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CACNA1C-IT1 CACNA1C intronic transcript 1 [ Homo sapiens (human) ]

Gene ID: 107984540, updated on 17-Sep-2024

Summary

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Official Symbol
CACNA1C-IT1provided by HGNC
Official Full Name
CACNA1C intronic transcript 1provided by HGNC
Primary source
HGNC:HGNC:41312
See related
AllianceGenome:HGNC:41312
Gene type
ncRNA
RefSeq status
MODEL
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Low expression observed in reference dataset See more
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Genomic context

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See CACNA1C-IT1 in Genome Data Viewer
Location:
12p13.33
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (2016671..2028839)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (2012800..2031190)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:2042322-2042920 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr12:2063223-2064422 Neighboring gene long intergenic non-protein coding RNA 940 Neighboring gene Sharpr-MPRA regulatory region 10568 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:2112705-2113344 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5813 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr12:2120775-2121283 Neighboring gene decapping mRNA 1B Neighboring gene calcium voltage-gated channel subunit alpha1 C Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4127 Neighboring gene NANOG hESC enhancer GRCh37_chr12:2158750-2159251 Neighboring gene CACNA1C intronic transcript 2 Neighboring gene uncharacterized LOC107984131 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:2244697-2245492 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:2246289-2247084 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:2248447-2248948 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:2248949-2249448 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4128

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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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

Genotypes

General gene information

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Other Names

  • CACNA1C intronic transcript 1 (non-protein coding)

NCBI Reference Sequences (RefSeq)

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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_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    2016671..2028839
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_001749433.2 RNA Sequence

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_018654718.1 Reference GRCh38.p14 PATCHES

    Range
    358815..377208
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_002959203.2 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    2012800..2031190
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_007082716.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version

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