	FusionGeneSummary
	FusionProtFeature
	FusionGeneSequence
	FusionGenePPI
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	RelatedDiseases

Fusion gene ID: 41729

FusionGeneSummary for WARS2_TPST1

Fusion gene summary

Fusion gene information	Fusion gene name: WARS2_TPST1
	Fusion gene ID: 41729
		Hgene	Tgene
	Gene symbol	WARS2	TPST1
	Gene ID	10352	8460
	Gene name	tryptophanyl tRNA synthetase 2, mitochondrial	tyrosylprotein sulfotransferase 1
	Synonyms	NEMMLAS\|TrpRS	TANGO13A
	Cytomap	1p12	7q11.21
	Type of gene	protein-coding	protein-coding
	Description	tryptophan--tRNA ligase, mitochondrial(Mt)TrpRStryptophan tRNA ligase 2, mitochondrial	protein-tyrosine sulfotransferase 1TPST-1transport and golgi organization 13 homolog A
	Modification date	20180523	20180523
	UniProtAcc	Q9UGM6	O60507
	Ensembl transtripts involved in fusion gene	ENST00000369426, ENST00000235521, ENST00000537870, ENST00000497761,	ENST00000304842, ENST00000480281,
Fusion gene scores	* DoF score	12 X 5 X 10=600	4 X 3 X 3=36
	# samples	12	4
	** MAII score	log2(12/600*10)=-2.32192809488736 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: WARS2 [Title/Abstract] AND TPST1 [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)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Tgene	TPST1	GO:0006478	peptidyl-tyrosine sulfation	9501187

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 type	Source	Cancer type	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
TCGA	RV	BRCA	TCGA-E9-A243-01A	WARS2	chr1	119618973	-	TPST1	chr7	65817492	+

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

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.

ORF	Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
In-frame	ENST00000369426	ENST00000304842	WARS2	chr1	119618973	-	TPST1	chr7	65817492	+
5CDS-3UTR	ENST00000369426	ENST00000480281	WARS2	chr1	119618973	-	TPST1	chr7	65817492	+
In-frame	ENST00000235521	ENST00000304842	WARS2	chr1	119618973	-	TPST1	chr7	65817492	+
5CDS-3UTR	ENST00000235521	ENST00000480281	WARS2	chr1	119618973	-	TPST1	chr7	65817492	+
In-frame	ENST00000537870	ENST00000304842	WARS2	chr1	119618973	-	TPST1	chr7	65817492	+
5CDS-3UTR	ENST00000537870	ENST00000480281	WARS2	chr1	119618973	-	TPST1	chr7	65817492	+
intron-3CDS	ENST00000497761	ENST00000304842	WARS2	chr1	119618973	-	TPST1	chr7	65817492	+
intron-3UTR	ENST00000497761	ENST00000480281	WARS2	chr1	119618973	-	TPST1	chr7	65817492	+

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FusionProtFeatures for WARS2_TPST1

Main function of each fusion partner protein. (from UniProt)

Hgene	Tgene
WARS2 Q9UGM6	TPST1 O60507
Mitochondrial aminoacyl-tRNA synthetase that activateand transfer the amino acids to their corresponding tRNAs duringthe translation of mitochondrial genes and protein synthesis.{ECO:0000305\|PubMed:28650581}.	Catalyzes the O-sulfation of tyrosine residues withinacidic motifs of polypeptides, using 3'-phosphoadenylyl sulfate(PAPS) as cosubstrate. {ECO:0000269\|PubMed:28821720,ECO:0000269\|PubMed:9501187, ECO:0000269\|PubMed:9733778}.

Retention 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.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Hgene

WARS2

chr1:119618973

chr7:65817492

ENST00000235521

48_51

116

361

Nucleotide binding

ATP

Hgene

WARS2

chr1:119618973

chr7:65817492

ENST00000369426

48_51

116

221

Nucleotide binding

ATP

- In-frame and not-retained protein feature among the 13 regional features.

>>>>

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Hgene

WARS2

chr1:119618973

chr7:65817492

ENST00000235521

179_181

116

361

Nucleotide binding

ATP

Hgene

WARS2

chr1:119618973

chr7:65817492

ENST00000235521

226_230

116

361

Nucleotide binding

ATP

Hgene

WARS2

chr1:119618973

chr7:65817492

ENST00000369426

179_181

116

221

Nucleotide binding

ATP

Hgene

WARS2

chr1:119618973

chr7:65817492

ENST00000369426

226_230

116

221

Nucleotide binding

ATP

Tgene

TPST1

chr1:119618973

chr7:65817492

ENST00000304842

286_295

348

446

Region

PAPS binding

Tgene

TPST1

chr1:119618973

chr7:65817492

ENST00000304842

79_83

348

446

Region

PAPS binding

Tgene

TPST1

chr1:119618973

chr7:65817492

ENST00000304842

1_8

348

446

Topological domain

Cytoplasmic

Tgene

TPST1

chr1:119618973

chr7:65817492

ENST00000304842

26_370

348

446

Topological domain

Lumenal

Tgene

TPST1

chr1:119618973

chr7:65817492

ENST00000304842

9_25

348

446

Transmembrane

Helical%3B Signal-anchor for type II membrane protein

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FusionGeneSequence for WARS2_TPST1

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.

>In-frame_WARS2_ENST00000369426_chr1_119618973_-_TPST1_ENST00000304842_chr7_65817492_+_139aa
MALHSMRKARERWSFIRALHKGSAAAPALQKDSKKRVFSGIQPTGILHLGNYLGAIESWVRLQDEYDSVLYSIVDLHSITVPQDPAVLRQ

>In-frame_WARS2_ENST00000235521_chr1_119618973_-_TPST1_ENST00000304842_chr7_65817492_+_139aa
MALHSMRKARERWSFIRALHKGSAAAPALQKDSKKRVFSGIQPTGILHLGNYLGAIESWVRLQDEYDSVLYSIVDLHSITVPQDPAVLRQ

>In-frame_WARS2_ENST00000537870_chr1_119618973_-_TPST1_ENST00000304842_chr7_65817492_+_45aa

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

>In-frame_WARS2_ENST00000369426_chr1_119618973_-_TPST1_ENST00000304842_chr7_65817492_+_417nt
ATGGCGCTGCACTCAATGCGGAAAGCGCGTGAGCGCTGGAGCTTCATCCGGGCACTTCATAAGGGATCCGCAGCTGCTCCCGCTCTCCAG
AAAGACAGCAAGAAGCGAGTATTTTCCGGCATTCAACCTACAGGAATCCTCCACCTGGGCAATTACCTGGGAGCCATTGAGAGCTGGGTG
AGGTTACAGGATGAATATGACTCTGTATTATACAGCATTGTTGACCTCCACTCCATTACTGTCCCCCAAGACCCAGCTGTCCTTCGGCAG
AGCATCCTGGACATGACTGCTGTTCTTCTTGCCTGTGGCATAAACCCGGAAAAAAGCATCCTTTTCCAACAATCTCAGGTCTATAAGGGA

>In-frame_WARS2_ENST00000235521_chr1_119618973_-_TPST1_ENST00000304842_chr7_65817492_+_417nt
ATGGCGCTGCACTCAATGCGGAAAGCGCGTGAGCGCTGGAGCTTCATCCGGGCACTTCATAAGGGATCCGCAGCTGCTCCCGCTCTCCAG
AAAGACAGCAAGAAGCGAGTATTTTCCGGCATTCAACCTACAGGAATCCTCCACCTGGGCAATTACCTGGGAGCCATTGAGAGCTGGGTG
AGGTTACAGGATGAATATGACTCTGTATTATACAGCATTGTTGACCTCCACTCCATTACTGTCCCCCAAGACCCAGCTGTCCTTCGGCAG
AGCATCCTGGACATGACTGCTGTTCTTCTTGCCTGTGGCATAAACCCGGAAAAAAGCATCCTTTTCCAACAATCTCAGGTCTATAAGGGA

>In-frame_WARS2_ENST00000537870_chr1_119618973_-_TPST1_ENST00000304842_chr7_65817492_+_135nt
ATGACTGCTGTTCTTCTTGCCTGTGGCATAAACCCGGAAAAAAGCATCCTTTTCCAACAATCTCAGGTCTATAAGGGAGAATTCCAACTA

* Fusion transcript sequences (Full-length transcript).

>In-frame_WARS2_ENST00000369426_chr1_119618973_-_TPST1_ENST00000304842_chr7_65817492_+_999nt
CAAGATGGCGCTGCACTCAATGCGGAAAGCGCGTGAGCGCTGGAGCTTCATCCGGGCACTTCATAAGGGATCCGCAGCTGCTCCCGCTCT
CCAGAAAGACAGCAAGAAGCGAGTATTTTCCGGCATTCAACCTACAGGAATCCTCCACCTGGGCAATTACCTGGGAGCCATTGAGAGCTG
GGTGAGGTTACAGGATGAATATGACTCTGTATTATACAGCATTGTTGACCTCCACTCCATTACTGTCCCCCAAGACCCAGCTGTCCTTCG
GCAGAGCATCCTGGACATGACTGCTGTTCTTCTTGCCTGTGGCATAAACCCGGAAAAAAGCATCCTTTTCCAACAATCTCAGGTCTATAA
GGGAGAATTCCAACTACCTGACTTTCTTAAAGAAAAACCACAGACTGAGCAAGTGGAGTAGCAGAACCAGGAGCCTCTTCCATACATGAG
GAAAGATTGCTGCCTTTTCAGCAGAAGGGAAATTCCTAGGATTGGCTGTCCCCTGCCAAGCTTGGTGGAGCGTCTGCACCTTGGCTGCGC
CGCCTGTGCATTTGCCAGTTTCCTCCCACTGAGAGGATGGAGGTGTCCGCACAGCTTTGGGCCTCGTGAGGGATCTGCCTCCTGAGCAAA
GAGCTCTTGATCCCGATTTCATGCACAGCCCTGCAGTAAGGAGCCCAGAAGGAACATGTGTTTCCTGTTAAAACTCCTCTTGTTCTCTTT
TCTTACATTATGACGTTTGTTTTCAAGGAGAGGGTTTAAAAATGGGATCCTGTAAGCAGACTTGGGCAGTCTCCTTTTGAAATAGGTTGT
CTGTACATGTTCTAATGTTTTGTAGAACACGTGTGCCTGTTTAAGTGTATTGATGTGAATAATATTAAATATCCTAATTATTTAATTCAT
TGTATTGTTTCTGAGAAGTTGGGAAATTACCATTATACATTTACAACCTAATGACTTTTGTATTTTATTTTTCAAAATAAAAGCTTTCAA

>In-frame_WARS2_ENST00000235521_chr1_119618973_-_TPST1_ENST00000304842_chr7_65817492_+_1022nt
AAACAAGACGGCTCCGCCCTTCTCAAGATGGCGCTGCACTCAATGCGGAAAGCGCGTGAGCGCTGGAGCTTCATCCGGGCACTTCATAAG
GGATCCGCAGCTGCTCCCGCTCTCCAGAAAGACAGCAAGAAGCGAGTATTTTCCGGCATTCAACCTACAGGAATCCTCCACCTGGGCAAT
TACCTGGGAGCCATTGAGAGCTGGGTGAGGTTACAGGATGAATATGACTCTGTATTATACAGCATTGTTGACCTCCACTCCATTACTGTC
CCCCAAGACCCAGCTGTCCTTCGGCAGAGCATCCTGGACATGACTGCTGTTCTTCTTGCCTGTGGCATAAACCCGGAAAAAAGCATCCTT
TTCCAACAATCTCAGGTCTATAAGGGAGAATTCCAACTACCTGACTTTCTTAAAGAAAAACCACAGACTGAGCAAGTGGAGTAGCAGAAC
CAGGAGCCTCTTCCATACATGAGGAAAGATTGCTGCCTTTTCAGCAGAAGGGAAATTCCTAGGATTGGCTGTCCCCTGCCAAGCTTGGTG
GAGCGTCTGCACCTTGGCTGCGCCGCCTGTGCATTTGCCAGTTTCCTCCCACTGAGAGGATGGAGGTGTCCGCACAGCTTTGGGCCTCGT
GAGGGATCTGCCTCCTGAGCAAAGAGCTCTTGATCCCGATTTCATGCACAGCCCTGCAGTAAGGAGCCCAGAAGGAACATGTGTTTCCTG
TTAAAACTCCTCTTGTTCTCTTTTCTTACATTATGACGTTTGTTTTCAAGGAGAGGGTTTAAAAATGGGATCCTGTAAGCAGACTTGGGC
AGTCTCCTTTTGAAATAGGTTGTCTGTACATGTTCTAATGTTTTGTAGAACACGTGTGCCTGTTTAAGTGTATTGATGTGAATAATATTA
AATATCCTAATTATTTAATTCATTGTATTGTTTCTGAGAAGTTGGGAAATTACCATTATACATTTACAACCTAATGACTTTTGTATTTTA

>In-frame_WARS2_ENST00000537870_chr1_119618973_-_TPST1_ENST00000304842_chr7_65817492_+_962nt
CTTGCCGCCACCTCCAGTTCTGGGAGCGGAGCGCCGCCGCTGTTGCCGGGCAACGCGAAAGACAGCAAGAAGCGAGTATTTTCCGGCATT
CAACCTACAGGAATCCTCCACCTGGGCAATTACCTGGGAGCCATTGAGAGCTGGGTGAGGTTACAGGATGAATATGACTCTGTATTATAC
AGCATTGTTGACCTCCACTCCATTACTGTCCCCCAAGACCCAGCTGTCCTTCGGCAGAGCATCCTGGACATGACTGCTGTTCTTCTTGCC
TGTGGCATAAACCCGGAAAAAAGCATCCTTTTCCAACAATCTCAGGTCTATAAGGGAGAATTCCAACTACCTGACTTTCTTAAAGAAAAA
CCACAGACTGAGCAAGTGGAGTAGCAGAACCAGGAGCCTCTTCCATACATGAGGAAAGATTGCTGCCTTTTCAGCAGAAGGGAAATTCCT
AGGATTGGCTGTCCCCTGCCAAGCTTGGTGGAGCGTCTGCACCTTGGCTGCGCCGCCTGTGCATTTGCCAGTTTCCTCCCACTGAGAGGA
TGGAGGTGTCCGCACAGCTTTGGGCCTCGTGAGGGATCTGCCTCCTGAGCAAAGAGCTCTTGATCCCGATTTCATGCACAGCCCTGCAGT
AAGGAGCCCAGAAGGAACATGTGTTTCCTGTTAAAACTCCTCTTGTTCTCTTTTCTTACATTATGACGTTTGTTTTCAAGGAGAGGGTTT
AAAAATGGGATCCTGTAAGCAGACTTGGGCAGTCTCCTTTTGAAATAGGTTGTCTGTACATGTTCTAATGTTTTGTAGAACACGTGTGCC
TGTTTAAGTGTATTGATGTGAATAATATTAAATATCCTAATTATTTAATTCATTGTATTGTTTCTGAGAAGTTGGGAAATTACCATTATA

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FusionGenePPI for WARS2_TPST1

Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in
ChiPPI page
.

Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)

Hgene	Hgene's interactors	Tgene	Tgene's interactors
WARS2	APP, RMND5A	TPST1	ACTB, GINM1, CD97, SCGB2A2, B2M

- Retained PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost PPIs in in-frame fusion.

Partner	Gene	Hbp	Tbp	ENST	Strand	BPexon	TotalExon	Protein feature loci	*BPloci	TotalLen	Interaction lost with
Tgene	TPST1	chr1:119618973	chr7:65817492	ENST00000304842	+	2	6	102_106	348	446	peptide substrate

- Retained PPIs, but lost function due to frame-shift fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

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RelatedDrugs for WARS2_TPST1

Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)

Partner	Gene	UniProtAcc	DrugBank ID	Drug name	Drug activity	Drug type	Drug status
Hgene	WARS2	Q9UGM6	DB00150	L-Tryptophan	Tryptophan--tRNA ligase, mitochondrial	small molecule	approved\|nutraceutical\|withdrawn

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RelatedDiseases for WARS2_TPST1

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source

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Fusion gene ID: 41729

FusionGeneSummary for WARS2_TPST1

FusionProtFeatures for WARS2_TPST1

FusionGeneSequence for WARS2_TPST1

FusionGenePPI for WARS2_TPST1

RelatedDrugs for WARS2_TPST1

RelatedDiseases for WARS2_TPST1