FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact

Center for Computational Systems Medicine
leaf

FusionGeneSummary

leaf

FusionProtFeature

leaf

FusionGeneSequence

leaf

FusionGenePPI

leaf

RelatedDrugs

leaf

RelatedDiseases

Fusion gene ID: 26930

FusionGeneSummary for PHF21A_ALKBH3

check button Fusion gene summary
Fusion gene informationFusion gene name: PHF21A_ALKBH3
Fusion gene ID: 26930
HgeneTgene
Gene symbol

PHF21A

ALKBH3

Gene ID

51317

221120

Gene namePHD finger protein 21AalkB homolog 3, alpha-ketoglutaratedependent dioxygenase
SynonymsBHC80|BM-006ABH3|DEPC-1|DEPC1|PCA1|hABH3
Cytomap

11p11.2

11p11.2

Type of geneprotein-codingprotein-coding
DescriptionPHD finger protein 21ABHC80aBRAF35-HDAC complex protein BHC80BRAF35/HDAC2 complex (80 kDa)alpha-ketoglutarate-dependent dioxygenase alkB homolog 3alkB homolog 3, alpha-ketoglutarate-dependent dioxygenasealkB, alkylation repair homolog 3alkylated DNA repair protein alkB homolog 3prostate cancer antigen-1
Modification date2018052320180519
UniProtAcc

Q96BD5

Q96Q83

Ensembl transtripts involved in fusion geneENST00000257821, ENST00000323180, 
ENST00000418153, ENST00000527753, 
ENST00000302708, ENST00000378840, 
ENST00000532410, 
Fusion gene scores* DoF score15 X 7 X 13=13654 X 3 X 5=60
# samples 195
** MAII scorelog2(19/1365*10)=-2.84482962747627
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(5/60*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PHF21A [Title/Abstract] AND ALKBH3 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
TgeneALKBH3

GO:0006281

DNA repair

16858410

TgeneALKBH3

GO:0006307

DNA dealkylation involved in DNA repair

16858410|22055184

TgeneALKBH3

GO:0035552

oxidative single-stranded DNA demethylation

16858410

TgeneALKBH3

GO:0035553

oxidative single-stranded RNA demethylation

26863196|26863410


check button Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
TCGARVLUADTCGA-91-8497-01APHF21Achr11

46142486

-ALKBH3chr11

43904133

+
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

check button Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
5UTR-5UTRENST00000257821ENST00000302708PHF21Achr11

46142486

-ALKBH3chr11

43904133

+
5UTR-5UTRENST00000257821ENST00000378840PHF21Achr11

46142486

-ALKBH3chr11

43904133

+
5UTR-intronENST00000257821ENST00000532410PHF21Achr11

46142486

-ALKBH3chr11

43904133

+
5UTR-5UTRENST00000323180ENST00000302708PHF21Achr11

46142486

-ALKBH3chr11

43904133

+
5UTR-5UTRENST00000323180ENST00000378840PHF21Achr11

46142486

-ALKBH3chr11

43904133

+
5UTR-intronENST00000323180ENST00000532410PHF21Achr11

46142486

-ALKBH3chr11

43904133

+
5UTR-5UTRENST00000418153ENST00000302708PHF21Achr11

46142486

-ALKBH3chr11

43904133

+
5UTR-5UTRENST00000418153ENST00000378840PHF21Achr11

46142486

-ALKBH3chr11

43904133

+
5UTR-intronENST00000418153ENST00000532410PHF21Achr11

46142486

-ALKBH3chr11

43904133

+
intron-5UTRENST00000527753ENST00000302708PHF21Achr11

46142486

-ALKBH3chr11

43904133

+
intron-5UTRENST00000527753ENST00000378840PHF21Achr11

46142486

-ALKBH3chr11

43904133

+
intron-intronENST00000527753ENST00000532410PHF21Achr11

46142486

-ALKBH3chr11

43904133

+

Top

FusionProtFeatures for PHF21A_ALKBH3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
PHF21A

Q96BD5

ALKBH3

Q96Q83

Component of the BHC complex, a corepressor complex thatrepresses transcription of neuron-specific genes in non-neuronalcells. The BHC complex is recruited at RE1/NRSE sites by REST andacts by deacetylating and demethylating specific sites onhistones, thereby acting as a chromatin modifier. In the BHCcomplex, it may act as a scaffold. Inhibits KDM1A-mediateddemethylation of 'Lys-4' of histone H3 in vitro, suggesting a rolein demethylation regulation. {ECO:0000269|PubMed:16140033}. Dioxygenase that mediates demethylation of DNA and RNAcontaining 1-methyladenosine (m1A) (PubMed:12486230,PubMed:12594517, PubMed:16174769, PubMed:26863196,PubMed:26863410). Repairs alkylated DNA containing 1-methyladenosine (m1A) and 3-methylcytosine (m3C) by oxidativedemethylation (PubMed:12486230, PubMed:12594517, PubMed:16174769,PubMed:25944111). Has a strong preference for single-stranded DNA(PubMed:12486230, PubMed:12594517, PubMed:16174769). Able toprocess alkylated m3C within double-stranded regions via itsinteraction with ASCC3, which promotes DNA unwinding to generatesingle-stranded substrate needed for ALKBH3 (PubMed:22055184).Also acts on RNA (PubMed:12594517, PubMed:16174769,PubMed:26863196, PubMed:26863410, PubMed:16858410). DemethylatesN(1)-methyladenosine (m1A) RNA, an epigenetic internalmodification of messenger RNAs (mRNAs) highly enriched within 5'-untranslated regions (UTRs) and in the vicinity of start codons(PubMed:26863196, PubMed:26863410). Requires molecular oxygen,alpha-ketoglutarate and iron (PubMed:22055184, PubMed:16858410).{ECO:0000269|PubMed:12486230, ECO:0000269|PubMed:12594517,ECO:0000269|PubMed:16174769, ECO:0000269|PubMed:16858410,ECO:0000269|PubMed:22055184, ECO:0000269|PubMed:25944111,ECO:0000269|PubMed:26863196, ECO:0000269|PubMed:26863410}.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page

.

* Minus value of BPloci means that the break pointn is located before the CDS.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


Top

FusionGeneSequence for PHF21A_ALKBH3


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

Top

FusionGenePPI for PHF21A_ALKBH3


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page

.

check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors
PHF21ALPXN, HDAC1, KDM1A, HMG20B, RCOR1, HDAC2, GTF2I, TAF10, ESCO2, HIST2H3C, ELAVL1, HIST3H3, FHL3, TRAF1, ZYX, NUP62, BANP, KRT40, SCLT1, CD14, KIF22, LLGL2, SOD1, MYH13, NUPL1, HMG20A, NAF1, IP6K3, RBPJ, EXOC1, MAX, ARNTL, RPRD1A, HAUS6, PHLDB3, PTRF, OIP5, CCDC93, CCDC132, DZIP3, GRIPAP1, VPS53, PSMD9, CLOCK, RABGAP1L, GOLGA5, TUFT1, YEATS4, CCHCR1, TFPT, NCKAP5L, PKN3, GIT2, RABGEF1, NUF2, THAP11, VPS51, JUN, TSSC1ALKBH3SRPK2, SRPK1, GOLGA2, IKZF1, GLRX3, LNX1, AK8, ZDHHC17, ASCC3, SMEK1, ASCC2, TRIP4, INPPL1, ASCC1, NEU2, KRAS, HSPA5, MAP1B, TUBB2A, TUBA1A, HSPA8, THRAP3, PRMT5, FLNA, RIF1, MGA, TUBB, TCP1, CCT2, CCT4, DHX15, LTBP1, CCT6A, OTUD4, HSPA2, TUBB3, CCT8, BCLAF1, CLNS1A, HNRNPH1, MATR3, SF3B2, TAB1, EEF1A1, CCT5, TUBB4A, HSPA9, USP7, USP9X


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


Top

RelatedDrugs for PHF21A_ALKBH3


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
TgeneALKBH3Q96Q83DB00126Vitamin CAlpha-ketoglutarate-dependent dioxygenase alkB homolog 3 {ECO:0000305}small moleculeapproved|nutraceutical

Top

RelatedDiseases for PHF21A_ALKBH3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource