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Fusion gene ID: 19937

FusionGeneSummary for LNX1_IFT122

Fusion gene summary

Fusion gene information	Fusion gene name: LNX1_IFT122
	Fusion gene ID: 19937
		Hgene	Tgene
	Gene symbol	LNX1	IFT122
	Gene ID	84708	55764
	Gene name	ligand of numb-protein X 1	intraflagellar transport 122
	Synonyms	LNX\|MPDZ\|PDZRN2	CED\|CED1\|SPG\|WDR10\|WDR10p\|WDR140
	Cytomap	4q12	3q21.3-q22.1
	Type of gene	protein-coding	protein-coding
	Description	E3 ubiquitin-protein ligase LNXPDZ domain-containing ring finger protein 2RING-type E3 ubiquitin transferase LNXligand of numb-protein X 1, E3 ubiquitin protein ligasemulti-PDZ-domain-containing protein, E3 ubiquitin-protein ligase LNXnumb-binding pr	intraflagellar transport protein 122 homologWD repeat domain 10WD repeat-containing protein 10WD repeat-containing protein 140intraflagellar transport 122 homolog
	Modification date	20180522	20180523
	UniProtAcc	Q8TBB1	Q9HBG6
	Ensembl transtripts involved in fusion gene	ENST00000306888, ENST00000263925, ENST00000504605,	ENST00000347300, ENST00000296266, ENST00000507564, ENST00000431818, ENST00000504021, ENST00000349441, ENST00000348417, ENST00000440957, ENST00000513932,
Fusion gene scores	* DoF score	5 X 3 X 4=60	4 X 4 X 2=32
	# samples	5	4
	** MAII score	log2(5/60*10)=-0.263034405833794 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(4/32*10)=0.321928094887362 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0
Context	PubMed: LNX1 [Title/Abstract] AND IFT122 [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	RV	LUSC	TCGA-43-7657-01A	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+

* 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	ENST00000306888	ENST00000347300	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-3CDS	ENST00000306888	ENST00000296266	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-3CDS	ENST00000306888	ENST00000507564	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-5UTR	ENST00000306888	ENST00000431818	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-5UTR	ENST00000306888	ENST00000504021	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-5UTR	ENST00000306888	ENST00000349441	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-5UTR	ENST00000306888	ENST00000348417	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-5UTR	ENST00000306888	ENST00000440957	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-intron	ENST00000306888	ENST00000513932	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
Frame-shift	ENST00000263925	ENST00000347300	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
Frame-shift	ENST00000263925	ENST00000296266	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
Frame-shift	ENST00000263925	ENST00000507564	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
5CDS-5UTR	ENST00000263925	ENST00000431818	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
5CDS-5UTR	ENST00000263925	ENST00000504021	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
5CDS-5UTR	ENST00000263925	ENST00000349441	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
5CDS-5UTR	ENST00000263925	ENST00000348417	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
5CDS-5UTR	ENST00000263925	ENST00000440957	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
5CDS-intron	ENST00000263925	ENST00000513932	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-3CDS	ENST00000504605	ENST00000347300	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-3CDS	ENST00000504605	ENST00000296266	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-3CDS	ENST00000504605	ENST00000507564	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-5UTR	ENST00000504605	ENST00000431818	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-5UTR	ENST00000504605	ENST00000504021	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-5UTR	ENST00000504605	ENST00000349441	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-5UTR	ENST00000504605	ENST00000348417	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-5UTR	ENST00000504605	ENST00000440957	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+
intron-intron	ENST00000504605	ENST00000513932	LNX1	chr4	54439790	-	IFT122	chr3	129168714	+

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FusionProtFeatures for LNX1_IFT122

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

Hgene	Tgene
LNX1 Q8TBB1	IFT122 Q9HBG6

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Fusion gene ID: 19937

FusionGeneSummary for LNX1_IFT122

FusionProtFeatures for LNX1_IFT122