4 TAL1 JUN ZFP64 ZMYM3 RARA POLR2A POLDIP2 VTN SARM1 TMEM199 MIR4723 TNFAIP1 IFT20 FOXN1 UNC119 PIGS
GH17F028277 1.1 Ensembl ENCODE 10.9 +57.1 57088 1.2 HDAC1 PKNOX1 ESRRA FEZF1 ZFHX2 NCOR1 NR2F6 HES1 EGR2 SMARCE1 TNFAIP1 IFT20 NOS2 GC17M028800 PIR58208 PIRC93
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around IFT20 on UCSC Golden Path with GeneCards custom track

Promoters for IFT20 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001343336 -211 2201 HDGF PKNOX1 CREB3L1 MLX WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1

Genomic Location for IFT20 Gene

Chromosome:
17
Start:
28,328,325 bp from pter
End:
28,335,489 bp from pter
Size:
7,165 bases
Orientation:
Minus strand

Genomic View for IFT20 Gene

Genes around IFT20 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
IFT20 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for IFT20 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for IFT20 Gene

Proteins for IFT20 Gene

  • Protein details for IFT20 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IY31-IFT20_HUMAN
    Recommended name:
    Intraflagellar transport protein 20 homolog
    Protein Accession:
    Q8IY31
    Secondary Accessions:
    • J3QL09
    • Q5GLZ2
    • Q9BUG5

    Protein attributes for IFT20 Gene

    Size:
    132 amino acids
    Molecular mass:
    15281 Da
    Quaternary structure:
    • Component of the IFT complex B, at least composed of IFT20, IFT22, HSPB11/IFT25, IFT27, IFT46, IFT52, TRAF3IP1/IFT54, IFT57, IFT74, IFT80, IFT81, and IFT88. Interacts directly with IFT57 and KIF3B/Kinesin II subunit. Interacts with IFT88 (By similarity). Interacts with CEP83.

    Alternative splice isoforms for IFT20 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for IFT20 Gene

Post-translational modifications for IFT20 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for IFT20 Gene

Domains & Families for IFT20 Gene

Gene Families for IFT20 Gene

Protein Domains for IFT20 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for IFT20 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with IFT20: view

No data available for UniProtKB/Swiss-Prot for IFT20 Gene

Function for IFT20 Gene

Molecular function for IFT20 Gene

UniProtKB/Swiss-Prot Function:
Part of intraflagellar transport (IFT) particles involved in ciliary process assembly. May play a role in the trafficking of ciliary membrane proteins from the Golgi complex to the cilium. Also involved in autophagy since it is required for trafficking of ATG16L and the expansion of the autophagic compartment.

Gene Ontology (GO) - Molecular Function for IFT20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002046 opsin binding IEA --
GO:0005515 protein binding IPI 16189514
GO:0017137 Rab GTPase binding IPI 26021297
genes like me logo Genes that share ontologies with IFT20: view
genes like me logo Genes that share phenotypes with IFT20: view

Animal Models for IFT20 Gene

MGI Knock Outs for IFT20:

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for IFT20 Gene

Localization for IFT20 Gene

Subcellular locations from UniProtKB/Swiss-Prot for IFT20 Gene

Golgi apparatus, cis-Golgi network. Cytoplasm, cytoskeleton, microtubule organizing center, centrosome, centriole. Cytoplasm, cytoskeleton, cilium basal body. Cell projection, cilium. Note=Present at the centrosomes during the cell cycle and associated with the proximal portion of the mother centriole and the lateral aspect of the daughter centriole. Associated with basal body at the base of primary cilia (By similarity). {ECO:0000250 UniProtKB:Q61025}.

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 IFT20 gene
Compartment Confidence
extracellular 5
cytoskeleton 5
golgi apparatus 5
nucleus 2
cytosol 2
plasma membrane 1
endosome 1

Gene Ontology (GO) - Cellular Components for IFT20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane TAS --
GO:0001750 photoreceptor outer segment IEA --
GO:0005737 cytoplasm IEA --
GO:0005794 Golgi apparatus IEA --
GO:0005801 cis-Golgi network IDA 24648492
genes like me logo Genes that share ontologies with IFT20: view

Pathways & Interactions for IFT20 Gene

genes like me logo Genes that share pathways with IFT20: view

Pathways by source for IFT20 Gene

Gene Ontology (GO) - Biological Process for IFT20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001736 establishment of planar polarity IEA --
GO:0001822 kidney development IEA --
GO:0007224 smoothened signaling pathway IEA --
GO:0008542 visual learning IEA --
GO:0022008 neurogenesis IEA --
genes like me logo Genes that share ontologies with IFT20: view

No data available for SIGNOR curated interactions for IFT20 Gene

Transcripts for IFT20 Gene

Unigene Clusters for IFT20 Gene

Intraflagellar transport 20 homolog (Chlamydomonas):
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for IFT20 Gene

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

Relevant External Links for IFT20 Gene

GeneLoc Exon Structure for
IFT20
ECgene alternative splicing isoforms for
IFT20

Expression for IFT20 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for IFT20 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for IFT20 Gene

This gene is overexpressed in Plasma (53.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for IFT20 Gene



NURSA nuclear receptor signaling pathways regulating expression of IFT20 Gene:

IFT20

SOURCE GeneReport for Unigene cluster for IFT20 Gene:

Hs.705431

mRNA Expression by UniProt/SwissProt for IFT20 Gene:

Q8IY31-IFT20_HUMAN
Tissue specificity: Expressed in almost all tissues.
genes like me logo Genes that share expression patterns with IFT20: view

Primer Products

No data available for mRNA differential expression in normal tissues and Protein tissue co-expression partners for IFT20 Gene

Orthologs for IFT20 Gene

This gene was present in the common ancestor of animals.

Orthologs for IFT20 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia IFT20 34 35
  • 100 (n)
oppossum
(Monodelphis domestica)
Mammalia IFT20 35
  • 99 (a)
OneToOne
dog
(Canis familiaris)
Mammalia IFT20 34 35
  • 95.96 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia IFT20 35
  • 95 (a)
OneToOne
cow
(Bos Taurus)
Mammalia IFT20 34 35
  • 91.88 (n)
mouse
(Mus musculus)
Mammalia Ift20 34 16 35
  • 91.16 (n)
rat
(Rattus norvegicus)
Mammalia Ift20 34
  • 90.23 (n)
chicken
(Gallus gallus)
Aves IFT20 34 35
  • 75.25 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia ift20 34
  • 80.3 (n)
Str.10741 34
African clawed frog
(Xenopus laevis)
Amphibia LOC398244 34
zebrafish
(Danio rerio)
Actinopterygii ift20 34 35
  • 74.49 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP006172 34
  • 56.91 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG30441 34 35
  • 49.19 (n)
worm
(Caenorhabditis elegans)
Secernentea ift-20 35
  • 36 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 69 (a)
OneToOne
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.5274 34
Species where no ortholog for IFT20 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • lizard (Anolis carolinensis)
  • 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 IFT20 Gene

ENSEMBL:
Gene Tree for IFT20 (if available)
TreeFam:
Gene Tree for IFT20 (if available)

Paralogs for IFT20 Gene

Pseudogenes.org Pseudogenes for IFT20 Gene

genes like me logo Genes that share paralogs with IFT20: view

No data available for Paralogs for IFT20 Gene

Variants for IFT20 Gene

Sequence variations from dbSNP and Humsavar for IFT20 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs1043168 -- 28,328,923(-) CTCTG(A/G)AAGAA intron-variant, downstream-variant-500B
rs1043172 -- 28,328,291(-) GAAAT(A/G)TGTTT downstream-variant-500B, utr-variant-3-prime
rs111270393 -- 28,331,598(+) GGTTT(C/T)TAAGA intron-variant
rs111922331 -- 28,336,405(+) ACAGA(A/G)TTCCT intron-variant, upstream-variant-2KB
rs112068799 -- 28,332,327(+) GATGC(C/T)GGGGG intron-variant, utr-variant-5-prime

Structural Variations from Database of Genomic Variants (DGV) for IFT20 Gene

Variant ID Type Subtype PubMed ID
nsv2017 CNV insertion 18451855
nsv519388 CNV loss 19592680
nsv574653 CNV gain 21841781

Variation tolerance for IFT20 Gene

Residual Variation Intolerance Score: 52.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.66; 31.73% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for IFT20 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
IFT20

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for IFT20 Gene

Disorders for IFT20 Gene

MalaCards: The human disease database

(1) MalaCards diseases for IFT20 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
retinitis pigmentosa
  • retinitis pigmentosa 1
- elite association - COSMIC cancer census association via MalaCards
Search IFT20 in MalaCards View complete list of genes associated with diseases

Relevant External Links for IFT20

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
IFT20
genes like me logo Genes that share disorders with IFT20: view

No data available for UniProtKB/Swiss-Prot and Genatlas for IFT20 Gene

Publications for IFT20 Gene

  1. The intraflagellar transport protein IFT20 is associated with the Golgi complex and is required for cilia assembly. (PMID: 16775004) Follit J.A. … Pazour G.J. (Mol. Biol. Cell 2006) 3 4 22 64
  2. CCDC41 is required for ciliary vesicle docking to the mother centriole. (PMID: 23530209) Joo K. … Kim J. (Proc. Natl. Acad. Sci. U.S.A. 2013) 3 4 64
  3. 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 64
  4. Cloning and characterization of the human IFT20 gene. (PMID: 14672413) Yin G. … Mao Y. (Mol. Biol. Rep. 2003) 3 4 64
  5. Expressed sequence tag analysis of human retina for the NEIBank project: retbindin, an abundant, novel retinal cDNA and alternative splicing of other retina-preferred gene transcripts. (PMID: 12107411) Wistow G. … Peterson K. (Mol. Vis. 2002) 3 4 64

Products for IFT20 Gene

Sources for IFT20 Gene

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