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SPINDOC spindlin interactor and repressor of chromatin binding [ Homo sapiens (human) ]

Gene ID: 144097, updated on 3-Nov-2024

Summary

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Official Symbol
SPINDOCprovided by HGNC
Official Full Name
spindlin interactor and repressor of chromatin bindingprovided by HGNC
Primary source
HGNC:HGNC:25115
See related
Ensembl:ENSG00000168005 AllianceGenome:HGNC:25115
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
C11orf84; SPIN-DOC
Summary
Involved in DNA damage response and negative regulation of DNA-templated transcription. Is active in nucleus and site of DNA damage. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in testis (RPKM 9.7), placenta (RPKM 7.2) and 23 other tissues See more
Orthologs
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Genomic context

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See SPINDOC in Genome Data Viewer
Location:
11q13.1
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (63813456..63827716)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (63802814..63817077)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (63580928..63595188)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr11:63529087-63529846 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3442 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3443 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3444 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3445 Neighboring gene zinc finger translocation associated Neighboring gene RNA, 7SL, cytoplasmic 596, pseudogene Neighboring gene Sharpr-MPRA regulatory region 949 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3446 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:63598793-63599010 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63599819-63600638 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63605268-63606256 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4875 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3447 Neighboring gene ATP synthase membrane subunit g pseudogene 1 Neighboring gene microtubule affinity regulating kinase 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4876 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4877 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:63642729-63643230 Neighboring gene RNA, U6 small nuclear 1306, pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Molecular Basis for SPINDOC-Spindlin1 Engagement and Its Role in Transcriptional Attenuation. Zhao F, et al. J Mol Biol, 2024 Apr 1. PMID 37977297
  2. Spindlin docking protein (SPIN.DOC) interaction with SPIN1 (a histone code reader) regulates Wnt signaling. Devi MS, et al. Biochem Biophys Res Commun, 2019 Apr 9. PMID 30803761
  3. SPINDOC binds PARP1 to facilitate PARylation. Yang F, et al. Nat Commun, 2021 Nov 4. PMID 34737271, Free PMC Article
  4. Family-based genome-wide association study of frontal θ oscillations identifies potassium channel gene KCNJ6. Kang SJ, et al. Genes Brain Behav, 2012 Aug. PMID 22554406, Free PMC Article
  5. A transcriptional coregulator, SPIN·DOC, attenuates the coactivator activity of Spindlin1. Bae N, et al. J Biol Chem, 2017 Dec 22. PMID 29061846, Free PMC Article

See all (50) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Molecular Basis for SPINDOC-Spindlin1 Engagement and Its Role in Transcriptional Attenuation.
    Title: Molecular Basis for SPINDOC-Spindlin1 Engagement and Its Role in Transcriptional Attenuation.
  2. SPINDOC binds PARP1 to facilitate PARylation.
    Title: SPINDOC binds PARP1 to facilitate PARylation.
  3. SPINDOC Interacts with SPIN1 in DNA independent manner. SPINDOC regulates expression and chromatin loading of SPIN1.
    Title: Spindlin docking protein (SPIN.DOC) interaction with SPIN1 (a histone code reader) regulates Wnt signaling.
  4. identified SPIN.DOC as a transcriptional repressor that binds SPIN1 and masks its ability to engage the H3-Lys-4 trimethylation activation mark
    Title: A transcriptional coregulator, SPIN·DOC, attenuates the coactivator activity of Spindlin1.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Family-based genome-wide association study of frontal θ oscillations identifies potassium channel gene KCNJ6.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • DKFZp762N0114

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in DNA damage response IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of protein ADP-ribosylation IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
is_active_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in site of DNA damage IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
spindlin interactor and repressor of chromatin-binding protein
Names
SPIN1 docking protein
hypothetical protein BC007540
uncharacterized protein C11orf84

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_138471.3 → NP_612480.1  spindlin interactor and repressor of chromatin-binding protein

    See identical proteins and their annotated locations for NP_612480.1

    Status: VALIDATED

    Source sequence(s)
    BC002782, HY013538
    Consensus CDS
    CCDS31594.1
    UniProtKB/Swiss-Prot
    Q68CV7, Q6PHS2, Q96IH0, Q9BUA3
    Related
    ENSP00000294244.3, ENST00000294244.9

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    63813456..63827716
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006718437.2 → XP_006718500.1  spindlin interactor and repressor of chromatin-binding protein isoform X2

    Conserved Domains (1) summary
    pfam18658
    Location:70 → 134
    zf-C2H2_12; Zinc-finger C2H2-type

  2. XM_011544770.2 → XP_011543072.1  spindlin interactor and repressor of chromatin-binding protein isoform X1

    Conserved Domains (1) summary
    pfam18658
    Location:70 → 134
    zf-C2H2_12; Zinc-finger C2H2-type

  3. XM_011544772.2 → XP_011543074.1  spindlin interactor and repressor of chromatin-binding protein isoform X4

    Conserved Domains (1) summary
    pfam18658
    Location:70 → 134
    zf-C2H2_12; Zinc-finger C2H2-type

  4. XM_011544771.2 → XP_011543073.1  spindlin interactor and repressor of chromatin-binding protein isoform X3

    Conserved Domains (1) summary
    pfam18658
    Location:70 → 134
    zf-C2H2_12; Zinc-finger C2H2-type

  5. XM_047426423.1 → XP_047282379.1  spindlin interactor and repressor of chromatin-binding protein isoform X5

  6. XM_047426424.1 → XP_047282380.1  spindlin interactor and repressor of chromatin-binding protein isoform X7

  7. XM_005273782.4 → XP_005273839.1  spindlin interactor and repressor of chromatin-binding protein isoform X6

    Conserved Domains (1) summary
    pfam18658
    Location:70 → 134
    zf-C2H2_12; Zinc-finger C2H2-type

  8. XM_047426425.1 → XP_047282381.1  spindlin interactor and repressor of chromatin-binding protein isoform X8

RNA

  1. XR_007062453.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    63802814..63817077
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054367768.1 → XP_054223743.1  spindlin interactor and repressor of chromatin-binding protein isoform X1

  2. XM_054367771.1 → XP_054223746.1  spindlin interactor and repressor of chromatin-binding protein isoform X4

  3. XM_054367770.1 → XP_054223745.1  spindlin interactor and repressor of chromatin-binding protein isoform X3

  4. XM_054367774.1 → XP_054223749.1  spindlin interactor and repressor of chromatin-binding protein isoform X7

  5. XM_054367769.1 → XP_054223744.1  spindlin interactor and repressor of chromatin-binding protein isoform X2

  6. XM_054367772.1 → XP_054223747.1  spindlin interactor and repressor of chromatin-binding protein isoform X5

  7. XM_054367773.1 → XP_054223748.1  spindlin interactor and repressor of chromatin-binding protein isoform X6

  8. XM_054367775.1 → XP_054223750.1  spindlin interactor and repressor of chromatin-binding protein isoform X8

RNA

  1. XR_008488345.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9BUA3.3 GenPept UniProtKB/Swiss-Prot:Q9BUA3

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