U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

SPOCD1 SPOC domain containing 1 [ Homo sapiens (human) ]

Gene ID: 90853, updated on 3-May-2024

Summary

Official Symbol
SPOCD1provided by HGNC
Official Full Name
SPOC domain containing 1provided by HGNC
Primary source
HGNC:HGNC:26338
See related
Ensembl:ENSG00000134668 MIM:619038; AllianceGenome:HGNC:26338
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PPP1R146
Summary
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]
Expression
Biased expression in testis (RPKM 4.6), urinary bladder (RPKM 3.3) and 7 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Location:
1p35.2
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (31790422..31816022, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (31648071..31674002, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (32256023..32281623, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene adhesion G protein-coupled receptor B2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 574 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:32227559-32228412 Neighboring gene uncharacterized LOC124903930 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 576 Neighboring gene microRNA 4254 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:32253763-32254538 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 578 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 653 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 654 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 579 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:32303933-32304116 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 655 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 656 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 657 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 658 Neighboring gene uncharacterized LOC128031832 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:32389035-32389578 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 659 Neighboring gene protein tyrosine phosphatase 4A2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 660 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:32403472-32403643 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 581 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 661 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:32409768-32410302 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:32419864-32420642 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:32420643-32421419 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:32421420-32422197 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 665 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 666 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 667 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr1:32473819-32474378 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:32479704-32480274 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 583 Neighboring gene KH RNA binding domain containing, signal transduction associated 1 Neighboring gene VISTA enhancer hs645 Neighboring gene NANOG hESC enhancer GRCh37_chr1:32526442-32527054

Genomic regions, transcripts, and products

Expression

  • Project title: 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ25348, FLJ38873, FLJ39908

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in piRNA-mediated retrotransposon silencing by heterochromatin formation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in spermatogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
SPOC domain-containing protein 1
Names
protein phosphatase 1, regulatory subunit 146

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001281987.3NP_001268916.1  SPOC domain-containing protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001268916.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' terminal exon compared to variant 1. This results in a shorter protein (isoform 2) compared to isoform 1.
    Source sequence(s)
    AL354919
    Consensus CDS
    CCDS60066.1
    UniProtKB/Swiss-Prot
    Q6ZMY3
    Related
    ENSP00000435851.1, ENST00000533231.5
    Conserved Domains (2) summary
    pfam07500
    Location:608717
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:867965
    SPOC; SPOC domain
  2. NM_001281988.3NP_001268917.1  SPOC domain-containing protein 1 isoform 3

    See identical proteins and their annotated locations for NP_001268917.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 3' terminal exon, lacks an alternate exon in the 5' region and uses a downstream start codon compared to variant 1. The encoded isoform (3) has a shorter N-terminus compared to isoform 1.
    Source sequence(s)
    AL354919
    Consensus CDS
    CCDS72748.1
    UniProtKB/TrEMBL
    E9PPM7
    Related
    ENSP00000257100.3, ENST00000257100.7
    Conserved Domains (2) summary
    pfam07500
    Location:101211
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:353497
    SPOC; SPOC domain
  3. NM_001394397.1NP_001381326.1  SPOC domain-containing protein 1 isoform 4

    Status: REVIEWED

    Source sequence(s)
    AL354919
  4. NM_001394398.1NP_001381327.1  SPOC domain-containing protein 1 isoform 5

    Status: REVIEWED

    Source sequence(s)
    AL354919
  5. NM_001394399.1NP_001381328.1  SPOC domain-containing protein 1 isoform 6

    Status: REVIEWED

    Source sequence(s)
    AL354919
  6. NM_144569.7NP_653170.3  SPOC domain-containing protein 1 isoform 1

    See identical proteins and their annotated locations for NP_653170.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AL354919
    Consensus CDS
    CCDS347.1
    UniProtKB/Swiss-Prot
    Q24JU3, Q6PI90, Q6ZMY3, Q8N869, Q8N8U0, Q8NBC6, Q96LN6
    Related
    ENSP00000353670.2, ENST00000360482.7
    Conserved Domains (2) summary
    pfam07500
    Location:608717
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:867965
    SPOC; SPOC domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    31790422..31816022 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011542413.3XP_011540715.1  SPOC domain-containing protein 1 isoform X6

    See identical proteins and their annotated locations for XP_011540715.1

    UniProtKB/TrEMBL
    E9PPM7
    Conserved Domains (2) summary
    pfam07500
    Location:101211
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:353497
    SPOC; SPOC domain
  2. XM_047433825.1XP_047289781.1  SPOC domain-containing protein 1 isoform X5

  3. XM_047433811.1XP_047289767.1  SPOC domain-containing protein 1 isoform X2

  4. XM_017002782.2XP_016858271.1  SPOC domain-containing protein 1 isoform X4

    Conserved Domains (2) summary
    pfam07500
    Location:351460
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:610708
    SPOC; SPOC domain
  5. XM_017002781.2XP_016858270.1  SPOC domain-containing protein 1 isoform X3

    Conserved Domains (2) summary
    pfam07500
    Location:608715
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:825923
    SPOC; SPOC domain
  6. XM_017002779.2XP_016858268.1  SPOC domain-containing protein 1 isoform X1

    Conserved Domains (2) summary
    pfam07500
    Location:608717
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:866964
    SPOC; SPOC domain
  7. XM_047433838.1XP_047289794.1  SPOC domain-containing protein 1 isoform X7

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    31648071..31674002 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054339531.1XP_054195506.1  SPOC domain-containing protein 1 isoform X6

  2. XM_054339530.1XP_054195505.1  SPOC domain-containing protein 1 isoform X5

  3. XM_054339527.1XP_054195502.1  SPOC domain-containing protein 1 isoform X2

  4. XM_054339529.1XP_054195504.1  SPOC domain-containing protein 1 isoform X4

  5. XM_054339528.1XP_054195503.1  SPOC domain-containing protein 1 isoform X3

  6. XM_054339526.1XP_054195501.1  SPOC domain-containing protein 1 isoform X1

  7. XM_054339532.1XP_054195507.1  SPOC domain-containing protein 1 isoform X7