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TRABD TraB domain containing [ Homo sapiens (human) ]

Gene ID: 80305, updated on 7-Apr-2024

Summary

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Official Symbol
TRABDprovided by HGNC
Official Full Name
TraB domain containingprovided by HGNC
Primary source
HGNC:HGNC:28805
See related
Ensembl:ENSG00000170638 AllianceGenome:HGNC:28805
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
LP6054; PP2447
Expression
Ubiquitous expression in bone marrow (RPKM 19.6), spleen (RPKM 13.4) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
22q13.33
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 22 NC_000022.11 (50185913..50199595)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 22 NC_060946.1 (50692650..50706355)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (50624342..50638024)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene Mov10 like RNA helicase 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19297 Neighboring gene ReSE screen-validated silencer GRCh37_chr22:50578307-50578491 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:50604117-50604668 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13949 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50609993-50610685 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:50622054-50622629 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13950 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13951 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13952 Neighboring gene pannexin 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13953 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13954 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19298 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19299 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19300 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:50628084-50628698 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:50628699-50629313 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19302 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19303 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13955 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19304 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19305 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13956 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13957 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19306 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50644205-50644771 Neighboring gene TRABD antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50644772-50645337 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50645905-50646469 Neighboring gene SELENOO antisense RNA 1 Neighboring gene selenoprotein O Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50658024-50658666 Neighboring gene tubulin gamma complex component 6 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50676935-50677436 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50677437-50677936 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19307 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50682041-50682971 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19309

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. STAT3-induced HLA-F-AS1 promotes cell proliferation and stemness characteristics in triple negative breast cancer cells by upregulating TRABD. Wu D, et al. Bioorg Chem, 2021 Apr. PMID 33618253
  2. Integrative identification of Epstein-Barr virus-associated mutations and epigenetic alterations in gastric cancer. Liang Q, et al. Gastroenterology, 2014 Dec. PMID 25173755
  3. Reevaluating human gene annotation: a second-generation analysis of chromosome 22. Collins JE, et al. Genome Res, 2003 Jan. PMID 12529303, Free PMC Article
  4. Characterization of long cDNA clones from human adult spleen. Hattori A, et al. DNA Res, 2000 Dec 31. PMID 11214971
  5. Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass. Povlsen LK, et al. Nat Cell Biol, 2012 Oct. PMID 23000965

See all (42) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study identifies three novel susceptibility loci for severe Acne vulgaris.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC110928

General protein information

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Preferred Names
traB domain-containing 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_001320484.2 → NP_001307413.1  traB domain-containing protein isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a).
    Source sequence(s)
    AL449244, BU902575, CF272467
    UniProtKB/Swiss-Prot
    Q9H4I3
    Conserved Domains (1) summary
    cl12050
    Location:62 → 279
    TraB; TraB family

  2. NM_001320485.2 → NP_001307414.1  traB domain-containing protein isoform b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a. Variants 2, 3, and 4 all encode the same isoform (b).
    Source sequence(s)
    AL449244, BU902575
    Consensus CDS
    CCDS14086.1
    UniProtKB/Swiss-Prot
    Q19CC5, Q96ED8, Q9H4I3, Q9H7N1, Q9UGX6, Q9UGX7
    Related
    ENSP00000370295.4, ENST00000380909.9
    Conserved Domains (1) summary
    cd14726
    Location:75 → 273
    TraB_PrgY-like; TraB/PryY confer plasmid-borne pheromone resistance

  3. NM_001320487.2 → NP_001307416.1  traB domain-containing protein isoform b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a. Variants 2, 3, and 4 all encode the same isoform (b).
    Source sequence(s)
    AL449244, HY033228
    Consensus CDS
    CCDS14086.1
    UniProtKB/Swiss-Prot
    Q19CC5, Q96ED8, Q9H4I3, Q9H7N1, Q9UGX6, Q9UGX7
    Related
    ENSP00000379171.1, ENST00000395827.5
    Conserved Domains (1) summary
    cd14726
    Location:75 → 273
    TraB_PrgY-like; TraB/PryY confer plasmid-borne pheromone resistance

  4. NM_001320488.2 → NP_001307417.1  traB domain-containing protein isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, uses an alternate in-frame splice junction, and differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (c) lacks an alternate internal segment and has a longer and distinct C-terminus compared to isoform a.
    Source sequence(s)
    AL022328, AL449244, BI907868, BX389277, BX417817, HY033228
    Consensus CDS
    CCDS82724.1
    UniProtKB/TrEMBL
    J3KPT4
    Related
    ENSP00000379173.1, ENST00000395829.1
    Conserved Domains (1) summary
    cd14726
    Location:75 → 273
    TraB_PrgY-like; TraB/PryY confer plasmid-borne pheromone resistance

  5. NM_001378762.1 → NP_001365691.1  traB domain-containing protein isoform b

    Status: VALIDATED

    Source sequence(s)
    AL022328
    Consensus CDS
    CCDS14086.1
    UniProtKB/Swiss-Prot
    Q19CC5, Q96ED8, Q9H4I3, Q9H7N1, Q9UGX6, Q9UGX7
    Conserved Domains (1) summary
    cd14726
    Location:75 → 273
    TraB_PrgY-like; TraB/PryY confer plasmid-borne pheromone resistance

  6. NM_001378765.1 → NP_001365694.1  traB domain-containing protein isoform c

    Status: VALIDATED

    Source sequence(s)
    AL022328
    Consensus CDS
    CCDS82724.1
    UniProtKB/TrEMBL
    J3KPT4
    Conserved Domains (1) summary
    cd14726
    Location:75 → 273
    TraB_PrgY-like; TraB/PryY confer plasmid-borne pheromone resistance

  7. NM_025204.4 → NP_079480.2  traB domain-containing protein isoform b

    See identical proteins and their annotated locations for NP_079480.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a. Variants 2, 3, and 4 all encode the same isoform (b).
    Source sequence(s)
    AL449244, BU902575
    Consensus CDS
    CCDS14086.1
    UniProtKB/Swiss-Prot
    Q19CC5, Q96ED8, Q9H4I3, Q9H7N1, Q9UGX6, Q9UGX7
    Related
    ENSP00000305664.4, ENST00000303434.8
    Conserved Domains (1) summary
    cd14726
    Location:75 → 273
    TraB_PrgY-like; TraB/PryY confer plasmid-borne pheromone resistance

RNA

  1. NR_135275.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) uses two alternate splice junctions compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL022328, AL449244, BU902575, BX425224

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000022.11 Reference GRCh38.p14 Primary Assembly

    Range
    50185913..50199595
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011530718.3 → XP_011529020.1  traB domain-containing protein isoform X1

    See identical proteins and their annotated locations for XP_011529020.1

    Conserved Domains (1) summary
    cd14726
    Location:75 → 277
    TraB_PrgY-like; TraB/PryY confer plasmid-borne pheromone resistance

  2. XM_047441500.1 → XP_047297456.1  traB domain-containing protein isoform X7

    UniProtKB/Swiss-Prot
    Q19CC5, Q96ED8, Q9H4I3, Q9H7N1, Q9UGX6, Q9UGX7

  3. XM_011530717.3 → XP_011529019.1  traB domain-containing protein isoform X1

    See identical proteins and their annotated locations for XP_011529019.1

    Conserved Domains (1) summary
    cd14726
    Location:75 → 277
    TraB_PrgY-like; TraB/PryY confer plasmid-borne pheromone resistance

  4. XM_047441501.1 → XP_047297457.1  traB domain-containing protein isoform X5

  5. XM_011530716.3 → XP_011529018.1  traB domain-containing protein isoform X1

    See identical proteins and their annotated locations for XP_011529018.1

    Conserved Domains (1) summary
    cd14726
    Location:75 → 277
    TraB_PrgY-like; TraB/PryY confer plasmid-borne pheromone resistance

  6. XM_006724423.4 → XP_006724486.1  traB domain-containing protein isoform X6

    See identical proteins and their annotated locations for XP_006724486.1

    UniProtKB/TrEMBL
    J3KPT4
    Conserved Domains (1) summary
    cd14726
    Location:75 → 273
    TraB_PrgY-like; TraB/PryY confer plasmid-borne pheromone resistance

  7. XM_017028943.2 → XP_016884432.1  traB domain-containing protein isoform X1

    Conserved Domains (1) summary
    cd14726
    Location:75 → 277
    TraB_PrgY-like; TraB/PryY confer plasmid-borne pheromone resistance

  8. XM_011530713.4 → XP_011529015.2  traB domain-containing protein isoform X2

    Conserved Domains (1) summary
    cl12050
    Location:62 → 279
    TraB; TraB family

  9. XM_011530712.3 → XP_011529014.2  traB domain-containing protein isoform X1

    Conserved Domains (1) summary
    cd14726
    Location:75 → 277
    TraB_PrgY-like; TraB/PryY confer plasmid-borne pheromone resistance

  10. XM_047441498.1 → XP_047297454.1  traB domain-containing protein isoform X4

  11. XM_011530715.3 → XP_011529017.2  traB domain-containing protein isoform X3

  12. XM_047441499.1 → XP_047297455.1  traB domain-containing protein isoform X5

  13. XM_047441503.1 → XP_047297459.1  traB domain-containing protein isoform X9

  14. XM_047441502.1 → XP_047297458.1  traB domain-containing protein isoform X8

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060946.1 Alternate T2T-CHM13v2.0

    Range
    50692650..50706355
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054325936.1 → XP_054181911.1  traB domain-containing protein isoform X1

  2. XM_054325939.1 → XP_054181914.1  traB domain-containing protein isoform X7

    UniProtKB/Swiss-Prot
    Q19CC5, Q96ED8, Q9H4I3, Q9H7N1, Q9UGX6, Q9UGX7

  3. XM_054325937.1 → XP_054181912.1  traB domain-containing protein isoform X1

  4. XM_054325940.1 → XP_054181915.1  traB domain-containing protein isoform X5

  5. XM_054325935.1 → XP_054181910.1  traB domain-containing protein isoform X1

  6. XM_054325938.1 → XP_054181913.1  traB domain-containing protein isoform X6

    UniProtKB/TrEMBL
    J3KPT4

  7. XM_054325931.1 → XP_054181906.1  traB domain-containing protein isoform X2

  8. XM_054325930.1 → XP_054181905.1  traB domain-containing protein isoform X1

  9. XM_054325933.1 → XP_054181908.1  traB domain-containing protein isoform X4

  10. XM_054325932.1 → XP_054181907.1  traB domain-containing protein isoform X3

  11. XM_054325934.1 → XP_054181909.1  traB domain-containing protein isoform X5

  12. XM_054325942.1 → XP_054181917.1  traB domain-containing protein isoform X9

  13. XM_054325941.1 → XP_054181916.1  traB domain-containing protein isoform X8

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9H4I3.1 GenPept UniProtKB/Swiss-Prot:Q9H4I3

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