PAX3--NCOA1

Hyperlinks to databases below
COSMIC CHIMERKB CHIMERPUB CHIMERSEQ CHITARS
FARE-CAFE TICDB TUMOR_FUSION_GDPFusionCancerConjoinG
1000Genome18CancersBodymap2HPANon_Tumor_Cells
Babiceanu_DatasetBanned_DatasetKnown_FusionsONGene DatabaseBushman Cancer Gene Database
Tumor Gene Set By UniprotOesophagus_DatasetGliomas_DatasetProstate_DatasetPancreases_Dataset
GTExKlijn_DatasetFimereli_Dataset Literature Cortex_Dataset
ChromothripsisDB

Link to Genecards:

PAX3 NCOA1

COSMIC

The fusion gene pair PAX3--NCOA1 information is available in COSMIC database.

Link
PAX3--NCOA1

ChimerKB

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The fusion gene pair PAX3--NCOA1 information is available in CHIMERKB (CHIMERDB 3.0) database.

Fusion_pair5'Gene Junction (Chr/Position/Strand)3'Gene Junction (Chr/Position/Strand)Breakpoint_TypeGenome_BuildDiseaseValidationPMIDGene TypeSource
PAX3_NCOA1-/1539/ -/3071/ Exonic hg19 - - - - Cosmic_recurrent
PAX3_NCOA1-/1324/ -/3252/ Exonic hg19 - - - - Cosmic_recurrent
PAX3_NCOA1-/-/ -/-/ - hg19 rhabdomyosarcoma - 15313887 - Cosmic_nonrecurrent
PAX3_NCOA1-/-/ -/-/ - hg19 rhabdomyosarcoma - 19953635 - Cosmic_nonrecurrent
PAX3_NCOA1chr2/222871578/ chr2/24802959/ Exonic hg18 - - - - ChimerDB2

ChimerPUB

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The fusion gene pair PAX3--NCOA1 information is available in CHIMERPUB (CHIMERDB 3.0) database.

Fusion_pairTranslocationPMIDDiseaseValidationGene TypeSentence_highlight
PAX3_NCOA1t(2;2) / t(2;8) / t(2;13)(q35;q14) / t(1;13)(p36;q14) / t(2;2)(p23;q35) / t(2;8)(q35;q13) / 19953635rhabdomyosarcoma;sarcoma FISH;PCR;RT-PCR - The PAX3-NCOA1 and PAX3-NCOA2 transcripts encode chimeric proteins composed of the paired-box and homeodomain DNA-binding domains of PAX3, and the CID domain, the Q-rich region, and the activation domain 2 (AD2) domain of NCOA1 or NCOA2. /// "The PAX3-NCOA1 and PAX3-NCOA2 transcripts encode chimeric proteins composed of the paired-box and homeodomain DNA-binding domains of PAX3, and the CID domain, the Q-rich region, and the activation domain 2 (AD2) domain of NCOA1 or NCOA2."

ChimerSEQ

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The fusion gene pair PAX3--NCOA1 information is available in CHIMERSEQ (CHIMERDB 3.0) database.

Fusion_pair5'Gene Junction (Chr/Position/Strand)3'Gene Junction (Chr/Position/Strand)5'Gene_locus3'Gene_locusBreakpoint_TypeGenome_BuildFrameChr_infoCancertype_or_diseaseBarcodeIDGene TypeSource
PAX3_NCOA1chr2/223163334/ chr2/24949456/ 2q36.1 2p23.3 Exonic hg19 - Intra-chr rhabdomyosarcoma AY633656 - ChiTaRs

ChiTaRS 2.1

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The fusion gene pair PAX3--NCOA1 information is available in CHITARS database.

OrganismChimeraIDFusion genepairHead geneTail gene
GeneChromosomeGenomic_startGenomic_stopStrandFusiongene_startposFusiongene_endpos%IdentGeneChromosomeGenomic_startGenomic_stopStrandFusiongene_startposFusiongene_endpos%Ident
Human AY633656PAX3--NCOA1 PAX32 223085940 223163334 - 1 956 100 NCOA12 24949456 24991385 + 954 2861 99.9

FARE-CAFE

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The fusion gene pair PAX3--NCOA1 information is available in FARE-CAFE.

Cancer Information
Fusion_ProteinCancer_TypeFP_Experimental_MethodFP_KaryotypeFP_Reference
PAX3-NCOA1 Rhabdomyosarcoma FISH,RT-PCR t(2;2)(p23;q35) PubMed:19953635

Genomic Information
Fusion_ProteinFusion_Protein_Isoforms5'_ProteinF_B_PFBP_in_Exon/Intron5'_Protein_on_Positive/Negative_Strands3'_ProteinS_B_P3'_Protein_on_Positive/Negative_StrandsSBP_in_Exon/IntronFusion_Protein_mRNA_sequenceFusion_Protein_ReferenceFusion_Protein_GenbankID
PAX3-NCOA1 PAX3-NCOA1-Isoform1 PAX3 _ _ 0 NCOA1 _ 1 _ tctattccacaagGattacctga 15313887 _
PAX3-NCOA1 PAX3-NCOA1-Isoform2 PAX3 _ _ 0 NCOA1 _ 1 _ gcctctcacctcagTttacagctgacc 19953635 _
PAX3-NCOA1 PAX3-NCOA1-Isoform3 PAX3 _ _ 0 NCOA1 _ 1 _ tctattccacaagGattacctgag 19953635 _

Domains and DDI Information
Fusion_ProteinFusion_Protein_IsoformsDomains_in_5'PartnerDDIs_for_Domains_in_5'PartnerDomains_in_3'PartnerDDIs_for_Domains_in_3'Partner5'_Protein5'P_Domains5'P_Domains_DDI_partners3'_Protein3'P_Domains3'P_Domains_DDI_partnersMissing_FP_DomainsMissing_FP_Domains_DDI
PAX3-NCOA1 PAX3-NCOA1-Isoform1 - - - -PAX3 1) PAX
1) Ets
NCOA1 1) DUF1518
2) Nuc_rec_co-act
3) PAS
4) SRC-1
1) Creb_binding
2) PAS , PAS_11 , Response_reg
3) Hormone_recep
1) PAX
2) DUF1518
3) Nuc_rec_co-act
4) PAS
5) SRC-1
1) Ets
2) Creb_binding
3) PAS , PAS_11 , Response_reg
4) Hormone_recep
PAX3-NCOA1 PAX3-NCOA1-Isoform2 - - - -PAX3 1) PAX
1) Ets
NCOA1 1) DUF1518
2) Nuc_rec_co-act
3) PAS
4) SRC-1
1) Creb_binding
2) PAS , PAS_11 , Response_reg
3) Hormone_recep
1) PAX
2) DUF1518
3) Nuc_rec_co-act
4) PAS
5) SRC-1
1) Ets
2) Creb_binding
3) PAS , PAS_11 , Response_reg
4) Hormone_recep
PAX3-NCOA1 PAX3-NCOA1-Isoform3 - - - -PAX3 1) PAX
1) Ets
NCOA1 1) DUF1518
2) Nuc_rec_co-act
3) PAS
4) SRC-1
1) Creb_binding
2) PAS , PAS_11 , Response_reg
3) Hormone_recep
1) PAX
2) DUF1518
3) Nuc_rec_co-act
4) PAS
5) SRC-1
1) Ets
2) Creb_binding
3) PAS , PAS_11 , Response_reg
4) Hormone_recep

miRNA Information
Fusion_ProteinmiRNAs_Targets_Fusion_proteinMissing_MiRNAs_Targets_Fusion_proteinFP_miRNA_Validation_method
PAX3-NCOA1 _ hsa-miR-1hsa-miR-206hsa-miR-27a-3phsa-miR-27b-3phsa-miR-324-5phsa-let-7e-5phsa-let-7b-5p _

Transcription Factors Information
Fusion_Protein5'P_Ref_mRNA_seqIDFP_Transcription_factorsFP_Missing_TFsFP_TF_Reference
PAX3-NCOA1 NM_000438.5 1) TRIM28_HUMAN
2) MITF_HUMAN
3) STAT1_HUMAN
4) PRDM14_HUMAN
5) EGR1_HUMAN
6) GATA3_HUMAN
7) SOX2_HUMAN
8) TFAP2C_HUMAN
9) FOXA1_HUMAN
10) CEBPA_HUMAN
11) CTCF_HUMAN
1) STAT1
2) RB1_HUMAN
3) RBL2_HUMAN
4) ETS1_HUMAN
5) FOS_HUMAN
6) GATA2_HUMAN
7) E2F1_HUMAN
8) BRG1_HUMAN
9) HNF4A_HUMAN
10) ESR1_HUMAN
11) ESR2_HUMAN
12) SETDB1_HUMAN
13) SPI1_HUMAN
14) TRIM24_HUMAN
1) 17542650
2) 21258399
3) 19122651
4) 20953172
5) 20690147
6) 21878914
7) 21211035
8) 21572391
9) 21572391
10) 20219941
11) 20219941

TicDB

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The fusion gene pair PAX3--NCOA1 information is available in TICDB.
HeadGeneTailGenePubmedIDSequence
PAX3 NCOA1 15313887 tctattccacaagGattacctga
PAX3 NCOA1 19953635 gcctctcacctcagTttacagctgacc
PAX3 NCOA1 19953635 tctattccacaagGattacctgag

TUMOR FUSION Gene Data Portal

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The fusion gene pair PAX3--NCOA1 information is not available in TUMOR FUSION Gene Data Portal.

FusionCancer

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The fusion gene pair PAX3--NCOA1 information is not available in FusionCancer Database.

ConjoinG

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The fusion gene pair PAX3--NCOA1 information is not available in ConjoinG Database.

1000Genome

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Fusion gene PAX3--NCOA1 has not been seen in a healthy sample (RNA-seq data from some samples from 1000 genomes project: Greger et al., Tandem RNA Chimeras Contribute to Transcriptome Diversity in Human Population and Are Associated with Intronic Genetic Variants, Plos One, Aug 2014 ). Therefore this candidate fusion gene has a low probability of being a false positive. [Fusion gene List compiled from FusionCatcher]

18Cancers

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Fusion gene PAX3--NCOA1 is not found in a RNA-seq dataset of 18 types of cancers from 600 tumor samples (B. Alaei-Mahabadia et al., Global analysis of somatic structural genomic alterations and their impact on gene expression in diverse human cancers, PNAS, Nov. 2016 )

Bodymap2

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Fusion gene PAX3--NCOA1 is not found in the list of known false positive fusion genes. The list has been generated from healthy human samples collected from 16 organs from Illumina BodyMap2 RNA-seq database. A candidate fusion gene found in this list has a very high probability of being a false positive. [Fusion gene List compiled from FusionCatcher]

HPA

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Fusion gene PAX3--NCOA1 is not found in a healthy sample (RNA-seq database of 27 healthy tissues from 95 human individuals). A candidate fusion gene found in this dataset has a very high probability of being a false positive. [Fusion gene List compiled from FusionCatcher]

Non_Tumor_Cells

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Fusion gene PAX3--NCOA1 was not found among the fusion genes which have been previously reported/found in non-tumor cell lines, like for example HEK293. The genes which are observed in those list can be considered as non-somatic mutation. [Fusion gene List compiled from FusionCatcher]

Babiceanu_Dataset

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The fusion gene pair PAX3--NCOA1 information is not available in Babiceanu_Dataset.

Banned_Dataset

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Fusion gene PAX3--NCOA1 is not found in the list of known false positive fusion genes. A candidate fusion gene found in this list has a very high probability of being a false positive. [Fusion gene List compiled from FusionCatcher]

Known_Fusions

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Fusion gene PAX3--NCOA1 has not been found in the list of fusions previously reported or published in scientific articles/reports/books/abstracts/databases, indexed by Google, Google Scholar, PubMed, etc. The list has been manually curated by FusionCatcher software. This label has only the role to answer with YES or NO the question "has ever before a given (candidate) fusion gene been published or reported?". This label does not have in anyway the role to provide the original references to the original scientific articles/reports/books/abstracts/databases for a given fusion gene.[Fusion gene List compiled from FusionCatcher]

ONGene Database

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The head gene PAX3 is a known oncogene according to ONGENE database.
The tail gene NCOA1 is not a known oncogene according to ONGENE database.

Bushman Cancer Gene Database

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The head gene PAX3 is cancer associated according to Bushman Cancer Gene database.


The tail gene NCOA1 is cancer associated according to Bushman Cancer Gene database.

Tumor Gene Set By Uniprot

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The head gene PAX3 is proto-oncogene or tumor suppresor gene according to Uniprot database.


The tail gene NCOA1 is proto-oncogene or tumor suppresor gene according to Uniprot database.

Oesophagus_Dataset

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Fusion gene PAX3--NCOA1 is not found in oesophageal tumors from TCGA samples, which are published here.

Gliomas_Dataset

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Fusion gene PAX3--NCOA1 is not found in the RNA-seq dataset of 272 glioblastomas, published here.

Prostate_Dataset

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The fusion gene pair PAX3--NCOA1 information is not available in Prostate Dataset (150 prostate tumor RNAs, Robison et al, Integrative Clinical Genomics of Advanced Prostate Cancer, Cell, Vol. 161, May 2015, http://dx.doi.org/10.1016/j.cell.2015.05.001).

Pancreases_Dataset

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Fusion gene PAX3--NCOA1 is not found in pancreatic tumor dataset, published here.

GTEx

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Fusion gene PAX3--NCOA1 has not been found in a healthy sample (GTEx database of healthy tissues (thru FusionAnnotator)). A candidate fusion gene found in this set has a very high probability of being a false positive. [Fusion gene List compiled from FusionCatcher]

Klijin_Dataset

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The fusion gene pair PAX3--NCOA1 information is not available in Klijn Dataset.

Fimereli_Dataset

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The fusion gene pair PAX3--NCOA1 information is not found in Fimereli_Dataset.

Literature

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The fusion gene pair PAX3--NCOA1 is found in known fusion genelist compiled from literature.

FusionGeneArticleLink
PAX3--NCOA1The pathology of soft tissue sarcomas (Marta Sbaraglia and Angelo P. Dei Tos; ONCOLOGY IMAGING)https://doi.org/10.1007/s11547-018-0882-7
PAX3--NCOA1The pathology of soft tissue sarcomas (Marta Sbaraglia and Angelo P. Dei Tos; ONCOLOGY IMAGING)https://doi.org/10.1007/s11547-018-0882-7

Cortex_Dataset

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Fusion gene PAX3--NCOA1 is not found in Cortex_Dataset (Fusion genes found in healthy human brains (BA9 prefrontal cortex)) . A candidate fusion gene found in this dataset has a very high probability of being a false positive.

ChromothripsisDB

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The fusion gene pair PAX3--NCOA1 information is not available in ChromothripsisDB database.