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

Gene ID: 54581, updated on 10-Oct-2023

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 enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
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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Location:
15q25.2
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (84631460..84642463)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (82383888..82394883)
105.20220307 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
  • 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. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. Olsen JV, et al. Cell, 2006 Nov 3. PMID 17081983

See all (11) 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_2023_10

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

Gene LinkOut

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