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SMIM2-AS1 SMIM2 antisense RNA 1 [ Homo sapiens (human) ]

Gene ID: 101929212, updated on 22-Oct-2024

Summary

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Official Symbol
SMIM2-AS1provided by HGNC
Official Full Name
SMIM2 antisense RNA 1provided by HGNC
Primary source
HGNC:HGNC:42674
See related
Ensembl:ENSG00000227258 AllianceGenome:HGNC:42674
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
C3orf81-AS1; C13orf44-AS1
Expression
Broad expression in testis (RPKM 2.4), kidney (RPKM 2.0) and 14 other tissues See more
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Genomic context

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See SMIM2-AS1 in Genome Data Viewer
Location:
13q14.11
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (44110549..44154079)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (43330367..43373842)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (44684685..44728215)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370182 Neighboring gene non-coding RNA in the aldehyde dehydrogenase 1A pathway Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:44653586-44654467 Neighboring gene long intergenic non-protein coding RNA 390 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:44715242-44716201 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5304 Neighboring gene ReSE screen-validated silencer GRCh37_chr13:44717815-44718009 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr13:44733325-44734524 Neighboring gene SMIM2 intronic transcript 1 Neighboring gene small integral membrane protein 2 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr13:44761946-44763145 Neighboring gene microRNA 8079 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:44805723-44806922 Neighboring gene ReSE screen-validated silencer GRCh37_chr13:44824216-44824392 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:44837776-44838975 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7672 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7673 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr13:44880060-44881259 Neighboring gene uncharacterized LOC107984552 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr13:44886104-44887303

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. Genome-wide contribution of genotype by environment interaction to variation of diabetes-related traits. Zheng JS, et al. PLoS One, 2013. PMID 24204828, Free PMC Article
  2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide contribution of genotype by environment interaction to variation of diabetes-related traits.
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)

Genotypes

General gene information

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Other Names

  • C13orf44 antisense RNA 1 (non-protein coding)
  • SMIM2 antisense RNA 1 (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_104064.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    BF510376, BX100376, DB036693
    Related
    ENST00000762356.1

  2. NR_104065.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate 5' terminal exon and is shorter, compared to variant 1.
    Source sequence(s)
    BF510139, BF510376, BX100376, DB036693
    Related
    ENST00000619472.2

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_000013.11 Reference GRCh38.p14 Primary Assembly

    Range
    44110549..44154079
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    43330367..43373842
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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