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    SCRT1 scratch family transcriptional repressor 1 [ Homo sapiens (human) ]

    Gene ID: 83482, updated on 27-Nov-2024

    Summary

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    Official Symbol
    SCRT1provided by HGNC
    Official Full Name
    scratch family transcriptional repressor 1provided by HGNC
    Primary source
    HGNC:HGNC:15950
    See related
    Ensembl:ENSG00000261678 MIM:605858; AllianceGenome:HGNC:15950
    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
    SCRT; ZNF898
    Summary
    This gene encodes a C2H2-type zinc finger transcriptional repressor that binds to E-box motifs. The encoded protein may promote neural differention and may be involved in cancers with neuroendocrine features. [provided by RefSeq, Jul 2013]
    Expression
    Biased expression in brain (RPKM 4.1), adrenal (RPKM 0.6) and 1 other tissue See more
    Orthologs
    mouse all
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    Genomic context

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    See SCRT1 in Genome Data Viewer
    Location:
    8q24.3
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (144330565..144336482, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (145499200..145505117, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (145554228..145560144, complement)

    Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene heat shock transcription factor 1 Neighboring gene uncharacterized LOC124902050 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28092 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28093 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:145543593-145544435 Neighboring gene diacylglycerol O-acyltransferase 1 Neighboring gene microRNA 6848 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28094 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19672 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19673 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:145555531-145556238 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:145556239-145556947 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:145556948-145557655 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:145558559-145559174 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:145559298-145559484 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:145566939-145567080 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19675 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:145579988-145580524 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19676 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19677 Neighboring gene transmembrane protein 249 Neighboring gene F-box and leucine rich repeat protein 6

    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. Scrt1, a transcriptional regulator of β-cell proliferation identified by differential chromatin accessibility during islet maturation. Sobel J, et al. Sci Rep, 2021 Apr 22. PMID 33888791, Free PMC Article
    2. SCRT1 is a novel beta cell transcription factor with insulin regulatory properties. Chriett S, et al. Mol Cell Endocrinol, 2021 Feb 5. PMID 33309639
    3. The SNAIL family member SCRATCH1 is not expressed in human tumors. Bastid J, et al. Oncol Rep, 2010 Feb. PMID 20043117
    4. Mammalian Scratch participates in neuronal differentiation in P19 embryonal carcinoma cells. Nakakura EK, et al. Brain Res Mol Brain Res, 2001 Nov 1. PMID 11687288
    5. Long non-coding RNA TCL6 induced by SCRT1 promotes proliferation and metastasis of non-small cell lung cancer through PDK1/AKT signaling. Chen Y, et al. Pathol Res Pract, 2023 Jun. PMID 37141697

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Long non-coding RNA TCL6 induced by SCRT1 promotes proliferation and metastasis of non-small cell lung cancer through PDK1/AKT signaling.
      Title: Long non-coding RNA TCL6 induced by SCRT1 promotes proliferation and metastasis of non-small cell lung cancer through PDK1/AKT signaling.
    2. Scrt1, a transcriptional regulator of beta-cell proliferation identified by differential chromatin accessibility during islet maturation.
      Title: Scrt1, a transcriptional regulator of β-cell proliferation identified by differential chromatin accessibility during islet maturation.
    3. SCRT1 is a novel beta cell transcription factor with insulin regulatory properties.
      Title: SCRT1 is a novel beta cell transcription factor with insulin regulatory properties.
    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
    Common genetic variants associated with cognitive performance identified using the proxy-phenotype method.
    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)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • DKFZp547F072

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables sequence-specific double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of DNA-templated transcription TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of neuron migration IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nuclear body IDA
    Inferred from Direct Assay
    more info
    		  

    General protein information

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    Preferred Names
    transcriptional repressor scratch 1
    Names
    scratch family zinc finger 1
    scratch homolog 1, zinc finger protein

    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_031309.6 → NP_112599.2  transcriptional repressor scratch 1

      See identical proteins and their annotated locations for NP_112599.2

      Status: REVIEWED

      Source sequence(s)
      AC233992
      Consensus CDS
      CCDS6421.1
      UniProtKB/Swiss-Prot
      A8MX66, Q96C52, Q9BWW7
      Related
      ENSP00000455711.1, ENST00000569446.3
      Conserved Domains (2) summary
      COG5048
      Location:245 → 313
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:250 → 270
      ZF_C2H2; C2H2 Zn finger [structural motif]

    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_000008.11 Reference GRCh38.p14 Primary Assembly

      Range
      144330565..144336482 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_024447291.2 → XP_024303059.1  transcriptional repressor scratch 1 isoform X1

      Conserved Domains (2) summary
      COG5048
      Location:178 → 246
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:183 → 203
      ZF_C2H2; C2H2 Zn finger [structural motif]

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_018654716.1 Reference GRCh38.p14 PATCHES

      Range
      61168..67085 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054332210.1 → XP_054188185.1  transcriptional repressor scratch 1 isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060932.1 Alternate T2T-CHM13v2.0

      Range
      145499200..145505117 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054361323.1 → XP_054217298.1  transcriptional repressor scratch 1 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9BWW7.2 GenPept UniProtKB/Swiss-Prot:Q9BWW7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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