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YAF2 YY1 associated factor 2 [ Homo sapiens (human) ]

Gene ID: 10138, updated on 8-Dec-2018

Summary

Official Symbol
YAF2provided by HGNC
Official Full Name
YY1 associated factor 2provided by HGNC
Primary source
HGNC:HGNC:17363
See related
Ensembl:ENSG00000015153 MIM:607534
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 zinc finger containing protein that functions in the regulation of transcription. This protein was identified as an interacting partner of transcriptional repressor protein Yy1, and also interacts with other transcriptional regulators, including Myc and Polycomb. This protein can promote proteolysis of Yy1. Multiple alternatively spliced transcript variants have been found. [provided by RefSeq, Feb 2016]
Expression
Ubiquitous expression in heart (RPKM 3.8), brain (RPKM 3.3) and 25 other tissues See more
Orthologs

Genomic context

See YAF2 in Genome Data Viewer
Location:
12q12
Exon count:
11
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 12 NC_000012.12 (42157104..42238373, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (42550906..42632154, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105378247 Neighboring gene protein FAM173B pseudogene Neighboring gene glucoside xylosyltransferase 1 Neighboring gene insulin like growth factor 2 mRNA binding protein 2 pseudogene Neighboring gene microRNA 7851 Neighboring gene zinc finger CCHC-type and RNA binding motif containing 1

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 FunctionsWhat's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC41856, DKFZp779H1820

Gene Ontology Provided by GOA

Function Evidence Code Pubs
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription coactivator activity IDA
Inferred from Direct Assay
more info
PubMed 
transcription corepressor activity IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

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_001190977.2NP_001177906.1  YY1-associated factor 2 isoform 3

    See identical proteins and their annotated locations for NP_001177906.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks two consecutive in-frame exons compared to variant 1. The resulting isoform (3) is shorter than isoform 1.
    Source sequence(s)
    AC020629, AK294260, BC037777, HY111766
    Consensus CDS
    CCDS53778.1
    UniProtKB/Swiss-Prot
    Q8IY57
    Related
    ENSP00000370167.4, ENST00000380790.4
    Conserved Domains (1) summary
    pfam17219
    Location:6092
    YAF2_RYBP; Yaf2/RYBP C-terminal binding motif
  2. NM_001190979.2NP_001177908.1  YY1-associated factor 2 isoform 1

    See identical proteins and their annotated locations for NP_001177908.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC020629, BC037777, HY111766
    Consensus CDS
    CCDS53779.1
    UniProtKB/Swiss-Prot
    Q8IY57
    Related
    ENSP00000328004.5, ENST00000327791.8
    Conserved Domains (3) summary
    sd00029
    Location:2342
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:2043
    zf-RanBP; Zn-finger in Ran binding protein and others
    pfam17219
    Location:126158
    YAF2_RYBP; Yaf2/RYBP C-terminal binding motif
  3. NM_001190980.2NP_001177909.1  YY1-associated factor 2 isoform 4

    See identical proteins and their annotated locations for NP_001177909.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks several 3' exons, and contains an alternate 3' exon, resulting in a distinct 3' coding region and 3' UTR, compared to variant 1. The resulting isoform (4) is shorter and has a distinct C-terminus, as compared to isoform (1).
    Source sequence(s)
    AC020629, AK127531, HY111766
    Consensus CDS
    CCDS53780.1
    UniProtKB/Swiss-Prot
    Q8IY57
    Related
    ENSP00000451626.2, ENST00000555248.2
    Conserved Domains (2) summary
    sd00029
    Location:2342
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:2043
    zf-RanBP; Zn-finger in Ran binding protein and others
  4. NM_001320080.1NP_001307009.1  YY1-associated factor 2 isoform 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) contains an alternate exon and initiates translation at an alternate downstream start codon compared to variant 1. The resulting isoform (5) has a distinct N-terminus and is shorter, compared to isoform 1.
    Source sequence(s)
    AC020629, AK296191, DA011078, HY111766
    UniProtKB/TrEMBL
    B4DJQ9
    Conserved Domains (1) summary
    pfam17219
    Location:93125
    YAF2_RYBP; Yaf2/RYBP C-terminal binding motif
  5. NM_005748.5NP_005739.2  YY1-associated factor 2 isoform 2

    See identical proteins and their annotated locations for NP_005739.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon compared to variant 1. The resulting isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AA789222, AC020629, DA011078, HY111766
    Consensus CDS
    CCDS31775.1
    UniProtKB/Swiss-Prot
    Q8IY57
    Related
    ENSP00000439256.2, ENST00000534854.6
    Conserved Domains (3) summary
    sd00029
    Location:2342
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:2043
    zf-RanBP; Zn-finger in Ran binding protein and others
    pfam17219
    Location:102134
    YAF2_RYBP; Yaf2/RYBP C-terminal binding motif

RNA

  1. NR_135139.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) contains two alternate internal exons compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC020629, CB993159, DA491895, HY111766
  2. NR_135140.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) contains two alternate internal exons and uses an alternate internal splice site compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC020629, BC037777, CB963485, DA491895, HY111766

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p12 Primary Assembly

    Range
    42157104..42238373 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024448792.1XP_024304560.1  YY1-associated factor 2 isoform X2

    Conserved Domains (1) summary
    pfam17219
    Location:104136
    YAF2_RYBP; Yaf2/RYBP C-terminal binding motif
  2. XM_011537728.3XP_011536030.1  YY1-associated factor 2 isoform X1

    Conserved Domains (2) summary
    sd00029
    Location:2342
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:2043
    zf-RanBP; Zn-finger in Ran binding protein and others
  3. XM_006719185.3XP_006719248.1  YY1-associated factor 2 isoform X3

    Conserved Domains (1) summary
    pfam17219
    Location:99131
    YAF2_RYBP; Yaf2/RYBP C-terminal binding motif
  4. XM_011537729.2XP_011536031.1  YY1-associated factor 2 isoform X4

    Conserved Domains (1) summary
    pfam17219
    Location:81113
    YAF2_RYBP; Yaf2/RYBP C-terminal binding motif
  5. XM_017018670.2XP_016874159.1  YY1-associated factor 2 isoform X5

    UniProtKB/TrEMBL
    G3V212
    Related
    ENSP00000450097.1, ENST00000552928.5
    Conserved Domains (2) summary
    sd00029
    Location:2342
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:2043
    zf-RanBP; Zn-finger in Ran binding protein and others

RNA

  1. XR_245886.4 RNA Sequence

  2. XR_001748538.1 RNA Sequence

  3. XR_002957280.1 RNA Sequence

  4. XR_001748537.1 RNA Sequence

  5. XR_944467.3 RNA Sequence

  6. XR_002957279.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001012424.1: Suppressed sequence

    Description
    NM_001012424.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
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