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	Fusion Gene Summary
	Fusion Gene Sample Information
	Fusion ORF Analysis
	Fusion Amino Acid Sequences
	Fusion Protein Functional Features
	Fusion Protein-Protein Interaction
	Related drugs with this fusion protein
	Related disease with this fusion protein

Fusion Protein:ARL16-LPIN1

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: ARL16-LPIN1
	FusionPDB ID: 6581
	FusionGDB2.0 ID: 6581
		Hgene	Tgene
	Gene symbol	ARL16	LPIN1
	Gene ID	339231	23175
	Gene name	ADP ribosylation factor like GTPase 16	lipin 1
	Synonyms	-	PAP1
	Cytomap	17q25.3	2p25.1
	Type of gene	protein-coding	protein-coding
	Description	ADP-ribosylation factor-like protein 16	phosphatidate phosphatase LPIN1
	Modification date	20200320	20200313
	UniProtAcc	Q0P5N6	Q14693
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000397498, ENST00000570561, ENST00000574938, ENST00000573392, ENST00000576135,	ENST00000256720, ENST00000396097, ENST00000396098, ENST00000404113, ENST00000464517, ENST00000396099, ENST00000425416, ENST00000449576,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	5 X 3 X 4=60	8 X 7 X 4=224
	# samples	5	8
	** MAII score	log2(5/60*10)=-0.263034405833794 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(8/224*10)=-1.48542682717024 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: ARL16 [Title/Abstract] AND LPIN1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	ARL16(79650564)-LPIN1(11905658), # samples:1
Anticipated loss of major functional domain due to fusion event.	ARL16-LPIN1 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. ARL16-LPIN1 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.

* 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 breakpoints across ARL16 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Fusion gene breakpoints across LPIN1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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Fusion Gene Sample Information

Fusion gene information from FusionGDB2.0.

Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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.

Source	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
ChiTaRS5.0	N/A	DA403287	ARL16	chr17	79650564	-	LPIN1	chr2	11905658	+

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Fusion ORF Analysis

Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	Seq length (transcript)	BP loci (transcript)	Predicted start (transcript)	Predicted stop (transcript)	Seq length (amino acids)
ENST00000397498	ARL16	chr17	79650564	-	ENST00000449576	LPIN1	chr2	11905658	+	3177	291	99	3080	993
ENST00000397498	ARL16	chr17	79650564	-	ENST00000396099	LPIN1	chr2	11905658	+	3153	291	99	3080	993
ENST00000397498	ARL16	chr17	79650564	-	ENST00000425416	LPIN1	chr2	11905658	+	3077	291	99	2972	957

DeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	No-coding score	Coding score
ENST00000397498	ENST00000449576	ARL16	chr17	79650564	-	LPIN1	chr2	11905658	+	0.001476091	0.9985239
ENST00000397498	ENST00000396099	ARL16	chr17	79650564	-	LPIN1	chr2	11905658	+	0.001460663	0.9985393
ENST00000397498	ENST00000425416	ARL16	chr17	79650564	-	LPIN1	chr2	11905658	+	0.001609067	0.9983909

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Fusion Amino Acid Sequences

For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.

>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>6581_6581_1_ARL16-LPIN1_ARL16_chr17_79650564_ENST00000397498_LPIN1_chr2_11905658_ENST00000396099_length(amino acids)=993AA_BP=64
MRVAGGRALSRGAELRVPGGAKHGMCLLLGATGVGKTLLVKRLQEVSSRDGKGDLGEPPPTRPTVQTMNYVGQLAGQVFVTVKELYKGLN
PATLSGCIDIIVIRQPNGNLQCSPFHVRFGKMGVLRSREKVVDIEINGESVDLHMKLGDNGEAFFVQETDNDQEVIPMHLATSPILSEGA
SRMECQLKRGSVDRMRGLDPSTPAQVIAPSETPSSSSVVKKRRKRRRKSQLDSLKRDDNMNTSEDEDMFPIEMSSDEAMELLESSRTLPN
DIPPFQDDIPEENLSLAVIYPQSASYPNSDREWSPTPSSLVDCKRTAPHLAVAAEGGLSSSCPPQSSLFHPSESPSGSRPSTPKSDSELV
SKSTERTGQKNPEMLWLWGELPQAAKSSSPHKMKESSPLSSRKICDKSHFQAIHSESSDTFSDQSPTLVGGALLDQNKPQTEMQFVNEED
LETLGAAAPLLPMIEELKPPSASVVQTANKTDSPSRKRDKRSRHLGADGVYLDDLTDMDPEVAALYFPKNGDPSGLAKHASDNGARSANQ
SPQSVGSSGVDSGVESTSDGLRDLPSIAISLCGGLSDHREITKDAFLEQAVSYQQFVDNPAIIDDPNLVVKIGSKYYNWTTAAPLLLAMQ
AFQKPLPKATVESIMRDKMPKKGGRWWFSWRGRNTTIKEESKPEQCLAGKAHSTGEQPPQLSLATRVKHESSSSDEERAAAKPSNAGHLP
LLPNVSYKKTLRLTSEQLKSLKLKNGPNDVVFSVTTQYQGTCRCEGTIYLWNWDDKVIISDIDGTITRSDTLGHILPTLGKDWTHQGIAK
LYHKVSQNGYKFLYCSARAIGMADMTRGYLHWVNERGTVLPQGPLLLSPSSLFSALHREVIEKKPEKFKVQCLTDIKNLFFPNTEPFYAA
FGNRPADVYSYKQVGVSLNRIFTVNPKGELVQEHAKTNISSYVRLCEVVDHVFPLLKRSHSSDFPCSDTFSNFTFWREPLPPFENQDIHS

--------------------------------------------------------------

>6581_6581_2_ARL16-LPIN1_ARL16_chr17_79650564_ENST00000397498_LPIN1_chr2_11905658_ENST00000425416_length(amino acids)=957AA_BP=64
MRVAGGRALSRGAELRVPGGAKHGMCLLLGATGVGKTLLVKRLQEVSSRDGKGDLGEPPPTRPTVQTMNYVGQLAGQVFVTVKELYKGLN
PATLSGCIDIIVIRQPNGNLQCSPFHVRFGKMGVLRSREKVVDIEINGESVDLHMKLGDNGEAFFVQETDNDQEVIPMHLATSPILSEGA
SRMECQLKRGSVDRMRGLDPSTPAQVIAPSETPSSSSVVKKRRKRRRKSQLDSLKRDDNMNTSEDEDMFPIEMSSDEAMELLESSRTLPN
DIPPFQDDIPEENLSLAVIYPQSASYPNSDREWSPTPSPSGSRPSTPKSDSELVSKSTERTGQKNPEMLWLWGELPQAAKSSSPHKMKES
SPLSSRKICDKSHFQAIHSESSDTFSDQSPTLVGGALLDQNKPQTEMQFVNEEDLETLGAAAPLLPMIEELKPPSASVVQTANKTDSPSR
KRDKRSRHLGADGVYLDDLTDMDPEVAALYFPKNGDPSGLAKHASDNGARSANQSPQSVGSSGVDSGVESTSDGLRDLPSIAISLCGGLS
DHREITKDAFLEQAVSYQQFVDNPAIIDDPNLVVKIGSKYYNWTTAAPLLLAMQAFQKPLPKATVESIMRDKMPKKGGRWWFSWRGRNTT
IKEESKPEQCLAGKAHSTGEQPPQLSLATRVKHESSSSDEERAAAKPSNAGHLPLLPNVSYKKTLRLTSEQLKSLKLKNGPNDVVFSVTT
QYQGTCRCEGTIYLWNWDDKVIISDIDGTITRSDTLGHILPTLGKDWTHQGIAKLYHKVSQNGYKFLYCSARAIGMADMTRGYLHWVNER
GTVLPQGPLLLSPSSLFSALHREVIEKKPEKFKVQCLTDIKNLFFPNTEPFYAAFGNRPADVYSYKQVGVSLNRIFTVNPKGELVQEHAK

--------------------------------------------------------------

>6581_6581_3_ARL16-LPIN1_ARL16_chr17_79650564_ENST00000397498_LPIN1_chr2_11905658_ENST00000449576_length(amino acids)=993AA_BP=64
MRVAGGRALSRGAELRVPGGAKHGMCLLLGATGVGKTLLVKRLQEVSSRDGKGDLGEPPPTRPTVQTMNYVGQLAGQVFVTVKELYKGLN
PATLSGCIDIIVIRQPNGNLQCSPFHVRFGKMGVLRSREKVVDIEINGESVDLHMKLGDNGEAFFVQETDNDQEVIPMHLATSPILSEGA
SRMECQLKRGSVDRMRGLDPSTPAQVIAPSETPSSSSVVKKRRKRRRKSQLDSLKRDDNMNTSEDEDMFPIEMSSDEAMELLESSRTLPN
DIPPFQDDIPEENLSLAVIYPQSASYPNSDREWSPTPSSLVDCKRTAPHLAVAAEGGLSSSCPPQSSLFHPSESPSGSRPSTPKSDSELV
SKSTERTGQKNPEMLWLWGELPQAAKSSSPHKMKESSPLSSRKICDKSHFQAIHSESSDTFSDQSPTLVGGALLDQNKPQTEMQFVNEED
LETLGAAAPLLPMIEELKPPSASVVQTANKTDSPSRKRDKRSRHLGADGVYLDDLTDMDPEVAALYFPKNGDPSGLAKHASDNGARSANQ
SPQSVGSSGVDSGVESTSDGLRDLPSIAISLCGGLSDHREITKDAFLEQAVSYQQFVDNPAIIDDPNLVVKIGSKYYNWTTAAPLLLAMQ
AFQKPLPKATVESIMRDKMPKKGGRWWFSWRGRNTTIKEESKPEQCLAGKAHSTGEQPPQLSLATRVKHESSSSDEERAAAKPSNAGHLP
LLPNVSYKKTLRLTSEQLKSLKLKNGPNDVVFSVTTQYQGTCRCEGTIYLWNWDDKVIISDIDGTITRSDTLGHILPTLGKDWTHQGIAK
LYHKVSQNGYKFLYCSARAIGMADMTRGYLHWVNERGTVLPQGPLLLSPSSLFSALHREVIEKKPEKFKVQCLTDIKNLFFPNTEPFYAA
FGNRPADVYSYKQVGVSLNRIFTVNPKGELVQEHAKTNISSYVRLCEVVDHVFPLLKRSHSSDFPCSDTFSNFTFWREPLPPFENQDIHS

--------------------------------------------------------------

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Fusion Protein Functional Features

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr17:79650564/chr2:11905658)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.

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

Hgene	Tgene
ARL16 Q0P5N6	LPIN1 Q14693
	FUNCTION: Acts as a magnesium-dependent phosphatidate phosphatase enzyme which catalyzes the conversion of phosphatidic acid to diacylglycerol during triglyceride, phosphatidylcholine and phosphatidylethanolamine biosynthesis and therefore controls the metabolism of fatty acids at different levels (PubMed:20231281). Acts also as nuclear transcriptional coactivator for PPARGC1A/PPARA regulatory pathway to modulate lipid metabolism gene expression. Is involved in adipocyte differentiation. Isoform 1 is recruited at the mitochondrion outer membrane and is involved in mitochondrial fission by converting phosphatidic acid to diacylglycerol (By similarity). {ECO:0000250\|UniProtKB:Q91ZP3, ECO:0000269\|PubMed:20231281}.

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.

- 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

ARL16

chr17:79650564

chr2:11905658

ENST00000397498

30_37

64.0

198.0

Nucleotide binding

GTP

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000256720

147_150

891.0

Compositional bias

Note=Poly-Ser

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000256720

598_601

891.0

Compositional bias

Note=Poly-Ser

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000425416

147_150

3.0

897.0

Compositional bias

Note=Poly-Ser

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000425416

598_601

3.0

897.0

Compositional bias

Note=Poly-Ser

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000256720

153_158

891.0

Motif

Nuclear localization signal

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000256720

678_682

891.0

Motif

Note=DXDXT motif

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000256720

689_693

891.0

Motif

Note=LXXIL motif

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000425416

153_158

3.0

897.0

Motif

Nuclear localization signal

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000425416

678_682

3.0

897.0

Motif

Note=DXDXT motif

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000425416

689_693

3.0

897.0

Motif

Note=LXXIL motif

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000256720

1_108

891.0

Region

Note=N-LIP

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000256720

624_830

891.0

Region

Note=C-LIP

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000425416

1_108

3.0

897.0

Region

Note=N-LIP

Tgene

LPIN1

chr17:79650564

chr2:11905658

ENST00000425416

624_830

3.0

897.0

Region

Note=C-LIP

- 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

ARL16

chr17:79650564

chr2:11905658

ENST00000397498

139_142

64.0

198.0

Nucleotide binding

GTP

Hgene

ARL16

chr17:79650564

chr2:11905658

ENST00000397498

82_86

64.0

198.0

Nucleotide binding

GTP

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Fusion Protein-Protein Interaction

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 from validated records (BIOGRID-3.4.160)

Gene

PPI interactors

Protein-protein interactors based on sequence similarity (STRING)

Gene	STRING network
ARL16
LPIN1

- Retained interactions in fusion protein (protein functional feature from UniProt).

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost interactions due to fusion (protein functional feature from UniProt).

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

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Related Drugs to ARL16-LPIN1

Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)

Hgene

Tgene

Drug

Source

PMID

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Related Diseases to ARL16-LPIN1

Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)

Hgene

Tgene

Disease

Source

PMID

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source