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    SUPT20H SPT20 homolog, SAGA complex component [ Homo sapiens (human) ]

    Gene ID: 55578, updated on 3-Sep-2017
    Official Symbol
    SUPT20Hprovided by HGNC
    Official Full Name
    SPT20 homolog, SAGA complex componentprovided by HGNC
    Primary source
    HGNC:HGNC:20596
    See related
    Ensembl:ENSG00000102710 MIM:613417; Vega:OTTHUMG00000016747
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    C13; FP757; P38IP; SPT20; FAM48A; C13orf19
    Orthologs
    Location:
    13q13.3
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    108 current GRCh38.p7 (GCF_000001405.33) 13 NC_000013.11 (37009312..37059714, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (37583449..37633850, complement)

    Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene eukaryotic translation initiation factor 4A1 pseudogene 5 Neighboring gene ALG5, dolichyl-phosphate beta-glucosyltransferase Neighboring gene uncharacterized LOC105370165 Neighboring gene exosome component 8 Neighboring gene casein kinase 1 alpha 1 like Neighboring gene RNA, 7SK small nuclear pseudogene 1

    • 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 Jun 15 11:32:44 2016

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    • Autophagy - animal, organism-specific biosystem (from KEGG)
      Autophagy - animal, organism-specific biosystemAutophagy (or macroautophagy) is a cellular catabolic pathway involving in protein degradation, organelle turnover, and non-selective breakdown of cytoplasmic components, which is evolutionarily cons...
    • Autophagy - animal, conserved biosystem (from KEGG)
      Autophagy - animal, conserved biosystemAutophagy (or macroautophagy) is a cellular catabolic pathway involving in protein degradation, organelle turnover, and non-selective breakdown of cytoplasmic components, which is evolutionarily cons...
    • Chromatin modifying enzymes, organism-specific biosystem (from REACTOME)
      Chromatin modifying enzymes, organism-specific biosystemEukaryotic DNA is associated with histone proteins and organized into a complex nucleoprotein structure called chromatin. This structure decreases the accessibility of DNA but also helps to protect i...
    • Chromatin organization, organism-specific biosystem (from REACTOME)
      Chromatin organization, organism-specific biosystemChromatin organization refers to the composition and conformation of complexes between DNA, protein and RNA. It is determined by processes that result in the specification, formation or maintenance o...
    • HATs acetylate histones, organism-specific biosystem (from REACTOME)
      HATs acetylate histones, organism-specific biosystemHistone acetyltransferases (HATs) involved in histone modifications are referred to as A-type or nuclear HATs. They can be grouped into at least four families based on sequence conservation within th...
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    transcription cofactor activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    autophagy IEA
    Inferred from Electronic Annotation
    more info
     
    gastrulation IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of nucleic acid-templated transcription IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    SAGA complex IEA
    Inferred from Electronic Annotation
    more info
     
    SAGA-type complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    fibrillar center IDA
    Inferred from Direct Assay
    more info
     
    Preferred Names
    transcription factor SPT20 homolog
    Names
    family with sequence similarity 48, member A
    protein FAM48A
    suppressor of Ty 20 homolog
    transcription factor (p38 interacting protein)
    tumor rejection antigen

    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_001014286.2NP_001014308.2  transcription factor SPT20 homolog isoform a

      See identical proteins and their annotated locations for NP_001014308.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) differs in the 5' UTR, has an alternate splice site in the 5' coding region and an additional exon in the 3' coding region which results in a frameshift, compared to variant 2. The resulting isoform (a) is longer; it lacks an internal aa in the N-terminal region, but has a longer and distinct C-terminus, compared to isoform b.
      Source sequence(s)
      AF370384, AK026091, BC030686, DA593337
      Consensus CDS
      CCDS31959.1
      UniProtKB/Swiss-Prot
      Q8NEM7
      Related
      ENSP00000218894.10, OTTHUMP00000214947, ENST00000350612.10, OTTHUMT00000354766
      Conserved Domains (1) summary
      pfam12090
      Location:63225
      Spt20; Spt20 family
    2. NM_001278480.1NP_001265409.1  transcription factor SPT20 homolog isoform c

      See identical proteins and their annotated locations for NP_001265409.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and has two alternate splice sites, one in the 5' and one in the 3' coding region, compared to variant 2. The resulting isoform (c) is longer; it lacks an internal aa in the N-terminal region, but has an additional segment in the C-terminal region, compared to isoform b.
      Source sequence(s)
      AF370384, AK225376, BC030686, DA593337
      Consensus CDS
      CCDS61311.1
      UniProtKB/Swiss-Prot
      Q8NEM7
      Related
      ENSP00000417510.1, OTTHUMP00000214949, ENST00000475892.5, OTTHUMT00000354771
      Conserved Domains (1) summary
      pfam12090
      Location:63225
      Spt20; Spt20 family
    3. NM_001278481.1NP_001265410.1  transcription factor SPT20 homolog isoform b

      See identical proteins and their annotated locations for NP_001265410.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR, compared to variant 2. Variants 2, 4 and 5 encode the same isoform b.
      Source sequence(s)
      AF093250, AF370384, DA593337
      Consensus CDS
      CCDS9362.1
      UniProtKB/Swiss-Prot
      Q8NEM7
      UniProtKB/TrEMBL
      A0A024RDW2
      Related
      ENSP00000353388.4, OTTHUMP00000018265, ENST00000360252.8, OTTHUMT00000044548
      Conserved Domains (1) summary
      pfam12090
      Location:64226
      Spt20; Spt20 family
    4. NM_001278482.1NP_001265411.1  transcription factor SPT20 homolog isoform b

      See identical proteins and their annotated locations for NP_001265411.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR, compared to variant 2. Variants 2, 4 and 5 encode the same isoform b.
      Source sequence(s)
      AF370384, AK292376, BC030686, HY034874
      Consensus CDS
      CCDS9362.1
      UniProtKB/Swiss-Prot
      Q8NEM7
      UniProtKB/TrEMBL
      A0A024RDW2, A8K8L1
      Related
      ENSP00000419754.1, OTTHUMP00000214948, ENST00000464744.5, OTTHUMT00000354767
      Conserved Domains (1) summary
      pfam12090
      Location:64226
      Spt20; Spt20 family
    5. NM_017569.3NP_060039.1  transcription factor SPT20 homolog isoform b

      See identical proteins and their annotated locations for NP_060039.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) encodes a predominant isoform (b). Variants 2, 4 and 5 encode the same isoform b.
      Source sequence(s)
      AF370384, AJ130894, DA593337
      Consensus CDS
      CCDS9362.1
      UniProtKB/Swiss-Prot
      Q8NEM7
      UniProtKB/TrEMBL
      A0A024RDW2
      Related
      ENSP00000348512.3, OTTHUMP00000214950, ENST00000356185.7, OTTHUMT00000044554
      Conserved Domains (1) summary
      pfam12090
      Location:64226
      Spt20; Spt20 family

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 108 details...Open this link in a new tab

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

    Reference GRCh38.p7 Primary Assembly

    Genomic

    1. NC_000013.11 Reference GRCh38.p7 Primary Assembly

      Range
      37009312..37059714 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017020658.1XP_016876147.1  transcription factor SPT20 homolog isoform X15

    2. XM_017020660.1XP_016876149.1  transcription factor SPT20 homolog isoform X18

    3. XM_017020657.1XP_016876146.1  transcription factor SPT20 homolog isoform X13

    4. XM_005266465.2XP_005266522.1  transcription factor SPT20 homolog isoform X14

      See identical proteins and their annotated locations for XP_005266522.1

      Related
      ENSP00000439000.2, ENST00000542180.5
      Conserved Domains (1) summary
      pfam12090
      Location:63225
      Spt20; Spt20 family
    5. XM_017020653.1XP_016876142.1  transcription factor SPT20 homolog isoform X6

    6. XM_005266467.3XP_005266524.1  transcription factor SPT20 homolog isoform X16

      See identical proteins and their annotated locations for XP_005266524.1

      Conserved Domains (1) summary
      pfam12090
      Location:64226
      Spt20; Spt20 family
    7. XM_005266464.3XP_005266521.1  transcription factor SPT20 homolog isoform X11

      See identical proteins and their annotated locations for XP_005266521.1

      Conserved Domains (1) summary
      pfam12090
      Location:64226
      Spt20; Spt20 family
    8. XM_005266461.3XP_005266518.1  transcription factor SPT20 homolog isoform X8

      See identical proteins and their annotated locations for XP_005266518.1

      Conserved Domains (1) summary
      pfam12090
      Location:64226
      Spt20; Spt20 family
    9. XM_005266455.2XP_005266512.1  transcription factor SPT20 homolog isoform X4

      See identical proteins and their annotated locations for XP_005266512.1

      Conserved Domains (1) summary
      pfam12090
      Location:64226
      Spt20; Spt20 family
    10. XM_005266460.2XP_005266517.1  transcription factor SPT20 homolog isoform X7

      See identical proteins and their annotated locations for XP_005266517.1

      Conserved Domains (1) summary
      pfam12090
      Location:64226
      Spt20; Spt20 family
    11. XM_005266447.2XP_005266504.1  transcription factor SPT20 homolog isoform X1

      See identical proteins and their annotated locations for XP_005266504.1

      Conserved Domains (1) summary
      pfam12090
      Location:64226
      Spt20; Spt20 family
    12. XM_017020661.1XP_016876150.1  transcription factor SPT20 homolog isoform X19

    13. XM_017020659.1XP_016876148.1  transcription factor SPT20 homolog isoform X17

    14. XM_005266462.4XP_005266519.1  transcription factor SPT20 homolog isoform X9

      See identical proteins and their annotated locations for XP_005266519.1

      Conserved Domains (1) summary
      pfam12090
      Location:64226
      Spt20; Spt20 family
    15. XM_017020655.1XP_016876144.1  transcription factor SPT20 homolog isoform X12

    16. XM_017020654.1XP_016876143.1  transcription factor SPT20 homolog isoform X10

    17. XM_017020656.1XP_016876145.1  transcription factor SPT20 homolog isoform X12

    18. XM_005266451.3XP_005266508.1  transcription factor SPT20 homolog isoform X2

      See identical proteins and their annotated locations for XP_005266508.1

      Conserved Domains (1) summary
      pfam12090
      Location:63225
      Spt20; Spt20 family
    19. XM_005266457.3XP_005266514.1  transcription factor SPT20 homolog isoform X5

      See identical proteins and their annotated locations for XP_005266514.1

      Conserved Domains (1) summary
      pfam12090
      Location:51213
      Spt20; Spt20 family
    20. XM_005266454.3XP_005266511.1  transcription factor SPT20 homolog isoform X3

      See identical proteins and their annotated locations for XP_005266511.1

      Conserved Domains (1) summary
      pfam12090
      Location:52214
      Spt20; Spt20 family
    21. XM_005266458.3XP_005266515.1  transcription factor SPT20 homolog isoform X5

      See identical proteins and their annotated locations for XP_005266515.1

      Conserved Domains (1) summary
      pfam12090
      Location:51213
      Spt20; Spt20 family
    22. XM_005266456.3XP_005266513.1  transcription factor SPT20 homolog isoform X3

      See identical proteins and their annotated locations for XP_005266513.1

      Conserved Domains (1) summary
      pfam12090
      Location:52214
      Spt20; Spt20 family
    23. XM_005266449.3XP_005266506.1  transcription factor SPT20 homolog isoform X1

      See identical proteins and their annotated locations for XP_005266506.1

      Conserved Domains (1) summary
      pfam12090
      Location:64226
      Spt20; Spt20 family

    RNA

    1. XR_001749610.1 RNA Sequence

    2. XR_941626.2 RNA Sequence

    3. XR_001749607.1 RNA Sequence

    4. XR_001749616.1 RNA Sequence

      Related
      ENST00000495071.6, OTTHUMT00000044560
    5. XR_001749613.1 RNA Sequence

    6. XR_001749614.1 RNA Sequence

    7. XR_001749625.1 RNA Sequence

    8. XR_001749624.1 RNA Sequence

    9. XR_001749611.1 RNA Sequence

    10. XR_001749609.1 RNA Sequence

    11. XR_001749622.1 RNA Sequence

    12. XR_001749621.1 RNA Sequence

    13. XR_001749623.1 RNA Sequence

    14. XR_001749620.1 RNA Sequence

    15. XR_001749608.1 RNA Sequence

    16. XR_001749606.1 RNA Sequence

    17. XR_001749619.1 RNA Sequence

    18. XR_001749618.1 RNA Sequence

    19. XR_001749615.1 RNA Sequence

      Related
      ENST00000490716.5, OTTHUMT00000354768
    20. XR_001749617.1 RNA Sequence

    21. XR_001749627.1 RNA Sequence

    22. XR_001749626.1 RNA Sequence

    23. XR_001749612.1 RNA Sequence

    Alternate CHM1_1.1

    Genomic

    1. NC_018924.2 Alternate CHM1_1.1

      Range
      37550999..37601397 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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