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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:KNSTRN-HP1BP3

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: KNSTRN-HP1BP3
	FusionPDB ID: 43338
	FusionGDB2.0 ID: 43338
		Hgene	Tgene
	Gene symbol	KNSTRN	HP1BP3
	Gene ID	90417	50809
	Gene name	kinetochore localized astrin (SPAG5) binding protein	heterochromatin protein 1 binding protein 3
	Synonyms	C15orf23\|HSD11\|SKAP\|TRAF4AF1	HP1-BP74\|HP1BP74
	Cytomap	15q15.1	1p36.12
	Type of gene	protein-coding	protein-coding
	Description	small kinetochore-associated proteinTRAF4 associated factor 1kinastrinkinetochore-localized astrin-binding proteinputative TRAF4-associated factor 1small kinetochore associated proteinsmall kinetochore-associated protein, kinetochore-localized astri	heterochromatin protein 1-binding protein 3
	Modification date	20200313	20200313
	UniProtAcc	Q9Y448	Q5SSJ5
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000249776, ENST00000416151, ENST00000448395, ENST00000608100,	ENST00000375003, ENST00000375000, ENST00000487117, ENST00000312239,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	2 X 2 X 2=8	22 X 14 X 10=3080
	# samples	2	24
	** MAII score	log2(2/8*10)=1.32192809488736	log2(24/3080*10)=-3.68182403997374 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: KNSTRN [Title/Abstract] AND HP1BP3 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	KNSTRN(40679407)-HP1BP3(21100103), # samples:1
Anticipated loss of major functional domain due to fusion event.	KNSTRN-HP1BP3 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. KNSTRN-HP1BP3 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. KNSTRN-HP1BP3 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. KNSTRN-HP1BP3 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
Tgene	HP1BP3	GO:0071456	cellular response to hypoxia	25100860

Fusion gene breakpoints across KNSTRN (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 HP1BP3 (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
ChimerDB4	STAD	TCGA-EQ-8122-01A	KNSTRN	chr15	40679407	+	HP1BP3	chr1	21100103	-

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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)
ENST00000416151	KNSTRN	chr15	40679407	+	ENST00000312239	HP1BP3	chr1	21100103	-	4048	600	115	1911	598
ENST00000249776	KNSTRN	chr15	40679407	+	ENST00000312239	HP1BP3	chr1	21100103	-	4048	600	115	1911	598
ENST00000448395	KNSTRN	chr15	40679407	+	ENST00000312239	HP1BP3	chr1	21100103	-	3933	485	0	1796	598
ENST00000608100	KNSTRN	chr15	40679407	+	ENST00000312239	HP1BP3	chr1	21100103	-	3828	380	129	1691	520

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
ENST00000416151	ENST00000312239	KNSTRN	chr15	40679407	+	HP1BP3	chr1	21100103	-	0.000433605	0.9995664
ENST00000249776	ENST00000312239	KNSTRN	chr15	40679407	+	HP1BP3	chr1	21100103	-	0.000433605	0.9995664
ENST00000448395	ENST00000312239	KNSTRN	chr15	40679407	+	HP1BP3	chr1	21100103	-	0.000374859	0.9996251
ENST00000608100	ENST00000312239	KNSTRN	chr15	40679407	+	HP1BP3	chr1	21100103	-	0.000165842	0.9998342

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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

>43338_43338_1_KNSTRN-HP1BP3_KNSTRN_chr15_40679407_ENST00000249776_HP1BP3_chr1_21100103_ENST00000312239_length(amino acids)=598AA_BP=162
MAAPEAPPLDRVFRTTWLSTECDSHPLPPSYRKFLFETQAADLAGGTTVAAGNLLNESEKDCGQDRRAPGVQPCRLVTMTSVVKTVYSLQ
PPSALSGGQPADTQTRATSKSLLPVRSKEVDVSKQLHSGGPENDVTKITKLRRENGQMKATDTATRRNVRKGEKDQSKEKEKKVKKTIPS
WATLSASQLARAQKQTPMASSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLELERRGYLLKQALKRELNRGVIKQVKGKGAS
GSFVVVQKSRKTPQKSRNRKNRSSAVDPEPQVKLEDVLPLAFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPQLLKNALQRAVERGQLE
QITGKGASGTFQLKKSGEKPLLGGSLMEYAILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNYQMHLLKKTLQKCEKNGWMEQISGKGF
SGTFQLCFPYYPSPGVLFPKKEPDDSRDEDEDEDESSEEDSEDEEPPPKRRLQKKTPAKSPGKAASVKQRGSKPAPKVSAAQRGKARPLP

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

>43338_43338_2_KNSTRN-HP1BP3_KNSTRN_chr15_40679407_ENST00000416151_HP1BP3_chr1_21100103_ENST00000312239_length(amino acids)=598AA_BP=162
MAAPEAPPLDRVFRTTWLSTECDSHPLPPSYRKFLFETQAADLAGGTTVAAGNLLNESEKDCGQDRRAPGVQPCRLVTMTSVVKTVYSLQ
PPSALSGGQPADTQTRATSKSLLPVRSKEVDVSKQLHSGGPENDVTKITKLRRENGQMKATDTATRRNVRKGEKDQSKEKEKKVKKTIPS
WATLSASQLARAQKQTPMASSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLELERRGYLLKQALKRELNRGVIKQVKGKGAS
GSFVVVQKSRKTPQKSRNRKNRSSAVDPEPQVKLEDVLPLAFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPQLLKNALQRAVERGQLE
QITGKGASGTFQLKKSGEKPLLGGSLMEYAILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNYQMHLLKKTLQKCEKNGWMEQISGKGF
SGTFQLCFPYYPSPGVLFPKKEPDDSRDEDEDEDESSEEDSEDEEPPPKRRLQKKTPAKSPGKAASVKQRGSKPAPKVSAAQRGKARPLP

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

>43338_43338_3_KNSTRN-HP1BP3_KNSTRN_chr15_40679407_ENST00000448395_HP1BP3_chr1_21100103_ENST00000312239_length(amino acids)=598AA_BP=162
MAAPEAPPLDRVFRTTWLSTECDSHPLPPSYRKFLFETQAADLAGGTTVAAGNLLNESEKDCGQDRRAPGVQPCRLVTMTSVVKTVYSLQ
PPSALSGGQPADTQTRATSKSLLPVRSKEVDVSKQLHSGGPENDVTKITKLRRENGQMKATDTATRRNVRKGEKDQSKEKEKKVKKTIPS
WATLSASQLARAQKQTPMASSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLELERRGYLLKQALKRELNRGVIKQVKGKGAS
GSFVVVQKSRKTPQKSRNRKNRSSAVDPEPQVKLEDVLPLAFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPQLLKNALQRAVERGQLE
QITGKGASGTFQLKKSGEKPLLGGSLMEYAILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNYQMHLLKKTLQKCEKNGWMEQISGKGF
SGTFQLCFPYYPSPGVLFPKKEPDDSRDEDEDEDESSEEDSEDEEPPPKRRLQKKTPAKSPGKAASVKQRGSKPAPKVSAAQRGKARPLP

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

>43338_43338_4_KNSTRN-HP1BP3_KNSTRN_chr15_40679407_ENST00000608100_HP1BP3_chr1_21100103_ENST00000312239_length(amino acids)=520AA_BP=84
MTSVVKTVYSLQPPSALSGGQPADTQTRATSKSLLPVRSKEVDVSKQLHSGGPENDVTKITKLRRENGQMKATDTATRRNVRKGEKDQSK
EKEKKVKKTIPSWATLSASQLARAQKQTPMASSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLELERRGYLLKQALKRELNR
GVIKQVKGKGASGSFVVVQKSRKTPQKSRNRKNRSSAVDPEPQVKLEDVLPLAFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPQLLKN
ALQRAVERGQLEQITGKGASGTFQLKKSGEKPLLGGSLMEYAILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNYQMHLLKKTLQKCEK
NGWMEQISGKGFSGTFQLCFPYYPSPGVLFPKKEPDDSRDEDEDEDESSEEDSEDEEPPPKRRLQKKTPAKSPGKAASVKQRGSKPAPKV

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

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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/chr15:40679407/chr1:21100103)
- 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
KNSTRN Q9Y448	HP1BP3 Q5SSJ5
FUNCTION: Essential component of the mitotic spindle required for faithful chromosome segregation and progression into anaphase (PubMed:19667759). Promotes the metaphase-to-anaphase transition and is required for chromosome alignment, normal timing of sister chromatid segregation, and maintenance of spindle pole architecture (PubMed:19667759, PubMed:22110139). The astrin (SPAG5)-kinastrin (SKAP) complex promotes stable microtubule-kinetochore attachments (PubMed:21402792). Required for kinetochore oscillations and dynamics of microtubule plus-ends during live cell mitosis, possibly by forming a link between spindle microtubule plus-ends and mitotic chromosomes to achieve faithful cell division (PubMed:23035123). May be involved in UV-induced apoptosis via its interaction with PRPF19; however, these results need additional evidences (PubMed:24718257). {ECO:0000269\|PubMed:19667759, ECO:0000269\|PubMed:21402792, ECO:0000269\|PubMed:22110139, ECO:0000269\|PubMed:23035123, ECO:0000305\|PubMed:24718257}.	FUNCTION: Component of heterochromatin that maintains heterochromatin integrity during G1/S progression and regulates the duration of G1 phase to critically influence cell proliferative capacity (PubMed:24830416). Mediates chromatin condensation during hypoxia, leading to increased tumor cell viability, radio-resistance, chemo-resistance and self-renewal(PubMed:25100860). {ECO:0000269\|PubMed:24830416, ECO:0000269\|PubMed:25100860}.

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

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000312239

454_553

116.66666666666667

554.0

Compositional bias

Note=Lys-rich

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000375000

454_553

134.0

Compositional bias

Note=Lys-rich

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000375003

454_553

402.0

Compositional bias

Note=Lys-rich

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000312239

157_232

116.66666666666667

554.0

Domain

H15 1

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000312239

255_330

116.66666666666667

554.0

Domain

H15 2

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000312239

337_413

116.66666666666667

554.0

Domain

H15 3

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000375000

157_232

134.0

Domain

H15 1

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000375000

255_330

134.0

Domain

H15 2

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000375000

337_413

134.0

Domain

H15 3

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000375003

157_232

402.0

Domain

H15 1

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000375003

255_330

402.0

Domain

H15 2

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000375003

337_413

402.0

Domain

H15 3

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000312239

255_259

116.66666666666667

554.0

Motif

PxVxL motif

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000375000

255_259

134.0

Motif

PxVxL motif

Tgene

HP1BP3

chr15:40679407

chr1:21100103

ENST00000375003

255_259

402.0

Motif

PxVxL motif

- 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

KNSTRN

chr15:40679407

chr1:21100103

ENST00000249776

166_216

161.66666666666666

317.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

KNSTRN

chr15:40679407

chr1:21100103

ENST00000249776

248_316

161.66666666666666

317.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

KNSTRN

chr15:40679407

chr1:21100103

ENST00000416151

166_216

161.66666666666666

287.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

KNSTRN

chr15:40679407

chr1:21100103

ENST00000416151

248_316

161.66666666666666

287.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

KNSTRN

chr15:40679407

chr1:21100103

ENST00000448395

166_216

161.66666666666666

407.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

KNSTRN

chr15:40679407

chr1:21100103

ENST00000448395

248_316

161.66666666666666

407.0

Coiled coil

Ontology_term=ECO:0000255

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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
KNSTRN
HP1BP3

- 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
Hgene	KNSTRN	chr15:40679407	chr1:21100103	ENST00000249776	+	4	9	159_316	161.66666666666666	317.0	SPAG5
Hgene	KNSTRN	chr15:40679407	chr1:21100103	ENST00000416151	+	4	9	159_316	161.66666666666666	287.0	SPAG5
Hgene	KNSTRN	chr15:40679407	chr1:21100103	ENST00000448395	+	4	8	159_316	161.66666666666666	407.0	SPAG5

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Related Drugs to KNSTRN-HP1BP3

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 KNSTRN-HP1BP3

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