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Aliases for SPOCD1 Gene

Aliases for SPOCD1 Gene

  • SPOC Domain Containing 1 2 3 5
  • Protein Phosphatase 1, Regulatory Subunit 146 2 3
  • SPOC Domain-Containing Protein 1 3
  • PPP1R146 3

External Ids for SPOCD1 Gene

Previous GeneCards Identifiers for SPOCD1 Gene

  • GC01M031926
  • GC01M032028
  • GC01M032256
  • GC01M030373

Summaries for SPOCD1 Gene

Entrez Gene Summary for SPOCD1 Gene

  • This gene encodes a protein that belongs to the TFIIS family of transcription factors. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Aug 2013]

GeneCards Summary for SPOCD1 Gene

SPOCD1 (SPOC Domain Containing 1) is a Protein Coding gene. An important paralog of this gene is PHF3.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SPOCD1 Gene

Genomics for SPOCD1 Gene

Regulatory Elements for SPOCD1 Gene

Enhancers for SPOCD1 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
GH01F031825 1.4 Ensembl ENCODE 8.8 -11.5 -11475 3.3 HDGF PKNOX1 ARNT CREB3L1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF766 SNRNP40 LOC105378626 ENSG00000229447 TSSK3 LOC400748 MTMR9LP ENSG00000224066 EIF3I FAM167B HDAC1
GH01F031845 1.5 FANTOM5 Ensembl ENCODE 6.9 -31.8 -31822 5.0 HDGF YBX3 CBX3 ARNT PTRF CHAMP1 RARA ZNF121 ZNF366 ZNF263 PTP4A2 MTMR9LP SPOCD1 LCK SYNC ENSG00000203620
GH01F031711 1.8 FANTOM5 Ensembl ENCODE 5.1 +102.2 102245 4.8 HDGF PKNOX1 ARNT CREB3L1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 ADGRB2 ENSG00000224066 DCDC2B IQCC PEF1 ENSG00000235790 LOC105378626 TINAGL1 SERINC2 COL16A1
GH01F031815 1.1 ENCODE 6.8 0.0 -8 1.2 PKNOX1 ARNT MLX ARID4B ZNF143 ZNF207 KLF13 ZNF263 SP3 SP5 SNRNP40 TSSK3 EIF3I ENSG00000229447 SPOCD1 ENSG00000203620
GH01F031842 1.2 Ensembl ENCODE 6.2 -27.6 -27607 1.5 HDAC1 PKNOX1 ARNT ZBTB40 CHAMP1 YY1 ZNF121 SMARCA5 CEBPB NCOA1 PTP4A2 PEF1 SPOCD1 SYNC ENSG00000203620
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SPOCD1 on UCSC Golden Path with GeneCards custom track

Promoters for SPOCD1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001743446 151 601 PKNOX1 ARNT MLX ARID4B ZNF143 ZNF207 KLF13 ZNF263 SP3 SP5

Genomic Location for SPOCD1 Gene

Chromosome:
1
Start:
31,790,422 bp from pter
End:
31,816,051 bp from pter
Size:
25,630 bases
Orientation:
Minus strand

Genomic View for SPOCD1 Gene

Genes around SPOCD1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SPOCD1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SPOCD1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SPOCD1 Gene

Proteins for SPOCD1 Gene

  • Protein details for SPOCD1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6ZMY3-SPOC1_HUMAN
    Recommended name:
    SPOC domain-containing protein 1
    Protein Accession:
    Q6ZMY3
    Secondary Accessions:
    • Q24JU3
    • Q6PI90
    • Q8N869
    • Q8N8U0
    • Q8NBC6
    • Q96LN6

    Protein attributes for SPOCD1 Gene

    Size:
    1216 amino acids
    Molecular mass:
    130027 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH39870.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAB71652.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAC04981.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for SPOCD1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SPOCD1 Gene

Post-translational modifications for SPOCD1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SPOCD1 Gene

Domains & Families for SPOCD1 Gene

Gene Families for SPOCD1 Gene

Protein Domains for SPOCD1 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for SPOCD1 Gene

Graphical View of Domain Structure for InterPro Entry

Q6ZMY3

UniProtKB/Swiss-Prot:

SPOC1_HUMAN :
  • Contains 1 SPOC domain.
Domain:
  • Contains 1 SPOC domain.
  • Contains 1 TFIIS central domain.
genes like me logo Genes that share domains with SPOCD1: view

Function for SPOCD1 Gene

Phenotypes for SPOCD1 Gene

genes like me logo Genes that share phenotypes with SPOCD1: view

Animal Model Products

miRNA for SPOCD1 Gene

Inhibitory RNA Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SPOCD1 Gene

Localization for SPOCD1 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 SPOCD1 gene
Compartment Confidence
nucleus 4
cytosol 3

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for SPOCD1 Gene

Pathways & Interactions for SPOCD1 Gene

SuperPathways for SPOCD1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SPOCD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0010923 negative regulation of phosphatase activity IDA 19389623
genes like me logo Genes that share ontologies with SPOCD1: view

No data available for Pathways by source and SIGNOR curated interactions for SPOCD1 Gene

Transcripts for SPOCD1 Gene

Unigene Clusters for SPOCD1 Gene

SPOC domain containing 1:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SPOCD1 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8 ^ 9a · 9b · 9c · 9d · 9e · 9f · 9g ^ 10 ^ 11a · 11b · 11c ^ 12a · 12b ^
SP1: - - - - - - - - - - - -
SP2: - - - - - - - - -
SP3: - -
SP4: - -
SP5: - - - - - - - - - -
SP6: - - - - - -
SP7: - -
SP8: - - - -
SP9: - - - - -
SP10: - - - -
SP11:
SP12: - - -
SP13: - -
SP14:
SP15: -

ExUns: 13a · 13b · 13c ^ 14 ^ 15a · 15b ^ 16 ^ 17 ^ 18a · 18b
SP1: -
SP2:
SP3: - - - -
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:
SP15:

Relevant External Links for SPOCD1 Gene

GeneLoc Exon Structure for
SPOCD1
ECgene alternative splicing isoforms for
SPOCD1

Expression for SPOCD1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SPOCD1 Gene

mRNA differential expression in normal tissues according to GTEx for SPOCD1 Gene

This gene is overexpressed in Testis (x5.8) and Bladder (x4.1).

Protein differential expression in normal tissues from HIPED for SPOCD1 Gene

This gene is overexpressed in Pancreatic juice (31.4), Testis (29.1), and Adipocyte (8.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SPOCD1 Gene



Protein tissue co-expression partners for SPOCD1 Gene

NURSA nuclear receptor signaling pathways regulating expression of SPOCD1 Gene:

SPOCD1

SOURCE GeneReport for Unigene cluster for SPOCD1 Gene:

Hs.62604
genes like me logo Genes that share expression patterns with SPOCD1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for SPOCD1 Gene

Orthologs for SPOCD1 Gene

This gene was present in the common ancestor of animals.

Orthologs for SPOCD1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SPOCD1 34 35
  • 99 (n)
dog
(Canis familiaris)
Mammalia SPOCD1 34 35
  • 79.37 (n)
cow
(Bos Taurus)
Mammalia SPOCD1 34 35
  • 76.28 (n)
rat
(Rattus norvegicus)
Mammalia Spocd1 34
  • 73.5 (n)
mouse
(Mus musculus)
Mammalia Spocd1 34 16 35
  • 68.4 (n)
oppossum
(Monodelphis domestica)
Mammalia SPOCD1 35
  • 22 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SPOCD1 35
  • 21 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SPOCD1 35
  • 28 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta pps 35
  • 7 (a)
OneToMany
Species where no ortholog for SPOCD1 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)
  • chicken (Gallus gallus)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for SPOCD1 Gene

ENSEMBL:
Gene Tree for SPOCD1 (if available)
TreeFam:
Gene Tree for SPOCD1 (if available)

Paralogs for SPOCD1 Gene

Paralogs for SPOCD1 Gene

(2) SIMAP similar genes for SPOCD1 Gene using alignment to 9 proteins:

genes like me logo Genes that share paralogs with SPOCD1: view

Variants for SPOCD1 Gene

Sequence variations from dbSNP and Humsavar for SPOCD1 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
VAR_035660 A breast cancer sample
rs10798890 -- 31,803,257(+) AAAAC(C/T)ACAAA intron-variant
rs10798891 -- 31,803,270(+) ACAAC(C/T)GGGCA intron-variant
rs10914480 -- 31,803,093(+) CAGGG(C/G)TCCTA intron-variant
rs111285027 -- 31,812,623(+) GCCTC(A/C)GTGTT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SPOCD1 Gene

Variant ID Type Subtype PubMed ID
esv2758930 CNV loss 17122850
esv3303073 CNV tandem duplication 20981092
esv3560349 CNV deletion 23714750
nsv1007390 CNV gain 25217958
nsv1007786 CNV gain 25217958
nsv1133129 CNV tandem duplication 24896259
nsv160616 CNV insertion 16902084
nsv822242 CNV loss 20364138
nsv950385 CNV deletion 24416366
esv2517616 CNV insertion 19546169

Variation tolerance for SPOCD1 Gene

Residual Variation Intolerance Score: 49.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 10.66; 91.41% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SPOCD1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SPOCD1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SPOCD1 Gene

Disorders for SPOCD1 Gene

Relevant External Links for SPOCD1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SPOCD1

No disorders were found for SPOCD1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SPOCD1 Gene

Publications for SPOCD1 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  2. 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 64
  3. Identification of the human testis protein phosphatase 1 interactome. (PMID: 21382349) Fardilha M. … da Cruz e Silva E.F. (Biochem. Pharmacol. 2011) 3 64
  4. Docking motif-guided mapping of the interactome of protein phosphatase-1. (PMID: 19389623) Hendrickx A. … Bollen M. (Chem. Biol. 2009) 3 64
  5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 3 64

Products for SPOCD1 Gene

Sources for SPOCD1 Gene

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