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

Gene ID: 57690, updated on 5-Aug-2022

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; AllianceGenome:HGNC:29318
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
Summary
Predicted to enable RNA binding activity. Involved in gene silencing by miRNA; positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay; and positive regulation of nuclear-transcribed mRNA poly(A) tail shortening. Predicted to be located in cytosol. Predicted to be active in P-body and nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in brain (RPKM 4.2), testis (RPKM 3.1) and 25 other tissues See more
Orthologs
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Genomic context

See TNRC6C in Genome Data Viewer
Location:
17q25.3
Exon count:
27
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (77957557..78108835)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (78851592..79002521)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (75953639..76104916)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105371909 Neighboring gene RNA, U1 small nuclear 80, pseudogene 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

EBI GWAS Catalog

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

Pathways from PubChem

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

NEW Try the new Transcript table

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_001142640.2NP_001136112.2  trinucleotide repeat-containing gene 6C protein isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC015804, AC021593
    Related
    ENSP00000512514.1, ENST00000696270.1
    Conserved Domains (4) summary
    smart00360
    Location:17621825
    RRM; RNA recognition motif
    cd14283
    Location:11481185
    UBA_TNR6C; UBA domain found in trinucleotide repeat-containing gene 6C protein (TNRC6C) and similar proteins
    pfam10427
    Location:10351151
    Ago_hook; Argonaute hook
    pfam12938
    Location:12271456
    M_domain; M domain of GW182
  2. NM_001395508.1NP_001382437.1  trinucleotide repeat-containing gene 6C protein isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC021593
    Consensus CDS
    CCDS45799.1
    Conserved Domains (6) summary
    cd14283
    Location:938975
    UBA_TNR6C; UBA domain found in trinucleotide repeat-containing gene 6C protein (TNRC6C) and similar proteins
    pfam10427
    Location:825941
    Ago_hook; Argonaute hook
    pfam12938
    Location:10171246
    M_domain; M domain of GW182
    pfam16608
    Location:12551548
    TNRC6-PABC_bdg; TNRC6-PABC binding domain
    cd12713
    Location:15441631
    RRM_TNRC6C; RNA recognition motif (RRM) found in vertebrate trinucleotide repeat-containing gene 6C protein (TNRC6C)
    NF033849
    Location:258420
    ser_rich_anae_1; serine-rich protein
  3. NM_001395509.1NP_001382438.1  trinucleotide repeat-containing gene 6C protein isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC015804, AC021593
    Conserved Domains (4) summary
    smart00360
    Location:17311794
    RRM; RNA recognition motif
    cd14283
    Location:11481185
    UBA_TNR6C; UBA domain found in trinucleotide repeat-containing gene 6C protein (TNRC6C) and similar proteins
    pfam10427
    Location:10351151
    Ago_hook; Argonaute hook
    pfam12938
    Location:12361464
    M_domain; M domain of GW182
  4. NM_001395510.1NP_001382439.1  trinucleotide repeat-containing gene 6C protein isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC015804, AC021593
    Related
    ENSP00000512702.1, ENST00000696541.1
    Conserved Domains (4) summary
    smart00360
    Location:17231786
    RRM; RNA recognition motif
    cd14283
    Location:11481185
    UBA_TNR6C; UBA domain found in trinucleotide repeat-containing gene 6C protein (TNRC6C) and similar proteins
    pfam10427
    Location:10351151
    Ago_hook; Argonaute hook
    pfam12938
    Location:12271456
    M_domain; M domain of GW182
  5. NM_001395511.1NP_001382440.1  trinucleotide repeat-containing gene 6C protein isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC021593
    Conserved Domains (4) summary
    smart00360
    Location:15601623
    RRM; RNA recognition motif
    cd14283
    Location:938975
    UBA_TNR6C; UBA domain found in trinucleotide repeat-containing gene 6C protein (TNRC6C) and similar proteins
    pfam10427
    Location:825941
    Ago_hook; Argonaute hook
    pfam12938
    Location:10261254
    M_domain; M domain of GW182
  6. NM_001395512.1NP_001382441.1  trinucleotide repeat-containing gene 6C protein isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC015804, AC021593
    Conserved Domains (6) summary
    cd14283
    Location:938975
    UBA_TNR6C; UBA domain found in trinucleotide repeat-containing gene 6C protein (TNRC6C) and similar proteins
    pfam10427
    Location:825941
    Ago_hook; Argonaute hook
    pfam12938
    Location:10171246
    M_domain; M domain of GW182
    pfam16608
    Location:12551509
    TNRC6-PABC_bdg; TNRC6-PABC binding domain
    cd12713
    Location:15051592
    RRM_TNRC6C; RNA recognition motif (RRM) found in vertebrate trinucleotide repeat-containing gene 6C protein (TNRC6C)
    NF033849
    Location:258420
    ser_rich_anae_1; serine-rich protein
  7. 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
    Q96MU9, Q9HCJ0
    Related
    ENSP00000468647.2, ENST00000588061.6
    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 Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    77957557..78108835
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047436496.1XP_047292452.1  trinucleotide repeat-containing gene 6C protein isoform X14

  2. XM_047436485.1XP_047292441.1  trinucleotide repeat-containing gene 6C protein isoform X1

  3. XM_006721996.5XP_006722059.4  trinucleotide repeat-containing gene 6C protein isoform X3

  4. XM_047436487.1XP_047292443.1  trinucleotide repeat-containing gene 6C protein isoform X4

  5. XM_006721997.5XP_006722060.4  trinucleotide repeat-containing gene 6C protein isoform X6

  6. XM_047436490.1XP_047292446.1  trinucleotide repeat-containing gene 6C protein isoform X8

  7. XM_047436492.1XP_047292448.1  trinucleotide repeat-containing gene 6C protein isoform X10

  8. XM_047436494.1XP_047292450.1  trinucleotide repeat-containing gene 6C protein isoform X12

  9. XM_047436486.1XP_047292442.1  trinucleotide repeat-containing gene 6C protein isoform X2

  10. XM_047436488.1XP_047292444.1  trinucleotide repeat-containing gene 6C protein isoform X5

  11. XM_047436489.1XP_047292445.1  trinucleotide repeat-containing gene 6C protein isoform X7

  12. XM_047436491.1XP_047292447.1  trinucleotide repeat-containing gene 6C protein isoform X9

  13. XM_047436493.1XP_047292449.1  trinucleotide repeat-containing gene 6C protein isoform X11

  14. XM_047436495.1XP_047292451.1  trinucleotide repeat-containing gene 6C protein isoform X13

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    78851592..79002521
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)