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SINHCAF SIN3-HDAC complex associated factor [ Homo sapiens (human) ]

Gene ID: 58516, updated on 11-Apr-2024

Summary

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Official Symbol
SINHCAFprovided by HGNC
Official Full Name
SIN3-HDAC complex associated factorprovided by HGNC
Primary source
HGNC:HGNC:30702
See related
Ensembl:ENSG00000139146 MIM:615027; AllianceGenome:HGNC:30702
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
L4; TERA; FAM60A; C12orf14
Summary
Involved in negative regulation of cell migration. Part of Sin3 complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in endometrium (RPKM 24.9), lymph node (RPKM 18.1) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
12p11.21
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (31280584..31326150, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (31157116..31202680, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (31433518..31479084, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene ribosomal protein S3A pseudogene Neighboring gene Sharpr-MPRA regulatory region 11157 Neighboring gene melanoregulin pseudogene 1 Neighboring gene uncharacterized LOC124903109 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:31478173-31479104 Neighboring gene uncharacterized LOC79857 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:31517453-31517952 Neighboring gene U6 spliceosomal RNA Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:31523276-31523883 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:31523884-31524492 Neighboring gene long intergenic non-protein coding RNA 2387 Neighboring gene DENN domain containing 5B Neighboring gene RNA, U6 small nuclear 618, 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
  • 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. SIN3-HDAC complex-associated factor, a chromatin remodelling gene located in the 12p amplicon, is a potential germ cell tumour-specific oncogene. Jhuang YL, et al. J Pathol, 2022 Dec. PMID 36056608
  2. Restraint of FAM60A has a cancer-inhibiting role in pancreatic carcinoma via the effects on the Akt/GSK-3β/β-catenin signaling pathway. Zhang Y, et al. Environ Toxicol, 2022 Jun. PMID 35213078
  3. [Research Progress of FAM60A in the Regulation of Cellular Function]. Sun YH, et al. Zhongguo Yi Xue Ke Xue Yuan Xue Bao, 2021 Jun 30. PMID 34238425
  4. FAM60A promotes cisplatin resistance in lung cancer cells by activating SKP2 expression. Hou Q, et al. Anticancer Drugs, 2020 Sep. PMID 32796403
  5. FAM60A, increased by Helicobacter pylori, promotes proliferation and suppresses apoptosis of gastric cancer cells by targeting the PI3K/AKT pathway. Yao X, et al. Biochem Biophys Res Commun, 2020 Jan 22. PMID 31727367

See all (48) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SIN3-HDAC complex-associated factor, a chromatin remodelling gene located in the 12p amplicon, is a potential germ cell tumour-specific oncogene.
    Title: SIN3-HDAC complex-associated factor, a chromatin remodelling gene located in the 12p amplicon, is a potential germ cell tumour-specific oncogene.
  2. Restraint of FAM60A has a cancer-inhibiting role in pancreatic carcinoma via the effects on the Akt/GSK-3beta/beta-catenin signaling pathway.
    Title: Restraint of FAM60A has a cancer-inhibiting role in pancreatic carcinoma via the effects on the Akt/GSK-3β/β-catenin signaling pathway.
  3. [Research Progress of FAM60A in the Regulation of Cellular Function].
    Title: [Research Progress of FAM60A in the Regulation of Cellular Function].
  4. FAM60A promotes cisplatin resistance in lung cancer cells by activating SKP2 expression.
    Title: FAM60A promotes cisplatin resistance in lung cancer cells by activating SKP2 expression.
  5. FAM60A act as a carcinogen and suggests that H. pylori-induced upregulation of FAM60A may contribute to the development of gastric cancer.
    Title: FAM60A, increased by Helicobacter pylori, promotes proliferation and suppresses apoptosis of gastric cancer cells by targeting the PI3K/AKT pathway.
  6. SINHCAF specifically represses HIF-2alpha mRNA and protein expression, via its interaction with the transcription factor SP1 (specificity protein 1) and recruitment of HDAC1 to the HIF-2alpha promoter.
    Title: SINHCAF/FAM60A and SIN3A specifically repress HIF-2α expression.
  7. FAM60A may act as a key transcriptional factor to regulate genes that are correlated with each cell cycle of tumor cells in esophageal cancer.
    Title: Integrative analysis of copy number and transcriptional expression profiles in esophageal cancer to identify a novel driver gene for therapy.
  8. studies reveal that loss of FAM60A or another component of the Sin3 complex, SDS3, leads to a change in cell morphology and an increase in cell migration
    Title: Human family with sequence similarity 60 member A (FAM60A) protein: a new subunit of the Sin3 deacetylase complex.
  9. Family with sequence similarity 60A (FAM60A) protein is a cell cycle-fluctuating regulator of the SIN3-HDAC1 histone deacetylase complex.
    Title: Family with sequence similarity 60A (FAM60A) protein is a cell cycle-fluctuating regulator of the SIN3-HDAC1 histone deacetylase complex.
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

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

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 negative regulation of cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of cell migration IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of cell migration NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in negative regulation of stem cell population maintenance NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in negative regulation of transforming growth factor beta receptor signaling pathway NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in positive regulation of cell population proliferation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of stem cell population maintenance NAS
Non-traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
part_of Sin3-type complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of Sin3-type complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus NAS
Non-traceable Author Statement
more info
 PubMed 

General protein information

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Preferred Names
SIN3-HDAC complex-associated factor
Names
family with sequence similarity 60 member A
protein FAM60A
tera protein homolog

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_001135811.2 → NP_001129283.1  SIN3-HDAC complex-associated factor

    See identical proteins and their annotated locations for NP_001129283.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2, and 3 encode the same protein.
    Source sequence(s)
    AF087885, BC000024, BC004462, DR763430
    Consensus CDS
    CCDS8723.1
    UniProtKB/Swiss-Prot
    D3DUV8, Q9BSZ8, Q9NP50
    UniProtKB/TrEMBL
    B7Z287
    Conserved Domains (1) summary
    pfam15396
    Location:2 → 198
    FAM60A; Protein Family FAM60A

  2. NM_001135812.2 → NP_001129284.1  SIN3-HDAC complex-associated factor

    See identical proteins and their annotated locations for NP_001129284.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks a segment in the 5' UTR, compared to variant 1. Variants 1, 2, and 3 encode the same protein.
    Source sequence(s)
    AK026932, BC004462, DA741767, DR763430
    Consensus CDS
    CCDS8723.1
    UniProtKB/Swiss-Prot
    D3DUV8, Q9BSZ8, Q9NP50
    UniProtKB/TrEMBL
    B7Z287
    Related
    ENSP00000337477.4, ENST00000337682.9
    Conserved Domains (1) summary
    pfam15396
    Location:2 → 198
    FAM60A; Protein Family FAM60A

  3. NM_021238.3 → NP_067061.1  SIN3-HDAC complex-associated factor

    See identical proteins and their annotated locations for NP_067061.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses a different splice site in the 5' UTR, compared to variant 1. Variants 1, 2, and 3 encode the same protein.
    Source sequence(s)
    BC000024, BC004462, DR763430
    Consensus CDS
    CCDS8723.1
    UniProtKB/Swiss-Prot
    D3DUV8, Q9BSZ8, Q9NP50
    UniProtKB/TrEMBL
    B7Z287
    Conserved Domains (1) summary
    pfam15396
    Location:2 → 198
    FAM60A; Protein Family FAM60A

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_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    31280584..31326150 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017019762.3 → XP_016875251.1  SIN3-HDAC complex-associated factor isoform X1

    UniProtKB/Swiss-Prot
    D3DUV8, Q9BSZ8, Q9NP50
    UniProtKB/TrEMBL
    B7Z287
    Conserved Domains (1) summary
    pfam15396
    Location:2 → 198
    FAM60A; Protein Family FAM60A

  2. XM_047429272.1 → XP_047285228.1  SIN3-HDAC complex-associated factor isoform X1

    UniProtKB/Swiss-Prot
    D3DUV8, Q9BSZ8, Q9NP50

  3. XM_011520803.3 → XP_011519105.2  SIN3-HDAC complex-associated factor isoform X1

    UniProtKB/Swiss-Prot
    D3DUV8, Q9BSZ8, Q9NP50
    Related
    ENSP00000393279.2, ENST00000454658.6

Reference GRCh38.p14 ALT_REF_LOCI_1

Genomic

  1. NT_187587.1 Reference GRCh38.p14 ALT_REF_LOCI_1

    Range
    171378..216944 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054328933.1 → XP_054184908.1  SIN3-HDAC complex-associated factor isoform X1

    UniProtKB/Swiss-Prot
    D3DUV8, Q9BSZ8, Q9NP50

  2. XM_054328932.1 → XP_054184907.1  SIN3-HDAC complex-associated factor isoform X1

    UniProtKB/Swiss-Prot
    D3DUV8, Q9BSZ8, Q9NP50

  3. XM_054328931.1 → XP_054184906.1  SIN3-HDAC complex-associated factor isoform X2

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    31157116..31202680 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054372776.1 → XP_054228751.1  SIN3-HDAC complex-associated factor isoform X1

    UniProtKB/Swiss-Prot
    D3DUV8, Q9BSZ8, Q9NP50

  2. XM_054372775.1 → XP_054228750.1  SIN3-HDAC complex-associated factor isoform X1

    UniProtKB/Swiss-Prot
    D3DUV8, Q9BSZ8, Q9NP50

  3. XM_054372774.1 → XP_054228749.1  SIN3-HDAC complex-associated factor isoform X3

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9NP50.1 GenPept UniProtKB/Swiss-Prot:Q9NP50

Gene LinkOut

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