UTHEALTH HOME ABOUT SBMI A-Z WEBMAIL INSIDE THE UNIVERSITY

Home

Download

Statistics

Examples

Help

Contact

level1

	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:GRID1-AFAP1L2

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: GRID1-AFAP1L2
	FusionPDB ID: 34741
	FusionGDB2.0 ID: 34741
		Hgene	Tgene
	Gene symbol	GRID1	AFAP1L2
	Gene ID	2894	84632
	Gene name	glutamate ionotropic receptor delta type subunit 1	actin filament associated protein 1 like 2
	Synonyms	GluD1	CTB-1144G6.4\|KIAA1914\|XB130
	Cytomap	10q23.1-q23.2	10q25.3
	Type of gene	protein-coding	protein-coding
	Description	glutamate receptor ionotropic, delta-1gluR delta-1 subunitglutamate receptor delta-1 subunit	actin filament-associated protein 1-like 2AFAP1-like protein 2CTB-1144G6.6
	Modification date	20200313	20200313
	UniProtAcc	Q9ULK0	Q8N4X5
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000327946, ENST00000536331, ENST00000552278,	ENST00000491814, ENST00000304129, ENST00000369271, ENST00000545353,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	10 X 8 X 6=480	5 X 4 X 4=80
	# samples	11	5
	** MAII score	log2(11/480*10)=-2.12553088208386 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(5/80*10)=-0.678071905112638 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: GRID1 [Title/Abstract] AND AFAP1L2 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	GRID1(88123698)-AFAP1L2(116100490), # samples:2
Anticipated loss of major functional domain due to fusion event.	GRID1-AFAP1L2 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. GRID1-AFAP1L2 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. GRID1-AFAP1L2 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. GRID1-AFAP1L2 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	AFAP1L2	GO:0006954	inflammatory response	17412687
Tgene	AFAP1L2	GO:0007346	regulation of mitotic cell cycle	17412687
Tgene	AFAP1L2	GO:0032675	regulation of interleukin-6 production	17412687
Tgene	AFAP1L2	GO:0032757	positive regulation of interleukin-8 production	17412687
Tgene	AFAP1L2	GO:0045742	positive regulation of epidermal growth factor receptor signaling pathway	17412687
Tgene	AFAP1L2	GO:0045893	positive regulation of transcription, DNA-templated	17412687

Fusion gene breakpoints across GRID1 (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 AFAP1L2 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Top

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	SARC	TCGA-DX-A6YR-01A	GRID1	chr10	88123698	-	AFAP1L2	chr10	116100490	-

Top

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)
ENST00000327946	GRID1	chr10	88123698	-	ENST00000304129	AFAP1L2	chr10	116100490	-	3980	321	86	2761	891
ENST00000327946	GRID1	chr10	88123698	-	ENST00000369271	AFAP1L2	chr10	116100490	-	3968	321	86	2749	887
ENST00000327946	GRID1	chr10	88123698	-	ENST00000545353	AFAP1L2	chr10	116100490	-	3191	321	86	2920	944

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
ENST00000327946	ENST00000304129	GRID1	chr10	88123698	-	AFAP1L2	chr10	116100490	-	0.001486317	0.99851364
ENST00000327946	ENST00000369271	GRID1	chr10	88123698	-	AFAP1L2	chr10	116100490	-	0.001516158	0.99848384
ENST00000327946	ENST00000545353	GRID1	chr10	88123698	-	AFAP1L2	chr10	116100490	-	0.004197712	0.99580234

Top

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

>34741_34741_1_GRID1-AFAP1L2_GRID1_chr10_88123698_ENST00000327946_AFAP1L2_chr10_116100490_ENST00000304129_length(amino acids)=891AA_BP=78
MEALTLWLLPWICQCVSVRADSIIHIGAIFEENAAKDDRVFQLAVSDLSLNDDILQSEKITYSIKVIEANNPFQAVQEALEQLLTELDDF
LKILDQENLSSTALVKKSCLAELLRLYTKSSSSDEEYIYMNKVTINKQQNAESQGKAPEEQGLLPNGEPSQHSSAPQKSLPDLPPPKMIP
ERKQLAIPKTESPEGYYEEAEPYDTSLNEDGEAVSSSYESYDEEDGSKGKSAPYQWPSPEAGIELMRDARICAFLWRKKWLGQWAKQLCV
IKDNRLLCYKSSKDHSPQLDVNLLGSSVIHKEKQVRKKEHKLKITPMNADVIVLGLQSKDQAEQWLRVIQEVSGLPSEGASEGNQYTPDA
QRFNCQKPDIAEKYLSASEYGSSVDGHPEVPETKDVKKKCSAGLKLSNLMNLGRKKSTSLEPVERSLETSSYLNVLVNSQWKSRWCSVRD
NHLHFYQDRNRSKVAQQPLSLVGCEVVPDPSPDHLYSFRILHKGEELAKLEAKSSEEMGHWLGLLLSESGSKTDPEEFTYDYVDADRVSC
IVSAAKNSLLLMQRKFSEPNTYIDGLPSQDRQEELYDDVDLSELTAAVEPTEEATPVADDPNERESDRVYLDLTPVKSFLHGPSSAQAQA
SSPTLSCLDNATEALPADSGPGPTPDEPCIKCPENLGEQQLESLEPEDPSLRITTVKIQTEQQRISFPPSCPDAVVATPPGASPPVKDRL
RVTSAEIKLGKNRTEAEVKRYTEEKERLEKKKEEIRGHLAQLRKEKRELKETLLKCTDKEVLASLEQKLKEIDEECRGEESRRVDLELSI

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

>34741_34741_2_GRID1-AFAP1L2_GRID1_chr10_88123698_ENST00000327946_AFAP1L2_chr10_116100490_ENST00000369271_length(amino acids)=887AA_BP=78
MEALTLWLLPWICQCVSVRADSIIHIGAIFEENAAKDDRVFQLAVSDLSLNDDILQSEKITYSIKVIEANNPFQAVQEALEQLLTELDDF
LKILDQENLSSTALVKKSCLAELLRLYTKSSSSDEEYIYMNKVTINKQQNAESQGKAPEEQGLLPNGEPSQHSSAPQKSLPDLPPPKMIP
ERKQLAIPKTESPEGYYEEAEPYDTSLNEDGEAVSSSYESYDEEDGSKGKSAPYQWPSPEAGIELMRDARICAFLWRKKWLGQWAKQLCV
IKDNRLLCYKSSKDHSPQLDVNLLGSSVIHKEKQVRKKEHKLKITPMNADVIVLGLQSKDQAEQWLRVIQEVSGLPSEGASEGNQYTPDA
QRFNCQKPDIAEKYLSASEYGSSVDGHPEVPETKDVKKKCSAGLKLSNLMNLGRKKSTSLEPVERSLETSSYLNVLVNSQWKSRWCSVRD
NHLHFYQDRNRSKVAQQPLSLVGCEVVPDPSPDHLYSFRILHKGEELAKLEAKSSEEMGHWLGLLLSESGSKTDPEEFTYDYVDADRVSC
IVSAAKNSLLLMQRKFSEPNTYIDGLPSQDRQEELYDDVDLSELTAAVEPTEEATPVADDPNERESDRVYLDLTPVKSFLHGPSSAQAQA
SSPTLSCLDNATEALPADSGPGPTPDEPCIKCPENLGEQQLESLEPEDPSLRITTVKIQTEQQRISFPPSCPDAVVATPPGASPPVKDRL
RVTSAEIKLGKNRTEAEVKRYTEEKERLEKKKEEIRGHLAQLRKEKRELKETLLKCTDKEVLASLEQKLKEIDEECRGEESRRVDLELSI

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

>34741_34741_3_GRID1-AFAP1L2_GRID1_chr10_88123698_ENST00000327946_AFAP1L2_chr10_116100490_ENST00000545353_length(amino acids)=944AA_BP=78
MEALTLWLLPWICQCVSVRADSIIHIGAIFEENAAKDDRVFQLAVSDLSLNDDILQSEKITYSIKVIEANNPFQAVQEALEQLLTELDDF
LKILDQENLSSTALVKKSCLAELLRLYTKSSSSDEEYIYMNKVTINKQQNAESQGKAPEEQGLLPNGEPSQHSSAPQKSLPDLPPPKMRI
LTLGQISGAQSFSPDGTHLTGTEFLGGWSWRPSQIRLMSPGTHWGDLTATEIPERKQLAIPKTESPEGYYEEAEPYDTSLNEDGEAVSSS
YESYDEEDGSKGKSAPYQWPSPEAGIELMRDARICAFLWRKKWLGQWAKQLCVIKDNRLLCYKSSKDHSPQLDVNLLGSSVIHKEKQVRK
KEHKLKITPMNADVIVLGLQSKDQAEQWLRVIQEVSGLPSEGASEGNQYTPDAQRFNCQKPDIAEKYLSASEYGSSVDGHPEVPETKDVK
KKCSAGLKLSNLMNLGRKKSTSLEPVERSLETSSYLNVLVNSQWKSRWCSVRDNHLHFYQDRNRSKVAQQPLSLVGCEVVPDPSPDHLYS
FRILHKGEELAKLEAKSSEEMGHWLGLLLSESGSKTDPEEFTYDYVDADRVSCIVSAAKNSLLLMQRKFSEPNTYIDGLPSQDRQEELYD
DVDLSELTAAVEPTEEATPVADDPNERESDRVYLDLTPVKSFLHGPSSAQAQASSPTLSCLDNATEALPADSGPGPTPDEPCIKCPENLG
EQQLESLEPEDPSLRITTVKIQTEQQRISFPPSCPDAVVATPPGASPPVKDRLRVTSAEIKLGKNRTEAEVKRYTEEKERLEKKKEEIRG
HLAQLRKEKRELKETLLKCTDKEVLASLEQKLKEIDEECRGEESRRVDLELSIMEVKDNLKKAEAGPVTLGTTVDTTHLENVSPRPKAVT

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

Top

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/chr10:88123698/chr10:116100490)
- 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
GRID1 Q9ULK0	AFAP1L2 Q8N4X5
FUNCTION: Receptor for glutamate. L-glutamate acts as an excitatory neurotransmitter at many synapses in the central nervous system. The postsynaptic actions of Glu are mediated by a variety of receptors that are named according to their selective agonists.	FUNCTION: May play a role in a signaling cascade by enhancing the kinase activity of SRC. Contributes to SRC-regulated transcription activation. {ECO:0000269\|PubMed:17412687}.

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

AFAP1L2

chr10:88123698

chr10:116100490

ENST00000304129

652_749

5.333333333333333

819.0

Coiled coil

Ontology_term=ECO:0000255

Tgene

AFAP1L2

chr10:88123698

chr10:116100490

ENST00000369271

652_749

5.333333333333333

815.0

Coiled coil

Ontology_term=ECO:0000255

Tgene

AFAP1L2

chr10:88123698

chr10:116100490

ENST00000304129

175_271

5.333333333333333

819.0

Domain

PH 1

Tgene

AFAP1L2

chr10:88123698

chr10:116100490

ENST00000304129

353_447

5.333333333333333

819.0

Domain

PH 2

Tgene

AFAP1L2

chr10:88123698

chr10:116100490

ENST00000369271

175_271

5.333333333333333

815.0

Domain

PH 1

Tgene

AFAP1L2

chr10:88123698

chr10:116100490

ENST00000369271

353_447

5.333333333333333

815.0

Domain

PH 2

- 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

GRID1

chr10:88123698

chr10:116100490

ENST00000327946

21_562

78.33333333333333

1010.0

Topological domain

Extracellular

Hgene

GRID1

chr10:88123698

chr10:116100490

ENST00000327946

584_637

78.33333333333333

1010.0

Topological domain

Cytoplasmic

Hgene

GRID1

chr10:88123698

chr10:116100490

ENST00000327946

659_830

78.33333333333333

1010.0

Topological domain

Extracellular

Hgene

GRID1

chr10:88123698

chr10:116100490

ENST00000327946

852_1009

78.33333333333333

1010.0

Topological domain

Cytoplasmic

Hgene

GRID1

chr10:88123698

chr10:116100490

ENST00000327946

563_583

78.33333333333333

1010.0

Transmembrane

Helical

Hgene

GRID1

chr10:88123698

chr10:116100490

ENST00000327946

638_658

78.33333333333333

1010.0

Transmembrane

Helical

Hgene

GRID1

chr10:88123698

chr10:116100490

ENST00000327946

831_851

78.33333333333333

1010.0

Transmembrane

Helical

Top

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
GRID1
AFAP1L2

- 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	GRID1	chr10:88123698	chr10:116100490	ENST00000327946	-	2	16	21_436	78.33333333333333	1010.0	CBLN1

Top

Related Drugs to GRID1-AFAP1L2

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

Hgene

Tgene

Drug

Source

PMID

Top

Related Diseases to GRID1-AFAP1L2

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