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    SCAND2P SCAN domain containing 2 pseudogene [ Homo sapiens (human) ]

    Gene ID: 54581, updated on 2-Nov-2024

    Summary

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    Official Symbol
    SCAND2Pprovided by HGNC
    Official Full Name
    SCAN domain containing 2 pseudogeneprovided by HGNC
    Primary source
    HGNC:HGNC:10567
    See related
    MIM:610417; AllianceGenome:HGNC:10567
    Gene type
    pseudo
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    SCAND2
    Summary
    Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thyroid (RPKM 4.4), spleen (RPKM 4.2) and 25 other tissues See more
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    Genomic context

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    See SCAND2P in Genome Data Viewer
    Location:
    15q25.2
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (84631460..84642463)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (82383888..82394883)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (85174691..85185694)

    Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene UBE2Q2 pseudogene 1 Neighboring gene long intergenic non-protein coding RNA 933 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6766 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6767 Neighboring gene uncharacterized LOC105370947 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9982 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6768 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:85146655-85147283 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:85152722-85153247 Neighboring gene zinc finger and SCAN domain containing 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9983 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6769 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6770 Neighboring gene egl-9 family hypoxia inducible factor 1 pseudogene 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:85196867-85197834 Neighboring gene WD repeat domain 73 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6771 Neighboring gene neuromedin B Neighboring gene SEC11 homolog A, signal peptidase complex subunit Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:85229719-85230218 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:85259023-85259588

    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. SCAN domain-containing 2 gene (SCAND2) is a novel nuclear protein derived from the zinc finger family by exon shuffling. Dupuy D, et al. Gene, 2002 May 1. PMID 12036577
    2. Mapping, characterization, and expression analysis of the SM-20 human homologue, c1orf12, and identification of a novel related gene, SCAND2. Dupuy D, et al. Genomics, 2000 Nov 1. PMID 11056053
    3. The zinc finger-associated SCAN box is a conserved oligomerization domain. Williams AJ, et al. Mol Cell Biol, 1999 Dec. PMID 10567577, Free PMC Article
    4. CAMOS, a nonprogressive, autosomal recessive, congenital cerebellar ataxia, is caused by a mutant zinc-finger protein, ZNF592. Nicolas E, et al. Eur J Hum Genet, 2010 Oct. PMID 20531441, Free PMC Article
    5. A GO catalogue of human DNA-binding transcription factors. Lovering RC, et al. Biochim Biophys Acta Gene Regul Mech, 2021 Nov-Dec. PMID 34673265

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    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

    Other Names

    • SCAN domain-containing 2
    • egl nine homolog 1 pseudogene

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    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.

    RNA

    1. NR_003654.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an internal exon, compared to variant 1.
      Source sequence(s)
      AC048382, AK022844, BC011547

    2. NR_004859.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AA280726, AC048382, BF115195

    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_000015.10 Reference GRCh38.p14 Primary Assembly

      Range
      84631460..84642463
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_025791797.1 Reference GRCh38.p14 PATCHES

      Range
      1123306..1134309
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060939.1 Alternate T2T-CHM13v2.0

      Range
      82383888..82394883
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_022050.3: Suppressed sequence

      Description
      NM_022050.3: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein, and it is a nonsense-mediated mRNA decay (NMD) candidate.

    2. NM_033633.2: Suppressed sequence

      Description
      NM_033633.2: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein, and it is a nonsense-mediated mRNA decay (NMD) candidate.

    3. NM_033634.2: Suppressed sequence

      Description
      NM_033634.2: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein, and it is a nonsense-mediated mRNA decay (NMD) candidate.

    4. NM_033635.2: Suppressed sequence

      Description
      NM_033635.2: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein, and it is a nonsense-mediated mRNA decay (NMD) candidate.

    5. NM_033636.2: Suppressed sequence

      Description
      NM_033636.2: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein, and it is a nonsense-mediated mRNA decay (NMD) candidate.

    6. NM_033640.2: Suppressed sequence

      Description
      NM_033640.2: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein, and it is a nonsense-mediated mRNA decay (NMD) candidate.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9GZW5.2 GenPept UniProtKB/Swiss-Prot:Q9GZW5

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