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SHANK2-AS3 SHANK2 antisense RNA 3 [ Homo sapiens (human) ]

Gene ID: 220070, updated on 10-Oct-2023

Summary

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Official Symbol
SHANK2-AS3provided by HGNC
Official Full Name
SHANK2 antisense RNA 3provided by HGNC
Primary source
HGNC:HGNC:25098
See related
Ensembl:ENSG00000171671 AllianceGenome:HGNC:25098
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
C11orf76
Expression
Low expression observed in reference dataset See more
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Genomic context

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See SHANK2-AS3 in Genome Data Viewer
Location:
11q13.4
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (70862790..70865115)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (70884034..70886359)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (70708895..70711220)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3703 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3704 Neighboring gene Sharpr-MPRA regulatory region 1776 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:70250285-70250464 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:70261331-70261532 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:70265651-70266850 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70289993-70290826 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3705 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5163 Neighboring gene cortactin Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70343973-70344473 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:70346781-70346940 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70351607-70352106 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70364325-70364826 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70369495-70370452 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70370453-70371408 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70371409-70372366 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70373323-70374279 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70385241-70385858 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70384621-70385240 Neighboring gene SH3 and multiple ankyrin repeat domains 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70390839-70391673 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70392509-70393343 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70393780-70394730 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70397475-70397990 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr11:70399135-70400334 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70403420-70404150 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70404151-70404881 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70422686-70423186 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70423187-70423687 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70425215-70425716 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70428716-70429218 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70429219-70429720 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70429721-70430223 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70430775-70431315 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70457727-70458490 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70464553-70465368 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70465369-70466183 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70483308-70484149 Neighboring gene SHANK2 antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 3810 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70508534-70509208 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70509209-70509883 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70516085-70516612 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70519247-70519774 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70527253-70528017 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70526489-70527252 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70533609-70534130 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70534131-70534652 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70555908-70556529 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70559535-70560424 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70560938-70561770 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70563993-70564502 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:70565347-70565550 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70585495-70586046 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70586047-70586598 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70591157-70591852 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70591853-70592548 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70592549-70593244 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5164 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70614429-70614930 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr11:70634290-70635489 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70680550-70681124 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70681125-70681698 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70681699-70682272 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70686259-70686758 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70732137-70732636 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70737866-70738791 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70751855-70752356 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70752357-70752856 Neighboring gene microRNA 3664 Neighboring gene MPRA-validated peak1330 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70819961-70820462 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70820463-70820962 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70850430-70851309 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70851310-70852188 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70909445-70910320 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70910321-70911195 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:70916783-70917377 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70916186-70916782 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70925881-70926462 Neighboring gene Sharpr-MPRA regulatory region 1844 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70955112-70955856 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70955857-70956600 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70956601-70957344 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:70957345-70958088 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:70979141-70979640 Neighboring gene uncharacterized LOC124902706

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. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

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 variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

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Other Names

  • SHANK2 antisense RNA 3 (non-protein coding)

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_073536.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    BC004224
    Related
    ENST00000307548.2

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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    70862790..70865115
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    70884034..70886359
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_145308.2: Suppressed sequence

    Description
    NM_145308.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9BTD1.2 GenPept UniProtKB/Swiss-Prot:Q9BTD1

Gene LinkOut

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