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    Supt20 SPT20 SAGA complex component [ Mus musculus (house mouse) ]

    Gene ID: 56790, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Supt20provided by MGI
    Official Full Name
    SPT20 SAGA complex componentprovided by MGI
    Primary source
    MGI:MGI:1929651
    See related
    Ensembl:ENSMUSG00000027751 AllianceGenome:MGI:1929651
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    p38IP; Fam48a; Supt20h; D3Ertd300e
    Summary
    Predicted to enable transcription coregulator activity. Acts upstream of or within positive regulation of gluconeogenesis and positive regulation of transcription by RNA polymerase II. Predicted to be part of SAGA complex. Is expressed in several structures, including gut. Orthologous to human SUPT20H (SPT20 homolog, SAGA complex component). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in testis adult (RPKM 74.7), limb E14.5 (RPKM 29.1) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Supt20 in Genome Data Viewer
    Location:
    3 C; 3 25.59 cM
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (54600181..54636184)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (54692760..54728763)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:54393991-54394215 Neighboring gene predicted gene, 40050 Neighboring gene REX1, RNA exonuclease 1 homolog pseudogene Neighboring gene STARR-seq mESC enhancer starr_07679 Neighboring gene STARR-positive B cell enhancer ABC_E8986 Neighboring gene STARR-seq mESC enhancer starr_07681 Neighboring gene STARR-positive B cell enhancer ABC_E7912 Neighboring gene STARR-positive B cell enhancer ABC_E10181 Neighboring gene exosome component 8 Neighboring gene ALG5 dolichyl-phosphate beta-glucosyltransferase Neighboring gene SMAD family member 9 Neighboring gene STARR-seq mESC enhancer starr_07686

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables transcription coregulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transcription coregulator activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in gastrulation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of DNA-templated transcription NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of gluconeogenesis IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in regulation of DNA repair NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of RNA splicing NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of SAGA complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of SAGA complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of SAGA-type complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    transcription factor SPT20 homolog
    Names
    family with sequence similarity 48, member A
    p38-interacting protein
    protein FAM48A
    suppressor of Ty 20
    transcription factor (p38 interacting protein)

    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_001358015.2 → NP_001344944.1  transcription factor SPT20 homolog isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC100927
      Conserved Domains (2) summary
      pfam05109
      Location:480 → 769
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam12090
      Location:77 → 217
      Spt20; Spt20 family

    2. NM_001358017.2 → NP_001344946.1  transcription factor SPT20 homolog isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC100927
      Conserved Domains (2) summary
      pfam05109
      Location:479 → 768
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam12090
      Location:76 → 216
      Spt20; Spt20 family

    3. NM_001407763.1 → NP_001394692.1  transcription factor SPT20 homolog isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC100927

    4. NM_001407764.1 → NP_001394693.1  transcription factor SPT20 homolog isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC100927

    5. NM_001407765.1 → NP_001394694.1  transcription factor SPT20 homolog isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC100927

    6. NM_001407766.1 → NP_001394695.1  transcription factor SPT20 homolog isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC100927

    7. NM_001407767.1 → NP_001394696.1  transcription factor SPT20 homolog isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC100927

    8. NM_001407768.1 → NP_001394697.1  transcription factor SPT20 homolog isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC100927

    9. NM_001407769.1 → NP_001394698.1  transcription factor SPT20 homolog isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC100927

    10. NM_001407770.1 → NP_001394699.1  transcription factor SPT20 homolog isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC100927

    11. NM_001407771.1 → NP_001394700.1  transcription factor SPT20 homolog isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC100927

    12. NM_001407772.1 → NP_001394701.1  transcription factor SPT20 homolog isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC100927

    13. NM_001407773.1 → NP_001394702.1  transcription factor SPT20 homolog isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC100927

    14. NM_001407774.1 → NP_001394703.1  transcription factor SPT20 homolog isoform 7

      Status: VALIDATED

      Source sequence(s)
      AC100927

    15. NM_001407775.1 → NP_001394704.1  transcription factor SPT20 homolog isoform 8

      Status: VALIDATED

      Source sequence(s)
      AC100927
      UniProtKB/TrEMBL
      A0A0G2JGY6

    16. NM_001407776.1 → NP_001394705.1  transcription factor SPT20 homolog isoform 8

      Status: VALIDATED

      Source sequence(s)
      AC100927
      UniProtKB/TrEMBL
      A0A0G2JGY6

    17. NM_001407777.1 → NP_001394706.1  transcription factor SPT20 homolog isoform 8

      Status: VALIDATED

      Source sequence(s)
      AC100927
      UniProtKB/TrEMBL
      A0A0G2JGY6
      Related
      ENSMUSP00000143750.2, ENSMUST00000197502.5

    18. NM_001407778.1 → NP_001394707.1  transcription factor SPT20 homolog isoform 9

      Status: VALIDATED

      Source sequence(s)
      AC100927

    19. NM_001407779.1 → NP_001394708.1  transcription factor SPT20 homolog isoform 10

      Status: VALIDATED

      Source sequence(s)
      AC100927

    20. NM_001407780.1 → NP_001394709.1  transcription factor SPT20 homolog isoform 10

      Status: VALIDATED

      Source sequence(s)
      AC100927

    21. NM_001407781.1 → NP_001394710.1  transcription factor SPT20 homolog isoform 11

      Status: VALIDATED

      Source sequence(s)
      AC100927

    22. NM_001407782.1 → NP_001394711.1  transcription factor SPT20 homolog isoform 12

      Status: VALIDATED

      Source sequence(s)
      AC100927
      UniProtKB/Swiss-Prot
      Q7TT00, Q8BG53, Q9JLS9
      Related
      ENSMUSP00000143059.2, ENSMUST00000200439.2

    23. NM_001407783.1 → NP_001394712.1  transcription factor SPT20 homolog isoform 12

      Status: VALIDATED

      Source sequence(s)
      AC100927
      UniProtKB/Swiss-Prot
      Q7TT00, Q8BG53, Q9JLS9

    24. NM_001407784.1 → NP_001394713.1  transcription factor SPT20 homolog isoform 14

      Status: VALIDATED

      Source sequence(s)
      AC100927

    25. NM_001407785.1 → NP_001394714.1  transcription factor SPT20 homolog isoform 13

      Status: VALIDATED

      Source sequence(s)
      AC100927
      UniProtKB/TrEMBL
      A0A0G2JEY3
      Related
      ENSMUSP00000142948.2, ENSMUST00000199674.5

    26. NM_019995.5 → NP_064379.1  transcription factor SPT20 homolog isoform 3

      See identical proteins and their annotated locations for NP_064379.1

      Status: VALIDATED

      Source sequence(s)
      AC100927
      Consensus CDS
      CCDS38431.1
      UniProtKB/Swiss-Prot
      Q7TT00
      Related
      ENSMUSP00000131454.2, ENSMUST00000170552.6
      Conserved Domains (1) summary
      pfam12090
      Location:64 → 226
      Spt20; Spt20 family

    RNA

    1. NR_152184.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC100927

    2. NR_152185.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC100927

    3. NR_152186.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC100927

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000069.7 Reference GRCm39 C57BL/6J

      Range
      54600181..54636184
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006501812.1 → XP_006501875.1  transcription factor SPT20 homolog isoform X6

      Conserved Domains (2) summary
      pfam05109
      Location:480 → 757
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam12090
      Location:77 → 217
      Spt20; Spt20 family

    2. XM_036163195.1 → XP_036019088.1  transcription factor SPT20 homolog isoform X14

      Conserved Domains (1) summary
      pfam12090
      Location:8 → 148
      Spt20; Spt20 family

    3. XM_006501808.2 → XP_006501871.1  transcription factor SPT20 homolog isoform X3

      Conserved Domains (2) summary
      pfam05109
      Location:479 → 768
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam12090
      Location:77 → 217
      Spt20; Spt20 family

    4. XM_030252731.1 → XP_030108591.1  transcription factor SPT20 homolog isoform X8

      Conserved Domains (2) summary
      pfam05109
      Location:411 → 700
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam12090
      Location:8 → 148
      Spt20; Spt20 family

    5. XM_030252732.1 → XP_030108592.1  transcription factor SPT20 homolog isoform X9

      Conserved Domains (2) summary
      pfam05109
      Location:410 → 699
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam12090
      Location:8 → 148
      Spt20; Spt20 family

    6. XM_006501813.2 → XP_006501876.1  transcription factor SPT20 homolog isoform X8

      Conserved Domains (2) summary
      pfam05109
      Location:411 → 700
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam12090
      Location:8 → 148
      Spt20; Spt20 family

    7. XM_006501803.3 → XP_006501866.1  transcription factor SPT20 homolog isoform X1

      See identical proteins and their annotated locations for XP_006501866.1

      Conserved Domains (2) summary
      pfam05109
      Location:480 → 769
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam12090
      Location:77 → 217
      Spt20; Spt20 family

    RNA

    1. XR_004941374.1 RNA Sequence

    2. XR_003954365.2 RNA Sequence

    3. XR_001783729.2 RNA Sequence

    4. XR_004941369.1 RNA Sequence

    5. XR_004941371.1 RNA Sequence

    6. XR_375560.4 RNA Sequence

    7. XR_001783730.2 RNA Sequence

    8. XR_003954366.1 RNA Sequence

    9. XR_004941373.1 RNA Sequence

    10. XR_003954363.1 RNA Sequence

    11. XR_003954364.1 RNA Sequence

    12. XR_004941370.1 RNA Sequence

    13. XR_004941372.1 RNA Sequence

    14. XR_003954367.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7TT00.1 GenPept UniProtKB/Swiss-Prot:Q7TT00

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