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YTHDF3 YTH N6-methyladenosine RNA binding protein 3 [ Homo sapiens (human) ]

Gene ID: 253943, updated on 8-May-2016
Official Symbol
YTHDF3provided by HGNC
Official Full Name
YTH N6-methyladenosine RNA binding protein 3provided by HGNC
Primary source
HGNC:HGNC:26465
See related
Ensembl:ENSG00000185728 HPRD:08106; Vega:OTTHUMG00000164369
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This gene encodes a member of the YTH (YT521-B homology) domain protein family. The YTH domain is common in eukaryotes, is often found in the middle of the protein sequence, and may function in binding to RNA. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2013]
Orthologs
Location:
8q12.3
Exon count:
8
Annotation release Status Assembly Chr Location
107 current GRCh38.p2 (GCF_000001405.28) 8 NC_000008.11 (63168553..63212788)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (64081112..64125346)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene TAR DNA-binding protein 43-like Neighboring gene YTHDF3 antisense RNA 1 (head to head) Neighboring gene uncharacterized LOC105375873 Neighboring gene uncharacterized LOC105375875 Neighboring gene interferon induced transmembrane protein 8 pseudogene

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Protein interactions

Protein Gene Interaction Pubs
nucleocapsid gag HIV-1 NC is identified to have a physical interaction with YTH domain family, member 3 (YTHDF3) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Clone Names

  • FLJ31657

Gene Ontology Provided by GOA

Function Evidence Code Pubs
N6-methyladenosine-containing RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
poly(A) RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Preferred Names
YTH domain-containing family protein 3
Names
YTH N(6)-methyladenosine RNA binding protein 3
YTH domain family protein 3
YTH domain family, member 3

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.

Genomic

  1. NG_033226.1 RefSeqGene

    Range
    5001..49236
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001277813.1NP_001264742.1  YTH domain-containing family protein 3 isoform b

    See identical proteins and their annotated locations for NP_001264742.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in its 5' UTR and 5' coding region, and uses an alternate start codon, compared to variant 1. The encoded isoform (b) has a longer and distinct N-terminus, compared to isoform a. Both variants 2 and 3 encode the same isoform.
    Source sequence(s)
    AK127574, AL832335, BC037492, BP223018, DC419051
    Consensus CDS
    CCDS75748.1
    UniProtKB/Swiss-Prot
    Q7Z739
    UniProtKB/TrEMBL
    A0A087WY31, Q658Z6
    Related
    ENSP00000478490, OTTHUMP00000276029, ENST00000621413, OTTHUMT00000378491
    Conserved Domains (1) summary
    pfam04146
    Location:420553
    YTH; YT521-B-like domain
  2. NM_001277814.1NP_001264743.1  YTH domain-containing family protein 3 isoform b

    See identical proteins and their annotated locations for NP_001264743.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in its 5' UTR and 5' coding region, and uses an alternate start codon, compared to variant 1. The encoded isoform (b) has a longer and distinct N-terminus, compared to isoform a. Both variants 2 and 3 encode the same isoform.
    Source sequence(s)
    AK093081, AK127574, AK298544, AL832335, BC037492
    Consensus CDS
    CCDS75748.1
    UniProtKB/Swiss-Prot
    Q7Z739
    UniProtKB/TrEMBL
    A0A087WY31, B4DPX9, Q658Z6, Q8NA80
    Related
    ENSP00000481476, OTTHUMP00000276065, ENST00000621820, OTTHUMT00000378471
    Conserved Domains (1) summary
    pfam04146
    Location:420553
    YTH; YT521-B-like domain
  3. NM_001277815.1NP_001264744.1  YTH domain-containing family protein 3 isoform c

    See identical proteins and their annotated locations for NP_001264744.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in its 5' UTR and uses a downstream in-frame start codon, compared to variant 1. The encoded isoform (c) has a shorter N-terminus, compared to isoform a. Variants 4, 5, 6, and 7 encode the same isoform.
    Source sequence(s)
    AK127574, AL832335, BC037492, BP223018
    Consensus CDS
    CCDS75749.1
    UniProtKB/Swiss-Prot
    Q7Z739
    UniProtKB/TrEMBL
    A0A024R7W5, Q658Z6
    Related
    ENSP00000485046, ENST00000623280
    Conserved Domains (1) summary
    pfam04146
    Location:366499
    YTH; YT521-B-like domain
  4. NM_001277816.1NP_001264745.1  YTH domain-containing family protein 3 isoform c

    See identical proteins and their annotated locations for NP_001264745.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in its 5' UTR and uses a downstream in-frame start codon, compared to variant 1. The encoded isoform (c) has a shorter N-terminus, compared to isoform a. Variants 4, 5, 6, and 7 encode the same isoform.
    Source sequence(s)
    AK127574, AL832335, AW673093, BC037492, BP223018
    Consensus CDS
    CCDS75749.1
    UniProtKB/Swiss-Prot
    Q7Z739
    UniProtKB/TrEMBL
    A0A024R7W5, Q658Z6
    Related
    ENSP00000481497, ENST00000617200
    Conserved Domains (1) summary
    pfam04146
    Location:366499
    YTH; YT521-B-like domain
  5. NM_001277817.1NP_001264746.1  YTH domain-containing family protein 3 isoform c

    See identical proteins and their annotated locations for NP_001264746.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in its 5' UTR and uses a downstream in-frame start codon, compared to variant 1. The encoded isoform (c) has a shorter N-terminus, compared to isoform a. Variants 4, 5, 6, and 7 encode the same isoform.
    Source sequence(s)
    AK127574, AL831816, AL832335, BC037492, BP354748
    Consensus CDS
    CCDS75749.1
    UniProtKB/Swiss-Prot
    Q7Z739
    UniProtKB/TrEMBL
    A0A024R7W5, Q658Z6, Q8N3V9
    Conserved Domains (1) summary
    pfam04146
    Location:366499
    YTH; YT521-B-like domain
  6. NM_001277818.1NP_001264747.1  YTH domain-containing family protein 3 isoform c

    See identical proteins and their annotated locations for NP_001264747.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) differs in its 5' UTR and uses a downstream in-frame start codon, compared to variant 1. The encoded isoform (c) has a shorter N-terminus, compared to isoform a. Variants 4, 5, 6, and 7 encode the same isoform.
    Source sequence(s)
    AK093081, AK127574, AL832335, BC037492
    Consensus CDS
    CCDS75749.1
    UniProtKB/Swiss-Prot
    Q7Z739
    UniProtKB/TrEMBL
    A0A024R7W5, Q658Z6, Q8NA80
    Related
    ENSP00000478825, OTTHUMP00000276060, ENST00000621890, OTTHUMT00000378470
    Conserved Domains (1) summary
    pfam04146
    Location:366499
    YTH; YT521-B-like domain
  7. NM_152758.5NP_689971.4  YTH domain-containing family protein 3 isoform a

    See identical proteins and their annotated locations for NP_689971.4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform a.
    Source sequence(s)
    AK127574, AL832335, BC037492, BP223018
    Consensus CDS
    CCDS75747.1
    UniProtKB/Swiss-Prot
    Q7Z739
    UniProtKB/TrEMBL
    Q658Z6
    Related
    ENSP00000473496, OTTHUMP00000276022, ENST00000539294, OTTHUMT00000378462
    Conserved Domains (1) summary
    pfam04146
    Location:417550
    YTH; YT521-B-like domain

RNA

  1. NR_102434.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) lacks an internal exon, compared to variant 1. This variant is represented as non-coding because it lacks a significant portion of the coding region found in variant 1, and does not encode a supported protein.
    Source sequence(s)
    AK127574, AL832335, BC037492, BP223018, CN335163
    Related
    ENST00000517371, OTTHUMT00000378466

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 107 details...

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

Reference GRCh38.p2 Primary Assembly

Genomic

  1. NC_000008.11 Reference GRCh38.p2 Primary Assembly

    Range
    63168553..63212788
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011517509.1XP_011515811.1  

    See identical proteins and their annotated locations for XP_011515811.1

    UniProtKB/TrEMBL
    A0A087WY31
    Conserved Domains (1) summary
    pfam04146
    Location:420553
    YTH; YT521-B-like domain
  2. XM_011517510.1XP_011515812.1  

    See identical proteins and their annotated locations for XP_011515812.1

    UniProtKB/TrEMBL
    A0A024R7W5
    Conserved Domains (1) summary
    pfam04146
    Location:366499
    YTH; YT521-B-like domain

Alternate CHM1_1.1

Genomic

  1. NC_018919.2 Alternate CHM1_1.1

    Range
    64134691..64178938
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)