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    Aff2 ALF transcription elongation factor 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 293922, updated on 3-Dec-2024

    Summary

    Official Symbol
    Aff2provided by RGD
    Official Full Name
    ALF transcription elongation factor 2provided by RGD
    Primary source
    RGD:1565592
    See related
    EnsemblRapid:ENSRNOG00000052572 AllianceGenome:RGD:1565592
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1565592
    Summary
    Predicted to enable G-quadruplex RNA binding activity. Predicted to be involved in regulation of RNA splicing. Predicted to act upstream of or within learning or memory; negative regulation of gene expression; and nuclear speck organization. Predicted to be located in nucleus. Predicted to be active in nuclear speck. Human ortholog(s) of this gene implicated in X-linked intellectual developmental disorder 109. Orthologous to human AFF2 (ALF transcription elongation factor 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 28.4), Adrenal (RPKM 14.5) and 7 other tissues See more
    Orthologs
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    Genomic context

    See Aff2 in Genome Data Viewer
    Location:
    Xq37
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (152972579..153477080)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (147928130..148432484)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (153539951..154051022, complement)

    Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene nucleolar pre-rRNA processing protein NIP7, pseudogene 14 Neighboring gene disks large homolog 5-like Neighboring gene eukaryotic translation elongation factor 1 alpha 1 like 1 Neighboring gene uncharacterized LOC134484104

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables G-quadruplex RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables G-quadruplex RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
     
    acts_upstream_of_or_within learning or memory ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within negative regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within nuclear speck organization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of RNA splicing IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of RNA splicing ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    is_active_in nuclear speck IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    NOT part_of super elongation complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    AF4/FMR2 family member 2
    Names
    AF4/FMR2 family, member 2

    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_001427288.1NP_001414217.1  AF4/FMR2 family member 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000021
      UniProtKB/TrEMBL
      A0A0G2K1Y9, A6KQ91
      Related
      ENSRNOP00000072039.3, ENSRNOT00000087990.3

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086039.1 Reference GRCr8

      Range
      152972579..153477080
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006229539.4XP_006229601.1  AF4/FMR2 family member 2 isoform X3

      See identical proteins and their annotated locations for XP_006229601.1

      UniProtKB/TrEMBL
      A6KQ91
      Conserved Domains (1) summary
      pfam05110
      Location:191274
      AF-4; AF-4 proto-oncoprotein
    2. XM_017602424.2XP_017457913.1  AF4/FMR2 family member 2 isoform X1

      UniProtKB/TrEMBL
      A6KQ91
      Related
      ENSRNOP00000103733.1, ENSRNOT00000161102.1
    3. XM_006229538.3XP_006229600.1  AF4/FMR2 family member 2 isoform X2

      See identical proteins and their annotated locations for XP_006229600.1

      UniProtKB/TrEMBL
      A6KQ91
      Conserved Domains (1) summary
      pfam05110
      Location:191280
      AF-4; AF-4 proto-oncoprotein
    4. XM_039100404.2XP_038956332.1  AF4/FMR2 family member 2 isoform X4

      Conserved Domains (5) summary
      PTZ00449
      Location:173565
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      pfam17380
      Location:130270
      DUF5401; Family of unknown function (DUF5401)
      pfam05110
      Location:2115
      AF-4; AF-4 proto-oncoprotein
      pfam18875
      Location:383397
      AF4_int; AF4 interaction motif
      pfam18876
      Location:644896
      AF-4_C; AF-4 proto-oncoprotein C-terminal region
    5. XM_039100405.2XP_038956333.1  AF4/FMR2 family member 2 isoform X5

      Conserved Domains (4) summary
      pfam17380
      Location:100240
      DUF5401; Family of unknown function (DUF5401)
      pfam05110
      Location:485
      AF-4; AF-4 proto-oncoprotein
      pfam18875
      Location:353367
      AF4_int; AF4 interaction motif
      pfam18876
      Location:614866
      AF-4_C; AF-4 proto-oncoprotein C-terminal region