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	Fusion Gene Summary
	Fusion Gene ORF analysis
	Fusion Genomic Features
	Fusion Protein Features
	Fusion Gene Sequence
	Fusion Gene PPI analysis
	Related Drugs
	Related Diseases

Fusion gene:C6orf106-LRRC1 (FusionGDB2 ID:11909)

Fusion Gene Summary for C6orf106-LRRC1

Fusion gene summary

Fusion gene information	Fusion gene name: C6orf106-LRRC1
	Fusion gene ID: 11909
		Hgene	Tgene
	Gene symbol	C6orf106	LRRC1
	Gene ID	64771	55227
	Gene name	inflammation and lipid regulator with UBA-like and NBR1-like domains	leucine rich repeat containing 1
	Synonyms	C6orf106\|FP852\|dJ391O22.4	LANO\|dJ523E19.1
	Cytomap	6p21.31	6p12.1
	Type of gene	protein-coding	protein-coding
	Description	protein ILRUNinflammation and lipid regulator with UBA-like and NBR1-like domains proteinuncharacterized protein C6orf106	leucine-rich repeat-containing protein 1LANO adapter proteinLAP (leucine-rich repeats and PDZ) and no PDZ proteinLAP and no PDZ protein
	Modification date	20200313	20200313
	UniProtAcc	.	Q9H756
	Ensembl transtripts involved in fusion gene	ENST00000374021, ENST00000374023, ENST00000374026,	ENST00000370882, ENST00000370888,
Fusion gene scores	* DoF score	16 X 9 X 9=1296	3 X 5 X 3=45
	# samples	21	3
	** MAII score	log2(21/1296*10)=-2.6256044852185 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(3/45*10)=-0.584962500721156 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: C6orf106 [Title/Abstract] AND LRRC1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	C6orf106(34614378)-LRRC1(53785423), # samples:3
Anticipated loss of major functional domain due to fusion event.

* 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
Hgene	C6orf106	GO:0043392	negative regulation of DNA binding	29802199

Fusion gene breakpoints across C6orf106 (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 LRRC1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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
ChimerDB4	KIRC	TCGA-A3-3313-01A	C6orf106	chr6	34614378	-	LRRC1	chr6	53784296	+
ChimerDB4	KIRC	TCGA-A3-3313-01A	C6orf106	chr6	34614378	-	LRRC1	chr6	53785423	+

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Fusion Gene ORF analysis for C6orf106-LRRC1

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
5CDS-intron	ENST00000374021	ENST00000370882	C6orf106	chr6	34614378	-	LRRC1	chr6	53784296	+
5CDS-intron	ENST00000374021	ENST00000370882	C6orf106	chr6	34614378	-	LRRC1	chr6	53785423	+
5CDS-intron	ENST00000374023	ENST00000370882	C6orf106	chr6	34614378	-	LRRC1	chr6	53784296	+
5CDS-intron	ENST00000374023	ENST00000370882	C6orf106	chr6	34614378	-	LRRC1	chr6	53785423	+
Frame-shift	ENST00000374021	ENST00000370888	C6orf106	chr6	34614378	-	LRRC1	chr6	53784296	+
Frame-shift	ENST00000374021	ENST00000370888	C6orf106	chr6	34614378	-	LRRC1	chr6	53785423	+
Frame-shift	ENST00000374023	ENST00000370888	C6orf106	chr6	34614378	-	LRRC1	chr6	53784296	+
In-frame	ENST00000374023	ENST00000370888	C6orf106	chr6	34614378	-	LRRC1	chr6	53785423	+
intron-3CDS	ENST00000374026	ENST00000370888	C6orf106	chr6	34614378	-	LRRC1	chr6	53784296	+
intron-3CDS	ENST00000374026	ENST00000370888	C6orf106	chr6	34614378	-	LRRC1	chr6	53785423	+
intron-intron	ENST00000374026	ENST00000370882	C6orf106	chr6	34614378	-	LRRC1	chr6	53784296	+
intron-intron	ENST00000374026	ENST00000370882	C6orf106	chr6	34614378	-	LRRC1	chr6	53785423	+

ORFfinder result based on the fusion transcript sequence of in-frame fusion genes.

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)

ENST00000374023

C6orf106

chr6

34614378

ENST00000370888

LRRC1

chr6

53785423

2379

755

202

1050

282

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
ENST00000374023	ENST00000370888	C6orf106	chr6	34614378	-	LRRC1	chr6	53785423	+	0.000244286	0.9997557

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Fusion Genomic Features for C6orf106-LRRC1

FusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.

Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	1-p	p (fusion gene breakpoint)
C6orf106	chr6	34614377	-	LRRC1	chr6	53784295	+	0.0002968	0.9997032
C6orf106	chr6	34614377	-	LRRC1	chr6	53785422	+	3.30E-07	0.99999964
C6orf106	chr6	34614377	-	LRRC1	chr6	53784295	+	0.0002968	0.9997032
C6orf106	chr6	34614377	-	LRRC1	chr6	53785422	+	3.30E-07	0.99999964

Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for C6orf106-LRRC1

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr6:34614378/chr6:53785423)
- 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
.	LRRC1 Q9H756
FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.	FUNCTION: Pathogen-recognition receptor which mediates the activation of TRAF2- and TRAF6 NF-kappa-B signaling pathways and induces the expression of proinflammatory cytokines (PubMed:19679103, PubMed:25026888). In kidney, prevents infection by uropathogenic bacteria by inducing the production of cytokines, chemokines and antimicrobial substances. In gut, involved in host-microbiota interactions, plays a critical role in promoting the recruitment of immune cells and intestinal inflammation (By similarity). {ECO:0000250\|UniProtKB:Q8BZT5, ECO:0000269\|PubMed:19679103, ECO:0000269\|PubMed:25026888}.

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

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

484_512

426

525.0

Coiled coil

Ontology_term=ECO:0000255

- 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

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

107_126

426

525.0

Repeat

Note=LRR 5

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

11_34

426

525.0

Repeat

Note=LRR 1

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

127_149

426

525.0

Repeat

Note=LRR 6

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

150_172

426

525.0

Repeat

Note=LRR 7

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

173_196

426

525.0

Repeat

Note=LRR 8

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

198_218

426

525.0

Repeat

Note=LRR 9

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

219_242

426

525.0

Repeat

Note=LRR 10

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

244_264

426

525.0

Repeat

Note=LRR 11

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

265_288

426

525.0

Repeat

Note=LRR 12

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

290_310

426

525.0

Repeat

Note=LRR 13

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

311_334

426

525.0

Repeat

Note=LRR 14

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

336_356

426

525.0

Repeat

Note=LRR 15

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

357_380

426

525.0

Repeat

Note=LRR 16

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

35_58

426

525.0

Repeat

Note=LRR 2

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

382_405

426

525.0

Repeat

Note=LRR 17

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

60_81

426

525.0

Repeat

Note=LRR 3

Tgene

LRRC1

chr6:34614378

chr6:53785423

ENST00000370888

83_105

426

525.0

Repeat

Note=LRR 4

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Fusion Gene Sequence for C6orf106-LRRC1

For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

>11909_11909_1_C6orf106-LRRC1_C6orf106_chr6_34614378_ENST00000374023_LRRC1_chr6_53785423_ENST00000370888_length(transcript)=2379nt_BP=755nt
GGCGGAGTGGCGAGAGGCGAGAGGCGGCGGAGGCGGCGGAGCTGGGGGGGGTGGGAGGGGGGGGAGAGTGAGTGAGTGGCAGAGTGAGTT
TACCCCTATGAGACTGTGAGAGGCCCGGGGCCTACCTCAAAGGAGCGGGGTCGCGAAGCTAGCTAGCAGCGGCCCCCCTCCAGGTCCCCG
GGCCCGGCGGCGCGGCGGCGGCTTGGTTGTGAAGAGGCGGGGAAGCGGGTGTCCGGTCCCCGCCATGGAGGGCATGGACGTAGACCTGGA
CCCGGAGCTGATGCAGAAGTTCAGCTGCCTGGGCACCACCGACAAGGACGTGCTCATCTCCGAGTTCCAGAGGCTGCTCGGCTTCCAGCT
CAATCCTGCCGGTTGCGCCTTCTTCCTGGACATGACCAACTGGAACCTACAAGCAGCAATTGGCGCCTATTATGACTTTGAGAGCCCAAA
CATCAGTGTGCCCTCTATGTCCTTTGTTGAAGATGTCACCATAGGAGAAGGGGAGTCAATACCTCCGGATACTCAGTTTGTAAAAACATG
GCGGATCCAGAATTCTGGGGCAGAGGCCTGGCCTCCAGGGGTTTGTCTTAAATATGTCGGGGGAGACCAATTTGGACATGTGAACATGGT
GATGGTGAGATCGCTAGAGCCCCAAGAGATTGCAGATGTCAGCGTCCAGATGTGCAGCCCCAGCAGAGCAGGAATGTATCAGGGACAGTG
GCGGATGTGCACTGCTACAGGACTCTACTATGGAGAGAATCTGCCTCGCTGTGGTGCACTGGAGAACTTGGTAAATGATGTCTCTGATGA
AGCCTGGAACGAGCGTGCTGTCAACAGAGTCAGTGCGATCCGATTTGTGGAGGATGAGAAAGATGAAGAAGACAATGAGACGAGAACACT
TCTAAGGCGAGCCACTCCACACCCAGGGGAGTTAAAGCACATGAAAAAGACAGTGGAGAATTTACGGAATGACATGAATGCTGCTAAAGG
ACTGGACTCAAACAAAAACGAGGTCAATCATGCCATTGACCGAGTGACCACTTCTGTGTAGAGTTTCACCTCCAAGTTTTACCTCCTGTG
TCTTCCTCTGCTGTCGAGACGTTCCTGTCTGCTTCCCGGGAGCCTCACGTGCTCCTTGTCCTAACCAGCCCCCGCGCGCCATCTTCCCGT
GGAGTGTGGGGAAGCTGCTGTCTCCCAGGAAGTGCCTTACTCATCCCGCAACCAGTCAGCGCACCAGTGGTCTCCCGGTGTGATTTTTTT
TTTTTTTAATTTCAGTTGTTTGTAATAAGTAGAATACACTACTGTAAACATACGACCTTTGTTTTTGTCTTATGTTGGGGTAAAGGAAAG
CAGGAAGGGGAATTTTTATCCTCCTCCCTTCCGTAAAGTGCTGGGATATTTTGAATCCCCCAAGTTCCCTTGGACCTACTGATGAGAGAT
AGTTTTATGTATGGGGAAAAATGGATACTTTTTAAACCTTTTTTGGCAGCTCAGATGGTGTAAATTTTAAAATTTTGTATAGGTATTTCA
TAACAAAAATATGTATTTCTTTTTTGTTATTTTATCTTGAAAACGGTACATATTTTAGTATTTGTGCAGAAAAACAAGTCCTAAAGTATT
TGTTTTTATTTGTACCATCCACTTGTGCCTTACTGTATCCTGTGTCATGTCCAATCAGTTGTAAACAATGGCATCTTTGAACAGTGTGAT
GAGAATAGGAATGTGGTGTTTTAAAGCAGTGTTGCATTTTAATCAGTAATCTACCTGGTGGATTTGTTTTTAACCAAAAAGATGAATTAT
CAATGATTTGTAATTATATCAGTTGATTTTTTTTGAAAAGATGAACCAAAGGATTTGACTGCTAATATTTTATTCCTTACACTTTTTTTC
TGAATAAGTCTCTCATAATGAGTGCAGTGTCAGACTGTGCCTACTCTGATGGTATGTGCCATTTGTAAAATAAAATAGAGCAGAAAAACA
CAAAAAGAGAACACTGGTTCAGACATTCAGTGGGCAAGTAAATTATGGACTGCAAAATAATGATTTTTATTCAAGAAAGCTTTAAAAGTT
TTATATCCAGATATACAACCACAATAAAGCAAAATAACCTACTATCAAAATAGAAATGTTGCTATCTTTATAAGTGCAATTTAATTTGTA
AATAGAGTTTGAATCAAAGTATCACAAAATACTGCTTCAAGATTTAATTTTAAATCTGCTAATTTAAGGGATATTGGGAAAAGTTTTGGT
GTGTTTCTGTTGATTTCTTTTTTGTATGCTGTGATAAAAGAGAAATGAAAAGTGCCAGTCACTGTGTGGTGTCTAGGAAAATCATATATA

>11909_11909_1_C6orf106-LRRC1_C6orf106_chr6_34614378_ENST00000374023_LRRC1_chr6_53785423_ENST00000370888_length(amino acids)=282AA_BP=184
MVVKRRGSGCPVPAMEGMDVDLDPELMQKFSCLGTTDKDVLISEFQRLLGFQLNPAGCAFFLDMTNWNLQAAIGAYYDFESPNISVPSMS
FVEDVTIGEGESIPPDTQFVKTWRIQNSGAEAWPPGVCLKYVGGDQFGHVNMVMVRSLEPQEIADVSVQMCSPSRAGMYQGQWRMCTATG
LYYGENLPRCGALENLVNDVSDEAWNERAVNRVSAIRFVEDEKDEEDNETRTLLRRATPHPGELKHMKKTVENLRNDMNAAKGLDSNKNE

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

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Fusion Gene PPI Analysis for C6orf106-LRRC1

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

- 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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Related Drugs for C6orf106-LRRC1

Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)

Partner

Gene

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

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Related Diseases for C6orf106-LRRC1

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source