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Aliases for TTC39A Gene

Aliases for TTC39A Gene

  • Tetratricopeptide Repeat Domain 39A 2 3 5
  • Differentially Expressed In MCF7 With Estradiol Protein 6 3 4
  • TPR Repeat Protein 39A 3 4
  • C1orf34 3 4
  • DEME-6 3 4
  • Tetratricopeptide Repeat Protein 39A 3
  • Chromosome 1 Open Reading Frame 34 2
  • Testicular Tissue Protein Li 213 3
  • KIAA0452 4

External Ids for TTC39A Gene

Previous HGNC Symbols for TTC39A Gene

  • C1orf34

Previous GeneCards Identifiers for TTC39A Gene

  • GC01M051526
  • GC01M051752
  • GC01M049870

Summaries for TTC39A Gene

GeneCards Summary for TTC39A Gene

TTC39A (Tetratricopeptide Repeat Domain 39A) is a Protein Coding gene. An important paralog of this gene is TTC39B.

Additional gene information for TTC39A 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 TTC39A Gene

Genomics for TTC39A Gene

GeneHancer (GH) Regulatory Elements for TTC39A Gene

Promoters and enhancers for TTC39A 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
GH01I051328 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 550.4 +14.7 14662 3.4 HDGF FOXA2 PKNOX1 ARNT ARID4B SIN3A FEZF1 YY1 POLR2B ZNF766 TTC39A-AS1 TTC39A RNU6-877P LINC01562
GH01I051296 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 560.9 +47.8 47787 1.8 CLOCK ARID4B SIN3A ZNF48 YY1 ZNF766 GLIS2 ZNF213 ARID2 ZNF143 TTC39A GC01P051297 ENSG00000236434 RNU6-877P GC01P051316
GH01I051344 Promoter/Enhancer 1.1 EPDnew Ensembl 550.8 +0.0 40 1.8 CTCF RB1 CEBPB SIN3A REST ZEB2 ZNF830 CCNT2 POLR2A PRDM10 TTC39A TTC39A-AS1
GH01I051323 Promoter/Enhancer 0.8 EPDnew dbSUPER 561.9 +22.9 22879 0.1 ZNF24 TTC39A RNU6-877P ENSG00000236434 LOC105378717 GC01P051316
GH01I051303 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 11.4 +41.1 41134 1.2 BCOR JUN ZMYM3 EBF1 RELA GLIS2 NFATC1 ADNP ZSCAN29 NFE2 TTC39A ENSG00000236434 RNU6-877P EPS15 GC01P051297 GC01P051316
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TTC39A on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TTC39A gene promoter:

Genomic Locations for TTC39A Gene

Genomic Locations for TTC39A Gene
chr1:51,287,258-51,345,116
(GRCh38/hg38)
Size:
57,859 bases
Orientation:
Minus strand
chr1:51,752,930-51,810,788
(GRCh37/hg19)

Genomic View for TTC39A Gene

Genes around TTC39A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TTC39A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TTC39A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TTC39A Gene

Proteins for TTC39A Gene

  • Protein details for TTC39A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5SRH9-TT39A_HUMAN
    Recommended name:
    Tetratricopeptide repeat protein 39A
    Protein Accession:
    Q5SRH9
    Secondary Accessions:
    • B7Z782
    • E7EQY9
    • G3XAF8
    • O43417
    • O75040
    • Q5SRH5
    • Q5SRH6
    • Q5SRH7
    • Q5SRH8
    • Q5SRI0
    • Q5SRI1
    • Q5SRI2
    • Q5T7S1
    • Q6PIU8
    • Q9BT24

    Protein attributes for TTC39A Gene

    Size:
    613 amino acids
    Molecular mass:
    69778 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH28374.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=BAA32297.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=BAA32297.1; Type=Frameshift; Positions=373; Evidence={ECO:0000305};

    Alternative splice isoforms for TTC39A Gene

neXtProt entry for TTC39A Gene

Post-translational modifications for TTC39A Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for TTC39A Gene

Domains & Families for TTC39A Gene

Gene Families for TTC39A Gene

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

Protein Domains for TTC39A Gene

Suggested Antigen Peptide Sequences for TTC39A Gene

Graphical View of Domain Structure for InterPro Entry

Q5SRH9

UniProtKB/Swiss-Prot:

TT39A_HUMAN :
  • Belongs to the TTC39 family.
Family:
  • Belongs to the TTC39 family.
genes like me logo Genes that share domains with TTC39A: view

Function for TTC39A Gene

Phenotypes From GWAS Catalog for TTC39A Gene

Gene Ontology (GO) - Molecular Function for TTC39A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
genes like me logo Genes that share ontologies with TTC39A: view

Phenotypes for TTC39A Gene

GenomeRNAi human phenotypes for TTC39A:
genes like me logo Genes that share phenotypes with TTC39A: view

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TTC39A Gene

Localization for TTC39A Gene

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 TTC39A gene
Compartment Confidence
nucleus 3
cytoskeleton 2
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for TTC39A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
genes like me logo Genes that share ontologies with TTC39A: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for TTC39A Gene

Pathways & Interactions for TTC39A Gene

SuperPathways for TTC39A Gene

No Data Available

Gene Ontology (GO) - Biological Process for TTC39A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with TTC39A: view

No data available for Pathways by source and SIGNOR curated interactions for TTC39A Gene

Drugs & Compounds for TTC39A Gene

No Compound Related Data Available

Transcripts for TTC39A Gene

Unigene Clusters for TTC39A Gene

Tetratricopeptide repeat domain 39A:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TTC39A Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14a · 14b ^ 15 ^ 16a · 16b ^ 17a · 17b ^ 18 ^ 19 ^ 20 ^ 21 ^
SP1: - - - -
SP2: - - - - -
SP3: - - - - -
SP4: - - -
SP5: -
SP6: -
SP7: - -

ExUns: 22a · 22b · 22c
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:

Relevant External Links for TTC39A Gene

GeneLoc Exon Structure for
TTC39A
ECgene alternative splicing isoforms for
TTC39A

Expression for TTC39A Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TTC39A Gene

mRNA differential expression in normal tissues according to GTEx for TTC39A Gene

This gene is overexpressed in Testis (x7.9) and Kidney - Cortex (x5.8).

Protein differential expression in normal tissues from HIPED for TTC39A Gene

This gene is overexpressed in Stomach (20.5), Lung (18.8), and Islet of Langerhans (12.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TTC39A Gene



NURSA nuclear receptor signaling pathways regulating expression of TTC39A Gene:

TTC39A

SOURCE GeneReport for Unigene cluster for TTC39A Gene:

Hs.112949
genes like me logo Genes that share expression patterns with TTC39A: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for TTC39A Gene

Orthologs for TTC39A Gene

This gene was present in the common ancestor of animals.

Orthologs for TTC39A Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TTC39A 33 34
  • 99.06 (n)
cow
(Bos Taurus)
Mammalia TTC39A 33 34
  • 92.15 (n)
rat
(Rattus norvegicus)
Mammalia LOC100910316 33
  • 89.26 (n)
mouse
(Mus musculus)
Mammalia Ttc39a 33 16 34
  • 89.24 (n)
dog
(Canis familiaris)
Mammalia TTC39A 33 34
  • 88.68 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia TTC39A 34
  • 76 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TTC39A 34
  • 66 (a)
OneToOne
chicken
(Gallus gallus)
Aves TTC39A 33 34
  • 71.44 (n)
lizard
(Anolis carolinensis)
Reptilia TTC39A 34
  • 64 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ttc39a 33
  • 70.64 (n)
Str.9518 33
zebrafish
(Danio rerio)
Actinopterygii TTC39A (2 of 2) 34
  • 79 (a)
OneToMany
ttc39a 33 34
  • 68.31 (n)
worm
(Caenorhabditis elegans)
Secernentea C32D5.6 34
  • 36 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 40 (a)
OneToMany
Species where no ortholog for TTC39A 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)
  • fruit fly (Drosophila melanogaster)
  • 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 TTC39A Gene

ENSEMBL:
Gene Tree for TTC39A (if available)
TreeFam:
Gene Tree for TTC39A (if available)

Paralogs for TTC39A Gene

Paralogs for TTC39A Gene

(1) SIMAP similar genes for TTC39A Gene using alignment to 9 proteins:

genes like me logo Genes that share paralogs with TTC39A: view

Variants for TTC39A Gene

Sequence variations from dbSNP and Humsavar for TTC39A Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000121104 -- 51,304,705(-) C/T genic_upstream_transcript_variant, intron_variant
rs1000135695 -- 51,337,455(-) C/T genic_upstream_transcript_variant, intron_variant
rs1000142705 -- 51,299,194(-) G/T genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1000271809 -- 51,341,214(-) C/T genic_upstream_transcript_variant, intron_variant
rs1000335511 -- 51,312,679(-) C/G genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for TTC39A Gene

Variant ID Type Subtype PubMed ID
esv3586033 CNV loss 21293372

Variation tolerance for TTC39A Gene

Residual Variation Intolerance Score: 53.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.18; 23.85% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TTC39A Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TTC39A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TTC39A Gene

Disorders for TTC39A Gene

Additional Disease Information for TTC39A

No disorders were found for TTC39A Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TTC39A Gene

Publications for TTC39A Gene

  1. Differential screening and suppression subtractive hybridization identified genes differentially expressed in an estrogen receptor-positive breast carcinoma cell line. (PMID: 9461476) Kuang WW … Weigel RJ (Nucleic acids research 1998) 2 3 4 58
  2. Characterization of cDNA clones in size-fractionated cDNA libraries from human brain. (PMID: 9455484) Seki N … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1997) 2 3 4 58
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 58
  5. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 4 58

Products for TTC39A Gene

Sources for TTC39A Gene

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