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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 DIDO1.

Additional gene information for SPOCD1 Gene

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

Genomics for SPOCD1 Gene

GeneHancer (GH) Regulatory Elements for SPOCD1 Gene

Promoters and enhancers for SPOCD1 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
GH01J031815 Enhancer 1.5 Ensembl ENCODE dbSUPER 656.8 0.0 -8 1.2 HDGF PKNOX1 MLX ARNT ARID4B SIN3A CBX5 ZNF213 E2F8 ZNF207 SPOCD1 SNRNP40 TSSK3 TXLNA RBBP4 KHDRBS1 ENSG00000229447 EIF3I ZBTB8B ENSG00000228634
GH01J031814 Enhancer 0.4 dbSUPER 657.1 +1.3 1284 0.6 GLIS1 RCOR1 ZIC2 SPOCD1 ENSG00000254545
GH01J031817 Enhancer 0.4 Ensembl 657 -1.3 -1250 0.2 RUNX3 SPI1 SPOCD1 ENSG00000203620
GH01J031825 Enhancer 1.4 Ensembl ENCODE dbSUPER 8.8 -11.2 -11211 2.8 HDGF PKNOX1 SMAD1 ATF1 ARNT NCOA2 TCF12 ZNF766 GATA2 E2F8 SNRNP40 TSSK3 TXLNA RBBP4 TMEM39B KHDRBS1 FAM229A SPOCD1 ENSG00000203620
GH01J031924 Promoter/Enhancer 2.4 FANTOM5 Ensembl ENCODE dbSUPER 4.2 -119.8 -119782 22.1 CLOCK MLX ZFP64 YBX1 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 GC01P031934 TXLNA SNRNP40 KHDRBS1 RBBP4 ENSG00000229447 TSSK3 ZBTB8A TMEM39B PUM1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SPOCD1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for SPOCD1 Gene

Genomic Locations for SPOCD1 Gene
chr1:31,790,422-31,816,051
(GRCh38/hg38)
Size:
25,630 bases
Orientation:
Minus strand
chr1:32,256,023-32,281,652
(GRCh37/hg19)
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

Blocks:
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SPOCD1 Gene

Graphical View of Domain Structure for InterPro Entry

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

No data available for UniProtKB/Swiss-Prot for SPOCD1 Gene

Function for SPOCD1 Gene

Phenotypes From GWAS Catalog for SPOCD1 Gene

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

Animal Model Products

CRISPR Products

miRNA for SPOCD1 Gene

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SPOCD1

Clone 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

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoli (2)
  • Nucleus (2)
See all subcellular structures

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

Drugs & Compounds for SPOCD1 Gene

No Compound Related Data Available

Transcripts for SPOCD1 Gene

Unigene Clusters for SPOCD1 Gene

SPOC domain containing 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SPOCD1

Clone 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 CGAP 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 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

Evidence on tissue expression from TISSUES for SPOCD1 Gene

  • Nervous system(4.4)
  • Spleen(4)
genes like me logo Genes that share expression patterns with SPOCD1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer 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 33
  • 99 (n)
OneToOne
dog
(Canis familiaris)
Mammalia SPOCD1 34 33
  • 79.37 (n)
OneToOne
cow
(Bos Taurus)
Mammalia SPOCD1 34 33
  • 76.28 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Spocd1 33
  • 73.5 (n)
mouse
(Mus musculus)
Mammalia Spocd1 16 34 33
  • 68.4 (n)
oppossum
(Monodelphis domestica)
Mammalia SPOCD1 34
  • 22 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SPOCD1 34
  • 21 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SPOCD1 34
  • 28 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta pps 34
  • 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)
Aminode:
Evolutionary constrained regions (ECRs) for SPOCD1: view image

Paralogs for SPOCD1 Gene

Paralogs for SPOCD1 Gene

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

  • SPOC1_HUMAN
  • A6NLX9_HUMAN
  • E9PKC3_HUMAN
  • E9PMX0_HUMAN
  • E9PPM7_HUMAN
  • E9PQH7_HUMAN
  • H0YF46_HUMAN
  • Q05C62_HUMAN
  • Q96I05_HUMAN
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 Variation AA Info Type
VAR_035660 A breast cancer sample p.Arg671Trp
rs1000002055 -- 31,803,340(-) A/G intron_variant
rs1000021286 -- 31,799,323(-) A/T intron_variant
rs1000021424 -- 31,796,838(-) A/G intron_variant
rs1000081534 -- 31,798,001(-) C/T intron_variant

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

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

Additional Variant Information 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

Additional Disease Information for 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 (Nature genetics 2004) 3 4 58
  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 58
  3. Human gingiva transcriptome during wound healing. (PMID: 28005267) Wang Y … Tatakis DN (Journal of clinical periodontology 2017) 3 58
  4. Exome Array Analysis Identifies Variants in SPOCD1 and BTN3A2 That Affect Risk for Gastric Cancer. (PMID: 28246015) Zhu M … Jin G (Gastroenterology 2017) 3 58
  5. Identification of the human testis protein phosphatase 1 interactome. (PMID: 21382349) Fardilha M … da Cruz e Silva EF (Biochemical pharmacology 2011) 3 58

Products for SPOCD1 Gene

Sources for SPOCD1 Gene

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