	FusionGeneSummary
	FusionProtFeature
	FusionGeneSequence
	FusionGenePPI
	RelatedDrugs
	RelatedDiseases

Fusion gene ID: 42289

FusionGeneSummary for YARS_ST3GAL3

Fusion gene summary

Fusion gene information	Fusion gene name: YARS_ST3GAL3
	Fusion gene ID: 42289
		Hgene	Tgene
	Gene symbol	YARS	ST3GAL3
	Gene ID	8565	6487
	Gene name	tyrosyl-tRNA synthetase	ST3 beta-galactoside alpha-2,3-sialyltransferase 3
	Synonyms	CMTDIC\|TYRRS\|YRS\|YTS	EIEE15\|MRT12\|SIAT6\|ST3GALII\|ST3Gal III\|ST3GalIII\|ST3N
	Cytomap	1p35.1	1p34.1
	Type of gene	protein-coding	protein-coding
	Description	tyrosine--tRNA ligase, cytoplasmictyrosine tRNA ligase 1, cytoplasmictyrosyl--tRNA ligasetyrosyl-tRNA synthetase, cytoplasmic	CMP-N-acetylneuraminate-beta-1,4-galactoside alpha-2,3-sialyltransferaseGal beta-1,3(4)GlcNAc alpha-2,3 sialyltransferasealpha 2,3-ST 3alpha 2,3-sialyltransferase IIIalpha-2,3-sialyltransferase IIsialyltransferase 6 (N-acetyllacosaminide alpha 2,3-si
	Modification date	20180523	20180524
	UniProtAcc	P54577	Q11203
	Ensembl transtripts involved in fusion gene	ENST00000469100, ENST00000373477,	ENST00000262915, ENST00000372375, ENST00000351035, ENST00000372374, ENST00000353126, ENST00000545417, ENST00000330208, ENST00000335430, ENST00000372377, ENST00000361392, ENST00000361400, ENST00000347631, ENST00000361812, ENST00000372362, ENST00000531451, ENST00000372366, ENST00000372365, ENST00000372368, ENST00000332628, ENST00000372372, ENST00000531816, ENST00000528371, ENST00000372369, ENST00000531993, ENST00000361746, ENST00000533933, ENST00000372367, ENST00000461375,
Fusion gene scores	* DoF score	7 X 8 X 7=392	6 X 6 X 6=216
	# samples	10	6
	** MAII score	log2(10/392*10)=-1.97085365434048 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(6/216*10)=-1.84799690655495 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: YARS [Title/Abstract] AND ST3GAL3 [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

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	LD	LUAD	TCGA-49-4514-01A	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+

* 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
intron-3CDS	ENST00000469100	ENST00000262915	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000372375	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000351035	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000372374	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000353126	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000545417	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000330208	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000335430	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000372377	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000361392	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000361400	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000347631	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000361812	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000372362	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000531451	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000372366	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000372365	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000372368	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000332628	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000372372	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000531816	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000528371	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000372369	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000531993	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000361746	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000533933	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3CDS	ENST00000469100	ENST00000372367	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
intron-3UTR	ENST00000469100	ENST00000461375	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000262915	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000372375	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000351035	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000372374	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000353126	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000545417	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000330208	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000335430	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000372377	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000361392	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000361400	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000347631	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000361812	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000372362	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000531451	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000372366	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000372365	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000372368	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000332628	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000372372	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000531816	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000528371	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000372369	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000531993	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000361746	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000533933	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
Frame-shift	ENST00000373477	ENST00000372367	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+
5CDS-3UTR	ENST00000373477	ENST00000461375	YARS	chr1	33272083	-	ST3GAL3	chr1	44280563	+

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FusionProtFeatures for YARS_ST3GAL3

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

Hgene	Tgene
YARS P54577	ST3GAL3 Q11203
Catalyzes the attachment of tyrosine to tRNA(Tyr) in atwo-step reaction: tyrosine is first activated by ATP to form Tyr-AMP and then transferred to the acceptor end of tRNA(Tyr).{ECO:0000250}.

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

- 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

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FusionGeneSequence for YARS_ST3GAL3

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 YARS_ST3GAL3

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
YARS	ARF6, SAP18, EIF1B, EIF6, CDK2, DYNC1H1, METTL16, XRCC5, FN1, VCAM1, ITGA4, NRD1, SARNP, HSPA8, ENO1, SHMT2, MOV10, NXF1, EGFR, ESR1, DDB1, G3BP2, HNRNPH2, NAA10, NAA15, PROSC, TATDN1, ACTB, ACTG1, AHNAK, CLUH, CPOX, EEF1A1, SNRPA, WDR48, YARS2, NTRK1, PPP2R2A, SORT1, FOXB1, FOXH1, FOXI2, FOXL1, FOXL2, FOXQ1, MCM2, TRIM5, GTF2E2, DLD, G3BP1	ST3GAL3	ACTG1, SCAMP2, ZBTB5, RPL8

- 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

- 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 YARS_ST3GAL3

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

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RelatedDiseases for YARS_ST3GAL3

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner	Gene	Disease ID	Disease name	# pubmeds	Source
Hgene	YARS	C1842237	Charcot-Marie-Tooth Disease, Dominant Intermediate C	1	CTD_human;ORPHANET;UNIPROT
Tgene	ST3GAL3	C1970200	MENTAL RETARDATION, AUTOSOMAL RECESSIVE 12	1	UNIPROT
Tgene	ST3GAL3	C3554316	EPILEPTIC ENCEPHALOPATHY, EARLY INFANTILE, 15	1	UNIPROT

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Fusion gene ID: 42289

FusionGeneSummary for YARS_ST3GAL3

FusionProtFeatures for YARS_ST3GAL3

FusionGeneSequence for YARS_ST3GAL3

FusionGenePPI for YARS_ST3GAL3

RelatedDrugs for YARS_ST3GAL3

RelatedDiseases for YARS_ST3GAL3