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TNRC6C trinucleotide repeat containing adaptor 6C [ Homo sapiens (human) ]

Gene ID: 57690, updated on 1-Jun-2020

Summary

Official Symbol
TNRC6Cprovided by HGNC
Official Full Name
trinucleotide repeat containing adaptor 6Cprovided by HGNC
Primary source
HGNC:HGNC:29318
See related
Ensembl:ENSG00000078687 MIM:610741
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Ubiquitous expression in brain (RPKM 4.2), testis (RPKM 3.1) and 25 other tissues See more
Orthologs

Genomic context

See TNRC6C in Genome Data Viewer
Location:
17q25.3
Exon count:
25
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 17 NC_000017.11 (77958853..78108835)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (76000194..76104916)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105371909 Neighboring gene RNA, U1 small nuclear 80, pseudogene Neighboring gene uncharacterized LOC107985010 Neighboring gene RNA, U6 small nuclear 625, pseudogene Neighboring gene ubiquitin conjugating enzyme E2 V2 pseudogene 2 Neighboring gene CEB72 minisatellite repeat instability region Neighboring gene transmembrane channel like 6 Neighboring gene transmembrane channel like 8

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association analyses suggest NELL1 influences adverse metabolic response to HCTZ in African Americans.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ20015, KIAA1582

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
P-body IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
trinucleotide repeat-containing gene 6C protein
Names
trinucleotide repeat containing 6C

NCBI Reference Sequences (RefSeq)

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.

mRNA and Protein(s)

  1. NM_001142640.1NP_001136112.1  trinucleotide repeat-containing gene 6C protein isoform 1

    See identical proteins and their annotated locations for NP_001136112.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AB046802, AC021593, AI337097, BC045631, DA339992, DV080590
    Consensus CDS
    CCDS45799.1
    UniProtKB/Swiss-Prot
    Q9HCJ0
    Related
    ENSP00000336783.4, ENST00000335749.4
    Conserved Domains (5) summary
    cd12713
    Location:15491631
    RRM_TNRC6C; RNA recognition motif in vertebrate trinucleotide repeat-containing gene 6C protein (TNRC6C)
    cd14283
    Location:938975
    UBA_TNR6C; UBA domain found in trinucleotide repeat-containing gene 6C protein (TNRC6C) and similar proteins
    pfam10427
    Location:819935
    Ago_hook; Argonaute hook
    pfam12938
    Location:10171245
    M_domain; M domain of GW182
    pfam16608
    Location:12551548
    TNRC6-PABC_bdg; TNRC6-PABC binding domain
  2. NM_018996.3NP_061869.2  trinucleotide repeat-containing gene 6C protein isoform 2

    See identical proteins and their annotated locations for NP_061869.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region and lacks an alternate in-frame exon in the 3' coding region, compared to variant 1. The resulting isoform (2) has the same N- and C-termini but lacks a 3 amino acid segment near the N-terminus and a 39 amino acid segment near the C-terminus, compared to isoform 1.
    Source sequence(s)
    AB046802, AC021593, AI337097, DA339992, DV080590
    Consensus CDS
    CCDS45798.1
    UniProtKB/Swiss-Prot
    Q9HCJ0
    Related
    ENSP00000301624.4, ENST00000301624.8
    Conserved Domains (5) summary
    cd12713
    Location:15131595
    RRM_TNRC6C; RNA recognition motif in vertebrate trinucleotide repeat-containing gene 6C protein (TNRC6C)
    cd14283
    Location:941978
    UBA_TNR6C; UBA domain found in trinucleotide repeat-containing gene 6C protein (TNRC6C) and similar proteins
    pfam10427
    Location:822938
    Ago_hook; Argonaute hook
    pfam12938
    Location:10201248
    M_domain; M domain of GW182
    pfam16608
    Location:12581512
    TNRC6-PABC_bdg; TNRC6-PABC binding domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p13 Primary Assembly

    Range
    77958853..78108835
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024450848.1XP_024306616.1  trinucleotide repeat-containing gene 6C protein isoform X3

    Related
    ENSP00000489933.1, ENST00000636222.1
    Conserved Domains (5) summary
    cd12713
    Location:17621844
    RRM_TNRC6C; RNA recognition motif in vertebrate trinucleotide repeat-containing gene 6C protein (TNRC6C)
    cd14283
    Location:11511188
    UBA_TNR6C; UBA domain found in trinucleotide repeat-containing gene 6C protein (TNRC6C) and similar proteins
    pfam10427
    Location:10381154
    Ago_hook; Argonaute hook
    pfam12938
    Location:12301459
    M_domain; M domain of GW182
    pfam16608
    Location:14681761
    TNRC6-PABC_bdg; TNRC6-PABC binding domain
  2. XM_017024907.1XP_016880396.1  trinucleotide repeat-containing gene 6C protein isoform X4

  3. XM_017024906.1XP_016880395.1  trinucleotide repeat-containing gene 6C protein isoform X2

  4. XM_006721996.4XP_006722059.3  trinucleotide repeat-containing gene 6C protein isoform X1

  5. XM_006721997.4XP_006722060.3  trinucleotide repeat-containing gene 6C protein isoform X5

  6. XM_006722000.4XP_006722063.3  trinucleotide repeat-containing gene 6C protein isoform X7

  7. XM_011525088.2XP_011523390.1  trinucleotide repeat-containing gene 6C protein isoform X6

    Conserved Domains (5) summary
    cd12713
    Location:15521634
    RRM_TNRC6C; RNA recognition motif in vertebrate trinucleotide repeat-containing gene 6C protein (TNRC6C)
    cd14283
    Location:941978
    UBA_TNR6C; UBA domain found in trinucleotide repeat-containing gene 6C protein (TNRC6C) and similar proteins
    pfam10427
    Location:822938
    Ago_hook; Argonaute hook
    pfam12938
    Location:10201248
    M_domain; M domain of GW182
    pfam16608
    Location:12581551
    TNRC6-PABC_bdg; TNRC6-PABC binding domain
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