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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 26008

FusionGeneSummary for PARN_ABCA3

check button Fusion gene summary
Fusion gene informationFusion gene name: PARN_ABCA3
Fusion gene ID: 26008
HgeneTgene
Gene symbol

PARN

ABCA3

Gene ID

5073

21

Gene namepoly(A)-specific ribonucleaseATP binding cassette subfamily A member 3
SynonymsDAN|DKCB6|PFBMFT4ABC-C|ABC3|EST111653|LBM180|SMDP3
Cytomap

16p13.12

16p13.3

Type of geneprotein-codingprotein-coding
Descriptionpoly(A)-specific ribonuclease PARNdeadenylating nucleasedeadenylation nucleasepolyadenylate-specific ribonucleaseATP-binding cassette sub-family A member 3ABC transporter 3ABC-C transporterATP-binding cassette transporter 3ATP-binding cassette, sub-family A (ABC1), member 3
Modification date2018052320180523
UniProtAcc

O95453

Q99758

Ensembl transtripts involved in fusion geneENST00000437198, ENST00000420015, 
ENST00000341484, ENST00000539279, 
ENST00000566021, 
ENST00000301732, 
ENST00000382381, ENST00000567910, 
Fusion gene scores* DoF score9 X 8 X 5=3603 X 4 X 3=36
# samples 104
** MAII scorelog2(10/360*10)=-1.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(4/36*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: PARN [Title/Abstract] AND ABCA3 [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

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
TCGARVBRCATCGA-B6-A0RI-01APARNchr16

14576495

-ABCA3chr16

2379855

-
* 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
5CDS-5UTRENST00000437198ENST00000301732PARNchr16

14576495

-ABCA3chr16

2379855

-
5CDS-5UTRENST00000437198ENST00000382381PARNchr16

14576495

-ABCA3chr16

2379855

-
5CDS-intronENST00000437198ENST00000567910PARNchr16

14576495

-ABCA3chr16

2379855

-
5CDS-5UTRENST00000420015ENST00000301732PARNchr16

14576495

-ABCA3chr16

2379855

-
5CDS-5UTRENST00000420015ENST00000382381PARNchr16

14576495

-ABCA3chr16

2379855

-
5CDS-intronENST00000420015ENST00000567910PARNchr16

14576495

-ABCA3chr16

2379855

-
5CDS-5UTRENST00000341484ENST00000301732PARNchr16

14576495

-ABCA3chr16

2379855

-
5CDS-5UTRENST00000341484ENST00000382381PARNchr16

14576495

-ABCA3chr16

2379855

-
5CDS-intronENST00000341484ENST00000567910PARNchr16

14576495

-ABCA3chr16

2379855

-
5CDS-5UTRENST00000539279ENST00000301732PARNchr16

14576495

-ABCA3chr16

2379855

-
5CDS-5UTRENST00000539279ENST00000382381PARNchr16

14576495

-ABCA3chr16

2379855

-
5CDS-intronENST00000539279ENST00000567910PARNchr16

14576495

-ABCA3chr16

2379855

-
intron-5UTRENST00000566021ENST00000301732PARNchr16

14576495

-ABCA3chr16

2379855

-
intron-5UTRENST00000566021ENST00000382381PARNchr16

14576495

-ABCA3chr16

2379855

-
intron-intronENST00000566021ENST00000567910PARNchr16

14576495

-ABCA3chr16

2379855

-

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FusionProtFeatures for PARN_ABCA3


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

O95453

ABCA3

Q99758

3'-exoribonuclease that has a preference for poly(A)tails of mRNAs, thereby efficiently degrading poly(A) tails.Exonucleolytic degradation of the poly(A) tail is often the firststep in the decay of eukaryotic mRNAs and is also used to silencecertain maternal mRNAs translationally during oocyte maturationand early embryonic development. Interacts with both the 3'-endpoly(A) tail and the 5'-end cap structure during degradation, theinteraction with the cap structure being required for an efficientdegradation of poly(A) tails. Involved in nonsense-mediated mRNAdecay, a critical process of selective degradation of mRNAs thatcontain premature stop codons. Also involved in degradation ofinherently unstable mRNAs that contain AU-rich elements (AREs) intheir 3'-UTR, possibly via its interaction with KHSRP. Probablymediates the removal of poly(A) tails of AREs mRNAs, whichconstitutes the first step of destabilization (PubMed:10882133,PubMed:11359775, PubMed:12748283, PubMed:15175153,PubMed:9736620). Also able to recognize and trim poly(A) tails ofmicroRNAs such as MIR21 and H/ACA box snoRNAs (small nucleolarRNAs) leading to microRNAs degradation or snoRNA increasedstability (PubMed:25049417, PubMed:22442037).{ECO:0000269|PubMed:10882133, ECO:0000269|PubMed:11359775,ECO:0000269|PubMed:12748283, ECO:0000269|PubMed:15175153,ECO:0000269|PubMed:22442037, ECO:0000269|PubMed:25049417,ECO:0000269|PubMed:9736620}. Plays an important role in the formation of pulmonarysurfactant, probably by transporting lipids such as cholesterol.

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


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FusionGeneSequence for PARN_ABCA3


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).

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FusionGenePPI for PARN_ABCA3


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
PARNSPATC1L, KHSRP, UPF1, UPF2, UPF3A, SIRT7, CSTF1, CSTF2, PARN, BARD1, MAPKAPK2, MPP6, SUMO2, HIST1H1A, BYSL, TEAD4, C9orf41, PSG1, TSR1, TULP3, FOXA1ABCA3SPINT2, ATP1B3, NRG1, MCOLN3, PTH1R, GNAI1, HLA-E, FAM189A2, ZACN, EVA1C, ASIC4, TCTN2, HTR3A, CHRND, IL17RC, ZNRF4, TMEM9B, GPR114, CD79B, TMPRSS12, MPPE1, UPK1A, PCDHB16, MANSC1, PMEL


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


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RelatedDrugs for PARN_ABCA3


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for PARN_ABCA3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgenePARNC1800706Idiopathic Pulmonary Fibrosis1CTD_human;ORPHANET
HgenePARNC4225347PULMONARY FIBROSIS AND/OR BONE MARROW FAILURE, TELOMERE-RELATED, 41UNIPROT
HgenePARNC4225356DYSKERATOSIS CONGENITA, AUTOSOMAL RECESSIVE 61UNIPROT
TgeneABCA3C0009404Colorectal Neoplasms1CTD_human
TgeneABCA3C1970456Surfactant Metabolism Dysfunction, Pulmonary, 31CTD_human;ORPHANET;UNIPROT