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

Gene ID: 55578, updated on 9-Feb-2020

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
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
Expression
Broad expression in testis (RPKM 29.4), endometrium (RPKM 11.5) and 25 other tissues See more
Orthologs

Genomic context

See SUPT20H in Genome Data Viewer
Location:
13q13.3
Exon count:
28
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 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 RN7SK pseudogene 1

Genomic regions, transcripts, and products

Expression

  • 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 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

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription coregulator 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 transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
SAGA complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
SAGA-type complex IDA
Inferred from Direct Assay
more info
PubMed 

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)

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_001014286.3NP_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
    Q8NEM7
    Related
    ENSP00000218894.10, ENST00000350612.11
    Conserved Domains (1) summary
    pfam12090
    Location:76215
    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, ENST00000475892.5
    Conserved Domains (1) summary
    pfam12090
    Location:76215
    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, ENST00000360252.8
    Conserved Domains (1) summary
    pfam12090
    Location:77216
    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, ENST00000464744.5
    Conserved Domains (1) summary
    pfam12090
    Location:77216
    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, ENST00000356185.7
    Conserved Domains (1) summary
    pfam12090
    Location:77216
    Spt20; Spt20 family

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000013.11 Reference GRCh38.p13 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 X16

  2. XM_017020660.2XP_016876149.1  transcription factor SPT20 homolog isoform X19

  3. XM_017020657.2XP_016876146.1  transcription factor SPT20 homolog isoform X13

  4. XM_005266465.3XP_005266522.1  transcription factor SPT20 homolog isoform X15

    See identical proteins and their annotated locations for XP_005266522.1

    Related
    ENSP00000439000.2, ENST00000542180.5
    Conserved Domains (1) summary
    pfam12090
    Location:76215
    Spt20; Spt20 family
  5. XM_017020653.2XP_016876142.1  transcription factor SPT20 homolog isoform X6

  6. XM_005266467.3XP_005266524.1  transcription factor SPT20 homolog isoform X17

    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:77216
    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:77216
    Spt20; Spt20 family
  12. XM_017020661.1XP_016876150.1  transcription factor SPT20 homolog isoform X20

  13. XM_024449379.1XP_024305147.1  transcription factor SPT20 homolog isoform X14

    Conserved Domains (1) summary
    pfam12090
    Location:64203
    Spt20; Spt20 family
  14. XM_017020659.1XP_016876148.1  transcription factor SPT20 homolog isoform X18

  15. 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
  16. XM_017020655.1XP_016876144.1  transcription factor SPT20 homolog isoform X12

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

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

  19. XM_024449378.1XP_024305146.1  transcription factor SPT20 homolog isoform X7

    Conserved Domains (1) summary
    pfam12090
    Location:77216
    Spt20; Spt20 family
  20. XM_005266451.4XP_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:76215
    Spt20; Spt20 family
  21. XM_005266457.4XP_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
  22. XM_005266454.4XP_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
  23. XM_005266456.4XP_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
  24. XM_005266458.4XP_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
  25. XM_005266449.4XP_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:77216
    Spt20; Spt20 family
  26. XM_024449377.1XP_024305145.1  transcription factor SPT20 homolog isoform X2

    Conserved Domains (1) summary
    pfam12090
    Location:76215
    Spt20; Spt20 family
  27. XM_024449375.1XP_024305143.1  transcription factor SPT20 homolog isoform X1

    Conserved Domains (1) summary
    pfam12090
    Location:77216
    Spt20; Spt20 family
  28. XM_024449376.1XP_024305144.1  transcription factor SPT20 homolog isoform X1

    Conserved Domains (1) summary
    pfam12090
    Location:77216
    Spt20; Spt20 family

RNA

  1. XR_001749614.2 RNA Sequence

  2. XR_001749625.2 RNA Sequence

  3. XR_001749624.2 RNA Sequence

  4. XR_001749611.2 RNA Sequence

  5. XR_001749610.2 RNA Sequence

  6. XR_001749609.2 RNA Sequence

  7. XR_001749621.2 RNA Sequence

  8. XR_001749623.2 RNA Sequence

  9. XR_001749620.2 RNA Sequence

  10. XR_001749608.2 RNA Sequence

  11. XR_001749607.2 RNA Sequence

  12. XR_001749606.2 RNA Sequence

  13. XR_001749619.2 RNA Sequence

  14. XR_001749618.2 RNA Sequence

  15. XR_001749616.2 RNA Sequence

    Related
    ENST00000495071.6
  16. XR_001749615.2 RNA Sequence

    Related
    ENST00000490716.5
  17. XR_001749613.2 RNA Sequence

  18. XR_001749612.2 RNA Sequence

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