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

    Gene ID: 55578, updated on 2-Nov-2024

    Summary

    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; AllianceGenome:HGNC:20596
    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
    Summary
    Predicted to enable transcription coregulator activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within positive regulation of gluconeogenesis and positive regulation of transcription by RNA polymerase II. Part of SAGA-type complex. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in testis (RPKM 29.4), endometrium (RPKM 11.5) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See SUPT20H in Genome Data Viewer
    Location:
    13q13.3
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (37009312..37059688, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (36228509..36278887, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (37583449..37633825, 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 ATAC-STARR-seq lymphoblastoid silent region 5270 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7591 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7592 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7593 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7594 Neighboring gene exosome component 8 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5271 Neighboring gene casein kinase 1 alpha 1 like Neighboring gene RN7SK pseudogene 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues 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 Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables transcription coregulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Process Evidence Code Pubs
    involved_in autophagy IEA
    Inferred from Electronic Annotation
    more info
     
    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 
    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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    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

    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_001014286.3 → NP_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)
      AL138706, AL391383
      Consensus CDS
      CCDS31959.1
      UniProtKB/Swiss-Prot
      E7ER46, Q71RF3, Q8NEM7, Q9Y6A6
      UniProtKB/TrEMBL
      A8K8L1
      Related
      ENSP00000218894.10, ENST00000350612.11
      Conserved Domains (1) summary
      pfam12090
      Location:76 → 215
      Spt20; Spt20 family
    2. NM_001278480.2 → NP_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)
      AL138706, AL391383
      Consensus CDS
      CCDS61311.1
      UniProtKB/TrEMBL
      A8K8L1
      Related
      ENSP00000417510.1, ENST00000475892.5
      Conserved Domains (1) summary
      pfam12090
      Location:76 → 215
      Spt20; Spt20 family
    3. NM_001278481.2 → NP_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)
      AL138706, AL391383
      Consensus CDS
      CCDS9362.1
      UniProtKB/TrEMBL
      A8K8L1
      Related
      ENSP00000353388.4, ENST00000360252.8
      Conserved Domains (1) summary
      pfam12090
      Location:77 → 216
      Spt20; Spt20 family
    4. NM_001278482.2 → NP_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)
      AL138706, AL391383
      Consensus CDS
      CCDS9362.1
      UniProtKB/TrEMBL
      A8K8L1
      Related
      ENSP00000419754.1, ENST00000464744.5
      Conserved Domains (1) summary
      pfam12090
      Location:77 → 216
      Spt20; Spt20 family
    5. NM_017569.4 → NP_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)
      AL138706, AL391383
      Consensus CDS
      CCDS9362.1
      UniProtKB/TrEMBL
      A8K8L1
      Related
      ENSP00000348512.3, ENST00000356185.7
      Conserved Domains (1) summary
      pfam12090
      Location:77 → 216
      Spt20; Spt20 family

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000013.11 Reference GRCh38.p14 Primary Assembly

      Range
      37009312..37059688 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017020661.2 → XP_016876150.1  transcription factor SPT20 homolog isoform X31

      UniProtKB/TrEMBL
      A8K8L1
    2. XM_024449379.2 → XP_024305147.1  transcription factor SPT20 homolog isoform X24

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:64 → 203
      Spt20; Spt20 family
    3. XM_017020659.2 → XP_016876148.1  transcription factor SPT20 homolog isoform X28

      UniProtKB/TrEMBL
      A8K8L1
    4. XM_017020655.2 → XP_016876144.1  transcription factor SPT20 homolog isoform X21

      UniProtKB/TrEMBL
      A8K8L1
    5. XM_047430454.1 → XP_047286410.1  transcription factor SPT20 homolog isoform X16

    6. XM_047430447.1 → XP_047286403.1  transcription factor SPT20 homolog isoform X8

    7. XM_047430451.1 → XP_047286407.1  transcription factor SPT20 homolog isoform X13

    8. XM_005266457.5 → XP_005266514.1  transcription factor SPT20 homolog isoform X5

      See identical proteins and their annotated locations for XP_005266514.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:51 → 213
      Spt20; Spt20 family
    9. XM_047430464.1 → XP_047286420.1  transcription factor SPT20 homolog isoform X30

    10. XM_047430460.1 → XP_047286416.1  transcription factor SPT20 homolog isoform X23

    11. XM_017020658.2 → XP_016876147.1  transcription factor SPT20 homolog isoform X26

      UniProtKB/TrEMBL
      A8K8L1
    12. XM_017020654.2 → XP_016876143.1  transcription factor SPT20 homolog isoform X19

      UniProtKB/TrEMBL
      A8K8L1
    13. XM_047430453.1 → XP_047286409.1  transcription factor SPT20 homolog isoform X15

    14. XM_047430445.1 → XP_047286401.1  transcription factor SPT20 homolog isoform X7

    15. XM_047430450.1 → XP_047286406.1  transcription factor SPT20 homolog isoform X11

    16. XM_005266454.5 → XP_005266511.1  transcription factor SPT20 homolog isoform X3

      See identical proteins and their annotated locations for XP_005266511.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:52 → 214
      Spt20; Spt20 family
    17. XM_017020660.3 → XP_016876149.1  transcription factor SPT20 homolog isoform X29

      UniProtKB/TrEMBL
      A8K8L1
    18. XM_017020657.3 → XP_016876146.1  transcription factor SPT20 homolog isoform X22

      UniProtKB/TrEMBL
      A8K8L1
    19. XM_005266465.4 → XP_005266522.1  transcription factor SPT20 homolog isoform X25

      See identical proteins and their annotated locations for XP_005266522.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:76 → 215
      Spt20; Spt20 family
    20. XM_047430452.1 → XP_047286408.1  transcription factor SPT20 homolog isoform X14

    21. XM_017020653.3 → XP_016876142.1  transcription factor SPT20 homolog isoform X6

      UniProtKB/TrEMBL
      A8K8L1
    22. XM_005266451.5 → XP_005266508.1  transcription factor SPT20 homolog isoform X2

      See identical proteins and their annotated locations for XP_005266508.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:76 → 215
      Spt20; Spt20 family
    23. XM_005266467.4 → XP_005266524.1  transcription factor SPT20 homolog isoform X27

      See identical proteins and their annotated locations for XP_005266524.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:64 → 226
      Spt20; Spt20 family
    24. XM_005266464.4 → XP_005266521.1  transcription factor SPT20 homolog isoform X20

      See identical proteins and their annotated locations for XP_005266521.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:77 → 216
      Spt20; Spt20 family
    25. XM_005266462.5 → XP_005266519.1  transcription factor SPT20 homolog isoform X17

      See identical proteins and their annotated locations for XP_005266519.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:77 → 216
      Spt20; Spt20 family
    26. XM_005266461.4 → XP_005266518.1  transcription factor SPT20 homolog isoform X12

      See identical proteins and their annotated locations for XP_005266518.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:64 → 226
      Spt20; Spt20 family
    27. XM_005266455.3 → XP_005266512.1  transcription factor SPT20 homolog isoform X4

      See identical proteins and their annotated locations for XP_005266512.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:64 → 226
      Spt20; Spt20 family
    28. XM_005266460.3 → XP_005266517.1  transcription factor SPT20 homolog isoform X9

      See identical proteins and their annotated locations for XP_005266517.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:77 → 216
      Spt20; Spt20 family
    29. XM_005266447.3 → XP_005266504.1  transcription factor SPT20 homolog isoform X1

      See identical proteins and their annotated locations for XP_005266504.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:77 → 216
      Spt20; Spt20 family
    30. XM_047430448.1 → XP_047286404.1  transcription factor SPT20 homolog isoform X8

    31. XM_005266458.5 → XP_005266515.1  transcription factor SPT20 homolog isoform X5

      See identical proteins and their annotated locations for XP_005266515.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:51 → 213
      Spt20; Spt20 family
    32. XM_047430458.1 → XP_047286414.1  transcription factor SPT20 homolog isoform X19

    33. XM_005266456.5 → XP_005266513.1  transcription factor SPT20 homolog isoform X3

      See identical proteins and their annotated locations for XP_005266513.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:52 → 214
      Spt20; Spt20 family
    34. XM_047430463.1 → XP_047286419.1  transcription factor SPT20 homolog isoform X29

    35. XM_047430459.1 → XP_047286415.1  transcription factor SPT20 homolog isoform X22

    36. XM_047430462.1 → XP_047286418.1  transcription factor SPT20 homolog isoform X25

    37. XM_047430457.1 → XP_047286413.1  transcription factor SPT20 homolog isoform X18

      UniProtKB/Swiss-Prot
      E7ER46, Q71RF3, Q8NEM7, Q9Y6A6
    38. XM_047430449.1 → XP_047286405.1  transcription factor SPT20 homolog isoform X10

    39. XM_047430444.1 → XP_047286400.1  transcription factor SPT20 homolog isoform X2

    40. XM_047430456.1 → XP_047286412.1  transcription factor SPT20 homolog isoform X17

    41. XM_005266449.5 → XP_005266506.1  transcription factor SPT20 homolog isoform X1

      See identical proteins and their annotated locations for XP_005266506.1

      UniProtKB/TrEMBL
      A8K8L1
      Conserved Domains (1) summary
      pfam12090
      Location:77 → 216
      Spt20; Spt20 family
    42. XM_047430468.1 → XP_047286424.1  transcription factor SPT20 homolog isoform X35

      UniProtKB/TrEMBL
      R4GND2
      Related
      ENSP00000473592.1, ENST00000490716.5
    43. XM_047430467.1 → XP_047286423.1  transcription factor SPT20 homolog isoform X34

    44. XM_047430466.1 → XP_047286422.1  transcription factor SPT20 homolog isoform X33

    45. XM_047430465.1 → XP_047286421.1  transcription factor SPT20 homolog isoform X32

    46. XM_047430470.1 → XP_047286426.1  transcription factor SPT20 homolog isoform X37

    47. XM_047430469.1 → XP_047286425.1  transcription factor SPT20 homolog isoform X36

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060937.1 Alternate T2T-CHM13v2.0

      Range
      36228509..36278887 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054374718.1 → XP_054230693.1  transcription factor SPT20 homolog isoform X31

    2. XM_054374709.1 → XP_054230684.1  transcription factor SPT20 homolog isoform X24

    3. XM_054374714.1 → XP_054230689.1  transcription factor SPT20 homolog isoform X28

    4. XM_054374705.1 → XP_054230680.1  transcription factor SPT20 homolog isoform X21

    5. XM_054374698.1 → XP_054230673.1  transcription factor SPT20 homolog isoform X16

    6. XM_054374689.1 → XP_054230664.1  transcription factor SPT20 homolog isoform X8

    7. XM_054374695.1 → XP_054230670.1  transcription factor SPT20 homolog isoform X13

    8. XM_054374685.1 → XP_054230660.1  transcription factor SPT20 homolog isoform X5

    9. XM_054374717.1 → XP_054230692.1  transcription factor SPT20 homolog isoform X30

    10. XM_054374708.1 → XP_054230683.1  transcription factor SPT20 homolog isoform X23

    11. XM_054374712.1 → XP_054230687.1  transcription factor SPT20 homolog isoform X26

    12. XM_054374702.1 → XP_054230677.1  transcription factor SPT20 homolog isoform X19

    13. XM_054374697.1 → XP_054230672.1  transcription factor SPT20 homolog isoform X15

    14. XM_054374688.1 → XP_054230663.1  transcription factor SPT20 homolog isoform X7

    15. XM_054374693.1 → XP_054230668.1  transcription factor SPT20 homolog isoform X11

    16. XM_054374682.1 → XP_054230657.1  transcription factor SPT20 homolog isoform X3

    17. XM_054374715.1 → XP_054230690.1  transcription factor SPT20 homolog isoform X29

    18. XM_054374706.1 → XP_054230681.1  transcription factor SPT20 homolog isoform X22

    19. XM_054374710.1 → XP_054230685.1  transcription factor SPT20 homolog isoform X25

    20. XM_054374696.1 → XP_054230671.1  transcription factor SPT20 homolog isoform X14

    21. XM_054374686.1 → XP_054230661.1  transcription factor SPT20 homolog isoform X6

    22. XM_054374680.1 → XP_054230655.1  transcription factor SPT20 homolog isoform X2

    23. XM_054374713.1 → XP_054230688.1  transcription factor SPT20 homolog isoform X27

    24. XM_054374704.1 → XP_054230679.1  transcription factor SPT20 homolog isoform X20

    25. XM_054374699.1 → XP_054230674.1  transcription factor SPT20 homolog isoform X17

    26. XM_054374694.1 → XP_054230669.1  transcription factor SPT20 homolog isoform X12

    27. XM_054374684.1 → XP_054230659.1  transcription factor SPT20 homolog isoform X4

    28. XM_054374691.1 → XP_054230666.1  transcription factor SPT20 homolog isoform X9

    29. XM_054374678.1 → XP_054230653.1  transcription factor SPT20 homolog isoform X1

    30. XM_054374690.1 → XP_054230665.1  transcription factor SPT20 homolog isoform X8

    31. XM_054374687.1 → XP_054230662.1  transcription factor SPT20 homolog isoform X5

    32. XM_054374703.1 → XP_054230678.1  transcription factor SPT20 homolog isoform X19

    33. XM_054374683.1 → XP_054230658.1  transcription factor SPT20 homolog isoform X3

    34. XM_054374716.1 → XP_054230691.1  transcription factor SPT20 homolog isoform X29

    35. XM_054374707.1 → XP_054230682.1  transcription factor SPT20 homolog isoform X22

    36. XM_054374711.1 → XP_054230686.1  transcription factor SPT20 homolog isoform X25

    37. XM_054374701.1 → XP_054230676.1  transcription factor SPT20 homolog isoform X18

      UniProtKB/Swiss-Prot
      E7ER46, Q71RF3, Q8NEM7, Q9Y6A6
    38. XM_054374692.1 → XP_054230667.1  transcription factor SPT20 homolog isoform X10

    39. XM_054374681.1 → XP_054230656.1  transcription factor SPT20 homolog isoform X2

    40. XM_054374700.1 → XP_054230675.1  transcription factor SPT20 homolog isoform X17

    41. XM_054374679.1 → XP_054230654.1  transcription factor SPT20 homolog isoform X1

    42. XM_054374722.1 → XP_054230697.1  transcription factor SPT20 homolog isoform X35

      UniProtKB/TrEMBL
      R4GND2
    43. XM_054374721.1 → XP_054230696.1  transcription factor SPT20 homolog isoform X34

    44. XM_054374720.1 → XP_054230695.1  transcription factor SPT20 homolog isoform X33

    45. XM_054374719.1 → XP_054230694.1  transcription factor SPT20 homolog isoform X32

    46. XM_054374724.1 → XP_054230699.1  transcription factor SPT20 homolog isoform X37

    47. XM_054374723.1 → XP_054230698.1  transcription factor SPT20 homolog isoform X36