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    Uty ubiquitously transcribed tetratricopeptide repeat containing, Y-linked [ Rattus norvegicus (Norway rat) ]

    Gene ID: 100310845, updated on 9-Dec-2024

    Summary

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    Symbol
    Utyprovided by RGD
    Full Name
    ubiquitously transcribed tetratricopeptide repeat containing, Y-linkedprovided by RGD
    Primary source
    RGD:1565481
    See related
    EnsemblRapid:ENSRNOG00000060617 AllianceGenome:RGD:1565481
    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
    Utx; Kdm6a; RGD1565481
    Summary
    Enables chromatin binding activity. Predicted to act upstream of or within several processes, including cardiac muscle cell contraction; heterochromatin formation; and in utero embryonic development. Predicted to be located in nucleus. Predicted to be part of protein-containing complex. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 124.7), Spleen (RPKM 99.9) and 8 other tissues See more
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    Genomic context

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    See Uty in Genome Data Viewer
    Location:
    Yq11
    Exon count:
    33
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) Y NC_086040.1 (1018111..1178493, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) Y NC_051357.1 (942838..1105313, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) Y NC_024475.1 (1065274..1206127, complement)

    Chromosome Y - NC_086040.1Genomic Context describing neighboring genes Neighboring gene ubiquitin-like modifier-activating enzyme 1 Y Neighboring gene eukaryotic translation initiation factor 2, subunit 3, structural gene Y-linked Neighboring gene ubiquitin-conjugating enzyme E2 Q2 pseudogene Neighboring gene DEAD box helicase 3, Y-linked Neighboring gene U6 spliceosomal RNA Neighboring gene ubiquitin specific peptidase 9, Y-linked

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

    Bibliography

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    Related articles in PubMed

    1. Sequencing histone-modifying enzymes identifies UTX mutations in acute lymphoblastic leukemia. Mar BG, et al. Leukemia, 2012 Aug. PMID 22377896, Free PMC Article
    2. Expression and significance of histone H3K27 demethylases in renal cell carcinoma. Shen Y, et al. BMC Cancer, 2012 Oct 12. PMID 23057811, Free PMC Article
    3. Epigenetic changes in renal genes dysregulated in mouse and rat models of type 1 diabetes. Komers R, et al. Lab Invest, 2013 May. PMID 23508046
    4. SWI/SNF nucleosome remodellers and cancer. Wilson BG, et al. Nat Rev Cancer, 2011 Jun 9. PMID 21654818
    5. Genetic landscape of esophageal squamous cell carcinoma. Gao YB, et al. Nat Genet, 2014 Oct. PMID 25151357

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone H3K27me2/H3K27me3 demethylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables histone H3K36 demethylase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within cardiac muscle cell contraction ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within embryonic organ development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within establishment of protein localization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in heart development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within heart development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within heart morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within heterochromatin formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within in utero embryonic development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of MLL3/4 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    lysine-specific demethylase 6A
    Names
    histone demethylase UTY
    histone demethylase UTY-like
    lysine (K)-specific demethylase 6A
    lysine demethylase 6A
    ubiquitously transcribed tetratricopeptide repeat gene, X chromosome
    ubiquitously transcribed tetratricopeptide repeat gene, Y chromosome
    ubiquitously transcribed tetratricopeptide repeat, X chromosome
    NP_001406760.1
    NP_001406761.1
    XP_008771917.2
    XP_017457936.3
    XP_038956599.1
    XP_038956600.1
    XP_038956601.1
    XP_038956603.1
    XP_038956604.1
    XP_038956605.1
    XP_038956606.1
    XP_038956607.1
    XP_038956608.1
    XP_038956611.1
    XP_038956612.1
    XP_063136645.1
    XP_063136646.1

    NCBI Reference Sequences (RefSeq)

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    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_001419831.1 → NP_001406760.1  lysine-specific demethylase 6A

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000022
      UniProtKB/TrEMBL
      A0A8I6GMK8, V9GWA8
      Related
      ENSRNOP00000104952.1, ENSRNOT00000149304.1

    2. NM_001419832.1 → NP_001406761.1  lysine-specific demethylase 6A

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000022
      UniProtKB/TrEMBL
      A0A8I6GMK8, V9GWA8
      Related
      ENSRNOP00000097587.2, ENSRNOT00000119067.2

    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_086040.1 Reference GRCr8

      Range
      1018111..1178493 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039100676.2 → XP_038956604.1  lysine-specific demethylase 6A isoform X8

      UniProtKB/TrEMBL
      A0A8I6G9K0
      Conserved Domains (5) summary
      smart00028
      Location:140 → 173
      TPR; Tetratricopeptide repeats
      smart00558
      Location:905 → 969
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      COG0457
      Location:175 → 410
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:317 → 344
      TPR; TPR repeat [structural motif]
      pfam02373
      Location:939 → 1047
      JmjC; JmjC domain, hydroxylase

    2. XM_039100671.2 → XP_038956599.1  lysine-specific demethylase 6A isoform X2

      UniProtKB/TrEMBL
      A0A8I6GMK8
      Conserved Domains (4) summary
      smart00558
      Location:949 → 1013
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      COG0457
      Location:174 → 409
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:316 → 343
      TPR; TPR repeat [structural motif]
      pfam02373
      Location:983 → 1091
      JmjC; JmjC domain, hydroxylase

    3. XM_039100673.2 → XP_038956601.1  lysine-specific demethylase 6A isoform X4

      UniProtKB/TrEMBL
      A0A8I6GMK8
      Conserved Domains (5) summary
      smart00028
      Location:121 → 154
      TPR; Tetratricopeptide repeats
      smart00558
      Location:931 → 995
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      COG0457
      Location:156 → 391
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:298 → 325
      TPR; TPR repeat [structural motif]
      pfam02373
      Location:965 → 1073
      JmjC; JmjC domain, hydroxylase

    4. XM_008773695.4 → XP_008771917.2  lysine-specific demethylase 6A isoform X1

      UniProtKB/TrEMBL
      A0A8I6GMK8
      Conserved Domains (5) summary
      smart00028
      Location:140 → 173
      TPR; Tetratricopeptide repeats
      smart00558
      Location:950 → 1014
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      COG0457
      Location:175 → 410
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:317 → 344
      TPR; TPR repeat [structural motif]
      pfam02373
      Location:984 → 1092
      JmjC; JmjC domain, hydroxylase

    5. XM_039100672.2 → XP_038956600.1  lysine-specific demethylase 6A isoform X3

      UniProtKB/TrEMBL
      A0A8I6GMK8
      Conserved Domains (5) summary
      smart00558
      Location:935 → 999
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      COG0457
      Location:41 → 332
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      COG4235
      Location:286 → 388
      NrfG; Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones]
      sd00006
      Location:302 → 329
      TPR; TPR repeat [structural motif]
      pfam02373
      Location:969 → 1077
      JmjC; JmjC domain, hydroxylase

    6. XM_039100677.2 → XP_038956605.1  lysine-specific demethylase 6A isoform X9

      UniProtKB/TrEMBL
      A0A8I6G9K0
      Conserved Domains (4) summary
      smart00558
      Location:883 → 947
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      COG0457
      Location:119 → 388
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:295 → 322
      TPR; TPR repeat [structural motif]
      pfam02373
      Location:917 → 1025
      JmjC; JmjC domain, hydroxylase

    7. XM_039100678.2 → XP_038956606.1  lysine-specific demethylase 6A isoform X10

      UniProtKB/TrEMBL
      A0A8I6G9K0
      Conserved Domains (4) summary
      smart00558
      Location:868 → 932
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      COG0457
      Location:101 → 373
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:280 → 307
      TPR; TPR repeat [structural motif]
      pfam02373
      Location:902 → 1010
      JmjC; JmjC domain, hydroxylase

    8. XM_039100675.2 → XP_038956603.1  lysine-specific demethylase 6A isoform X5

      UniProtKB/TrEMBL
      A0A8I6GMK8
      Related
      ENSRNOP00000082524.2, ENSRNOT00000093013.3
      Conserved Domains (4) summary
      smart00558
      Location:928 → 992
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      COG0457
      Location:119 → 388
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:295 → 322
      TPR; TPR repeat [structural motif]
      pfam02373
      Location:962 → 1070
      JmjC; JmjC domain, hydroxylase

    9. XM_017602447.3 → XP_017457936.3  lysine-specific demethylase 6A isoform X7

      UniProtKB/TrEMBL
      A0A8I6GMK8

    10. XM_039100679.2 → XP_038956607.1  lysine-specific demethylase 6A isoform X11

      UniProtKB/TrEMBL
      W8C8I9
      Conserved Domains (5) summary
      smart00028
      Location:32 → 65
      TPR; Tetratricopeptide repeats
      smart00558
      Location:842 → 906
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      COG0457
      Location:67 → 302
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:209 → 236
      TPR; TPR repeat [structural motif]
      pfam02373
      Location:876 → 984
      JmjC; JmjC domain, hydroxylase

    11. XM_063280576.1 → XP_063136646.1  lysine-specific demethylase 6A isoform X13

      UniProtKB/TrEMBL
      W8C8I9

    12. XM_039100680.2 → XP_038956608.1  lysine-specific demethylase 6A isoform X12

      UniProtKB/TrEMBL
      W8C8I9
      Conserved Domains (4) summary
      smart00558
      Location:744 → 808
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      COG0457
      Location:56 → 204
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:111 → 138
      TPR; TPR repeat [structural motif]
      pfam02373
      Location:778 → 886
      JmjC; JmjC domain, hydroxylase

    13. XM_039100683.2 → XP_038956611.1  lysine-specific demethylase 6A isoform X14

      UniProtKB/TrEMBL
      W8C8I9
      Conserved Domains (4) summary
      smart00558
      Location:667 → 731
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      COG0457
      Location:18 → 127
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:34 → 61
      TPR; TPR repeat [structural motif]
      pfam02373
      Location:701 → 809
      JmjC; JmjC domain, hydroxylase

    14. XM_039100684.2 → XP_038956612.1  lysine-specific demethylase 6A isoform X15

      UniProtKB/TrEMBL
      W8C8I9
      Conserved Domains (4) summary
      smart00558
      Location:646 → 710
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      COG0457
      Location:22 → 106
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:45 → 75
      TPR; TPR repeat [structural motif]
      pfam02373
      Location:680 → 788
      JmjC; JmjC domain, hydroxylase

    15. XM_063280575.1 → XP_063136645.1  lysine-specific demethylase 6A isoform X6

      UniProtKB/TrEMBL
      A0A8I5ZTM6
      Related
      ENSRNOP00000082150.2, ENSRNOT00000082648.3

    RNA

    1. XR_005498739.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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