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SPICE1-CFAP44 SPICE1-CFAP44 readthrough (NMD candidate) [ Homo sapiens (human) ]

Gene ID: 127898559, updated on 12-Sep-2024

Summary

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Official Symbol
SPICE1-CFAP44provided by HGNC
Official Full Name
SPICE1-CFAP44 readthrough (NMD candidate)provided by HGNC
Primary source
HGNC:HGNC:58084
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This locus represents naturally occurring readthrough transcription between the neighboring SPICE1 (spindle and centriole-associated protein 1) and CFAP44 (cilia- and flagella-associated protein 44) genes on chromosome 3. The readthrough transcript is a candidate for nonsense-mediated mRNA decay (NMD), and is unlikely to produce a protein product. [provided by RefSeq, Dec 2022]
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Genomic context

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See SPICE1-CFAP44 in Genome Data Viewer
Location:
3q13.2
Exon count:
58
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (113286930..113515156, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (116007998..116236319, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (113005777..113234003, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124909486 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:112930765-112931416 Neighboring gene uncharacterized LOC124909409 Neighboring gene BOC cell adhesion associated, oncogene regulated Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:112983897-112984515 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:112991758-112992620 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20249 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20250 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr3:113031132-113031687 Neighboring gene cilia and flagella associated protein 44 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:113085321-113085822 Neighboring gene Sharpr-MPRA regulatory region 3247 Neighboring gene RABGGTB pseudogene 1 Neighboring gene PHF5A pseudogene 2 Neighboring gene CFAP44 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20251 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:113176937-113177646 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:113177647-113178356 Neighboring gene microRNA 8076 Neighboring gene spindle and centriole associated protein 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20252 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20253 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20254 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20255 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20256 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20257 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20258 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20259 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14606 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20260 Neighboring gene SID1 transmembrane family member 1 Neighboring gene SIDT1 antisense RNA 1 Neighboring gene microRNA 4446

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

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 Variation Viewer (GRCh37.p13)

General gene information

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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_183045.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC026329, AC026348, AC112128

  2. NR_183046.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC026329, AC026348, AC112128

  3. NR_183047.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC026329, AC026348, AC112128

  4. NR_183048.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC026329, AC026348, AC112128

  5. NR_183049.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC026329, AC026348, AC112128

  6. NR_183050.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC026329, AC026348, AC112128

  7. NR_183051.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC023894, AC112128

  8. NR_183052.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC023894, AC112128

  9. NR_183053.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC023894, AC112128

  10. NR_183054.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC023894, AC112128

  11. NR_183055.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC023894, AC112128

  12. NR_183056.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC023894, AC112128

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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    113286930..113515156 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    116007998..116236319 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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