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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:LETMD1-LARP4

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: LETMD1-LARP4
	FusionPDB ID: 44494
	FusionGDB2.0 ID: 44494
		Hgene	Tgene
	Gene symbol	LETMD1	LARP4
	Gene ID	25875	113251
	Gene name	LETM1 domain containing 1	La ribonucleoprotein 4
	Synonyms	1110019O13Rik\|HCCR\|HCCR-1\|HCCR-2\|HCCR1\|HCCR2\|HCRR-2\|SLC55A3	PP13296
	Cytomap	12q13.12	12q13.12
	Type of gene	protein-coding	protein-coding
	Description	LETM1 domain-containing protein 1cervical cancer 1 proto-oncogene protein p40cervical cancer proto-oncogene 2 proteinepididymis secretory sperm binding proteinhuman cervical cancer oncogeneregulator of TP53	la-related protein 4La ribonucleoprotein domain family member 4c-Mpl binding protein
	Modification date	20200322	20200313
	UniProtAcc	Q6P1Q0	Q92615
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000262055, ENST00000418425, ENST00000547008, ENST00000550929, ENST00000380123, ENST00000548516, ENST00000552739,	ENST00000347328, ENST00000518561, ENST00000522085, ENST00000293618, ENST00000398473, ENST00000429001, ENST00000518444,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	3 X 3 X 3=27	11 X 12 X 7=924
	# samples	3	12
	** MAII score	log2(3/27*10)=0.15200309344505 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0	log2(12/924*10)=-2.94485844580754 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: LETMD1 [Title/Abstract] AND LARP4 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	LETMD1(51445990)-LARP4(50847243), # samples:2
Anticipated loss of major functional domain due to fusion event.	LETMD1-LARP4 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. LETMD1-LARP4 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. LETMD1-LARP4 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. LETMD1-LARP4 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 LETMD1 (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 LARP4 (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	BLCA	TCGA-UY-A9PH-01A	LETMD1	chr12	51445990	-	LARP4	chr12	50847243	+
ChimerDB4	BLCA	TCGA-UY-A9PH-01A	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+

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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)
ENST00000550929	LETMD1	chr12	51445990	+	ENST00000293618	LARP4	chr12	50847243	+	5612	322	97	1479	460
ENST00000550929	LETMD1	chr12	51445990	+	ENST00000429001	LARP4	chr12	50847243	+	3346	322	97	1692	531
ENST00000550929	LETMD1	chr12	51445990	+	ENST00000398473	LARP4	chr12	50847243	+	5833	322	97	1692	531
ENST00000550929	LETMD1	chr12	51445990	+	ENST00000518444	LARP4	chr12	50847243	+	2292	322	97	1692	531
ENST00000262055	LETMD1	chr12	51445990	+	ENST00000293618	LARP4	chr12	50847243	+	5719	429	39	1586	515
ENST00000262055	LETMD1	chr12	51445990	+	ENST00000429001	LARP4	chr12	50847243	+	3453	429	39	1799	586
ENST00000262055	LETMD1	chr12	51445990	+	ENST00000398473	LARP4	chr12	50847243	+	5940	429	39	1799	586
ENST00000262055	LETMD1	chr12	51445990	+	ENST00000518444	LARP4	chr12	50847243	+	2399	429	39	1799	586
ENST00000418425	LETMD1	chr12	51445990	+	ENST00000293618	LARP4	chr12	50847243	+	5622	332	383	1489	368
ENST00000418425	LETMD1	chr12	51445990	+	ENST00000429001	LARP4	chr12	50847243	+	3356	332	383	1702	439
ENST00000418425	LETMD1	chr12	51445990	+	ENST00000398473	LARP4	chr12	50847243	+	5843	332	383	1702	439
ENST00000418425	LETMD1	chr12	51445990	+	ENST00000518444	LARP4	chr12	50847243	+	2302	332	383	1702	439
ENST00000547008	LETMD1	chr12	51445990	+	ENST00000293618	LARP4	chr12	50847243	+	5696	406	16	1563	515
ENST00000547008	LETMD1	chr12	51445990	+	ENST00000429001	LARP4	chr12	50847243	+	3430	406	16	1776	586
ENST00000547008	LETMD1	chr12	51445990	+	ENST00000398473	LARP4	chr12	50847243	+	5917	406	16	1776	586
ENST00000547008	LETMD1	chr12	51445990	+	ENST00000518444	LARP4	chr12	50847243	+	2376	406	16	1776	586

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
ENST00000550929	ENST00000293618	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	9.43E-05	0.9999056
ENST00000550929	ENST00000429001	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	0.00010981	0.9998902
ENST00000550929	ENST00000398473	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	5.62E-05	0.99994385
ENST00000550929	ENST00000518444	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	0.000406591	0.99959344
ENST00000262055	ENST00000293618	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	9.42E-05	0.9999058
ENST00000262055	ENST00000429001	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	0.000306331	0.99969375
ENST00000262055	ENST00000398473	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	0.000186853	0.99981314
ENST00000262055	ENST00000518444	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	0.001019586	0.99898034
ENST00000418425	ENST00000293618	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	0.000329856	0.99967015
ENST00000418425	ENST00000429001	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	0.00013668	0.99986327
ENST00000418425	ENST00000398473	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	7.37E-05	0.9999263
ENST00000418425	ENST00000518444	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	0.000455973	0.99954396
ENST00000547008	ENST00000293618	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	9.22E-05	0.99990773
ENST00000547008	ENST00000429001	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	0.000306568	0.9996935
ENST00000547008	ENST00000398473	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	0.00018374	0.99981624
ENST00000547008	ENST00000518444	LETMD1	chr12	51445990	+	LARP4	chr12	50847243	+	0.00104953	0.9989505

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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

>44494_44494_1_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000262055_LARP4_chr12_50847243_ENST00000293618_length(amino acids)=515AA_BP=130
MALSRVCWARSAVWGSAVTPGHFVTRRLQLGRSGLAWGAPRSSKLHLSPKADVKNLMSYVVTKTKAINGKYHRFLGRHFPRFYVLYTIFM
KGLQMLWADAKKARRIKTNMWKHNIKFHQLPYREMEHLRQARIKAINTFFAKNGYRLMDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYS
VYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKNRRTLFRGRRRREDDRISRPHPSTAESKAPTPKFDL
LASNFPPLPGSSSRMPGELVLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELTALSTTQQEKDLIEDSS
VQKDGLNQTTIPVSPPSTTKPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRSNVVSPTKNEDNGAPEN

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>44494_44494_2_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000262055_LARP4_chr12_50847243_ENST00000398473_length(amino acids)=586AA_BP=130
MALSRVCWARSAVWGSAVTPGHFVTRRLQLGRSGLAWGAPRSSKLHLSPKADVKNLMSYVVTKTKAINGKYHRFLGRHFPRFYVLYTIFM
KGLQMLWADAKKARRIKTNMWKHNIKFHQLPYREMEHLRQARIKAINTFFAKNGYRLMDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYS
VYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKNRVKPQFRSSGGSEHSTEGSVSLGDGQLNRYSSRNF
PAERHNPTVTGHQEQTYLQKETSTLQVEQNGDYGRGRRTLFRGRRRREDDRISRPHPSTAESKAPTPKFDLLASNFPPLPGSSSRMPGEL
VLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELTALSTTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTT
KPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRSNVVSPTKNEDNGAPENSVEKPHEKPEARASKDYSG

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

>44494_44494_3_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000262055_LARP4_chr12_50847243_ENST00000429001_length(amino acids)=586AA_BP=130
MALSRVCWARSAVWGSAVTPGHFVTRRLQLGRSGLAWGAPRSSKLHLSPKADVKNLMSYVVTKTKAINGKYHRFLGRHFPRFYVLYTIFM
KGLQMLWADAKKARRIKTNMWKHNIKFHQLPYREMEHLRQARIKAINTFFAKNGYRLMDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYS
VYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKNRVKPQFRSSGGSEHSTEGSVSLGDGQLNRYSSRNF
PAERHNPTVTGHQEQTYLQKETSTLQVEQNGDYGRGRRTLFRGRRRREDDRISRPHPSTAESKAPTPKFDLLASNFPPLPGSSSRMPGEL
VLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELTALSTTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTT
KPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRSNVVSPTKNEDNGAPENSVEKPHEKPEARASKDYSG

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>44494_44494_4_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000262055_LARP4_chr12_50847243_ENST00000518444_length(amino acids)=586AA_BP=130
MALSRVCWARSAVWGSAVTPGHFVTRRLQLGRSGLAWGAPRSSKLHLSPKADVKNLMSYVVTKTKAINGKYHRFLGRHFPRFYVLYTIFM
KGLQMLWADAKKARRIKTNMWKHNIKFHQLPYREMEHLRQARIKAINTFFAKNGYRLMDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYS
VYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKNRVKPQFRSSGGSEHSTEGSVSLGDGQLNRYSSRNF
PAERHNPTVTGHQEQTYLQKETSTLQVEQNGDYGRGRRTLFRGRRRREDDRISRPHPSTAESKAPTPKFDLLASNFPPLPGSSSRMPGEL
VLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELTALSTTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTT
KPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRSNVVSPTKNEDNGAPENSVEKPHEKPEARASKDYSG

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

>44494_44494_5_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000418425_LARP4_chr12_50847243_ENST00000293618_length(amino acids)=368AA_BP=
MDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYSVYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKNRR
TLFRGRRRREDDRISRPHPSTAESKAPTPKFDLLASNFPPLPGSSSRMPGELVLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTS
AQQLNMSTSSPCAAELTALSTTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTTKPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKP
PKEPSSVLVQPLRELRSNVVSPTKNEDNGAPENSVEKPHEKPEARASKDYSGFRGNIIPRGAAGKIREQRRQFSHRAIPQGVTRRNGKEQ

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

>44494_44494_6_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000418425_LARP4_chr12_50847243_ENST00000398473_length(amino acids)=439AA_BP=
MDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYSVYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKNRV
KPQFRSSGGSEHSTEGSVSLGDGQLNRYSSRNFPAERHNPTVTGHQEQTYLQKETSTLQVEQNGDYGRGRRTLFRGRRRREDDRISRPHP
STAESKAPTPKFDLLASNFPPLPGSSSRMPGELVLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELTAL
STTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTTKPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRSNV

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

>44494_44494_7_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000418425_LARP4_chr12_50847243_ENST00000429001_length(amino acids)=439AA_BP=
MDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYSVYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKNRV
KPQFRSSGGSEHSTEGSVSLGDGQLNRYSSRNFPAERHNPTVTGHQEQTYLQKETSTLQVEQNGDYGRGRRTLFRGRRRREDDRISRPHP
STAESKAPTPKFDLLASNFPPLPGSSSRMPGELVLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELTAL
STTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTTKPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRSNV

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

>44494_44494_8_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000418425_LARP4_chr12_50847243_ENST00000518444_length(amino acids)=439AA_BP=
MDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYSVYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKNRV
KPQFRSSGGSEHSTEGSVSLGDGQLNRYSSRNFPAERHNPTVTGHQEQTYLQKETSTLQVEQNGDYGRGRRTLFRGRRRREDDRISRPHP
STAESKAPTPKFDLLASNFPPLPGSSSRMPGELVLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELTAL
STTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTTKPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRSNV

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

>44494_44494_9_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000547008_LARP4_chr12_50847243_ENST00000293618_length(amino acids)=515AA_BP=130
MALSRVCWARSAVWGSAVTPGHFVTRRLQLGRSGLAWGAPRSSKLHLSPKADVKNLMSYVVTKTKAINGKYHRFLGRHFPRFYVLYTIFM
KGLQMLWADAKKARRIKTNMWKHNIKFHQLPYREMEHLRQARIKAINTFFAKNGYRLMDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYS
VYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKNRRTLFRGRRRREDDRISRPHPSTAESKAPTPKFDL
LASNFPPLPGSSSRMPGELVLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELTALSTTQQEKDLIEDSS
VQKDGLNQTTIPVSPPSTTKPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRSNVVSPTKNEDNGAPEN

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

>44494_44494_10_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000547008_LARP4_chr12_50847243_ENST00000398473_length(amino acids)=586AA_BP=130
MALSRVCWARSAVWGSAVTPGHFVTRRLQLGRSGLAWGAPRSSKLHLSPKADVKNLMSYVVTKTKAINGKYHRFLGRHFPRFYVLYTIFM
KGLQMLWADAKKARRIKTNMWKHNIKFHQLPYREMEHLRQARIKAINTFFAKNGYRLMDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYS
VYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKNRVKPQFRSSGGSEHSTEGSVSLGDGQLNRYSSRNF
PAERHNPTVTGHQEQTYLQKETSTLQVEQNGDYGRGRRTLFRGRRRREDDRISRPHPSTAESKAPTPKFDLLASNFPPLPGSSSRMPGEL
VLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELTALSTTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTT
KPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRSNVVSPTKNEDNGAPENSVEKPHEKPEARASKDYSG

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

>44494_44494_11_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000547008_LARP4_chr12_50847243_ENST00000429001_length(amino acids)=586AA_BP=130
MALSRVCWARSAVWGSAVTPGHFVTRRLQLGRSGLAWGAPRSSKLHLSPKADVKNLMSYVVTKTKAINGKYHRFLGRHFPRFYVLYTIFM
KGLQMLWADAKKARRIKTNMWKHNIKFHQLPYREMEHLRQARIKAINTFFAKNGYRLMDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYS
VYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKNRVKPQFRSSGGSEHSTEGSVSLGDGQLNRYSSRNF
PAERHNPTVTGHQEQTYLQKETSTLQVEQNGDYGRGRRTLFRGRRRREDDRISRPHPSTAESKAPTPKFDLLASNFPPLPGSSSRMPGEL
VLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELTALSTTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTT
KPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRSNVVSPTKNEDNGAPENSVEKPHEKPEARASKDYSG

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

>44494_44494_12_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000547008_LARP4_chr12_50847243_ENST00000518444_length(amino acids)=586AA_BP=130
MALSRVCWARSAVWGSAVTPGHFVTRRLQLGRSGLAWGAPRSSKLHLSPKADVKNLMSYVVTKTKAINGKYHRFLGRHFPRFYVLYTIFM
KGLQMLWADAKKARRIKTNMWKHNIKFHQLPYREMEHLRQARIKAINTFFAKNGYRLMDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYS
VYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKNRVKPQFRSSGGSEHSTEGSVSLGDGQLNRYSSRNF
PAERHNPTVTGHQEQTYLQKETSTLQVEQNGDYGRGRRTLFRGRRRREDDRISRPHPSTAESKAPTPKFDLLASNFPPLPGSSSRMPGEL
VLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELTALSTTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTT
KPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRSNVVSPTKNEDNGAPENSVEKPHEKPEARASKDYSG

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

>44494_44494_13_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000550929_LARP4_chr12_50847243_ENST00000293618_length(amino acids)=460AA_BP=75
MMSYVVTKTKAINGKYHRFLGRHFPRFYVLYTIFMKGLQMLWADAKKARRIKTNMWKHNIKFHQLPYREMEHLRQARIKAINTFFAKNGY
RLMDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYSVYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKN
RRTLFRGRRRREDDRISRPHPSTAESKAPTPKFDLLASNFPPLPGSSSRMPGELVLENRMSDVVKGVYKEKDNEELTISCPVPADEQTEC
TSAQQLNMSTSSPCAAELTALSTTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTTKPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQ
KPPKEPSSVLVQPLRELRSNVVSPTKNEDNGAPENSVEKPHEKPEARASKDYSGFRGNIIPRGAAGKIREQRRQFSHRAIPQGVTRRNGK

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>44494_44494_14_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000550929_LARP4_chr12_50847243_ENST00000398473_length(amino acids)=531AA_BP=75
MMSYVVTKTKAINGKYHRFLGRHFPRFYVLYTIFMKGLQMLWADAKKARRIKTNMWKHNIKFHQLPYREMEHLRQARIKAINTFFAKNGY
RLMDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYSVYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKN
RVKPQFRSSGGSEHSTEGSVSLGDGQLNRYSSRNFPAERHNPTVTGHQEQTYLQKETSTLQVEQNGDYGRGRRTLFRGRRRREDDRISRP
HPSTAESKAPTPKFDLLASNFPPLPGSSSRMPGELVLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELT
ALSTTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTTKPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRS

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>44494_44494_15_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000550929_LARP4_chr12_50847243_ENST00000429001_length(amino acids)=531AA_BP=75
MMSYVVTKTKAINGKYHRFLGRHFPRFYVLYTIFMKGLQMLWADAKKARRIKTNMWKHNIKFHQLPYREMEHLRQARIKAINTFFAKNGY
RLMDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYSVYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKN
RVKPQFRSSGGSEHSTEGSVSLGDGQLNRYSSRNFPAERHNPTVTGHQEQTYLQKETSTLQVEQNGDYGRGRRTLFRGRRRREDDRISRP
HPSTAESKAPTPKFDLLASNFPPLPGSSSRMPGELVLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELT
ALSTTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTTKPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRS

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

>44494_44494_16_LETMD1-LARP4_LETMD1_chr12_51445990_ENST00000550929_LARP4_chr12_50847243_ENST00000518444_length(amino acids)=531AA_BP=75
MMSYVVTKTKAINGKYHRFLGRHFPRFYVLYTIFMKGLQMLWADAKKARRIKTNMWKHNIKFHQLPYREMEHLRQARIKAINTFFAKNGY
RLMDSSIYSHPIQTQAQYASPVFMQPVYNPHQQYSVYSIVPQSWSPNPTPYFETPLAPFPNGSFVNGFNSPGSYKTNAAAMNMGRPFQKN
RVKPQFRSSGGSEHSTEGSVSLGDGQLNRYSSRNFPAERHNPTVTGHQEQTYLQKETSTLQVEQNGDYGRGRRTLFRGRRRREDDRISRP
HPSTAESKAPTPKFDLLASNFPPLPGSSSRMPGELVLENRMSDVVKGVYKEKDNEELTISCPVPADEQTECTSAQQLNMSTSSPCAAELT
ALSTTQQEKDLIEDSSVQKDGLNQTTIPVSPPSTTKPSRASTASPCNNNINAATAVALQEPRKLSYAEVCQKPPKEPSSVLVQPLRELRS

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

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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/chr12:51445990/chr12:50847243)
- 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
LETMD1 Q6P1Q0	LARP4 Q92615
FUNCTION: Involved in tumorigenesis and may function as a negative regulator of the p53/TP53. {ECO:0000269\|PubMed:12879013}.	FUNCTION: Stimulates mRNA translation. {ECO:0000269\|PubMed:20573744}.

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

LETMD1

chr12:51445990

chr12:50847243

ENST00000262055

1_110

130.0

361.0

Region

Note=Required and sufficient for mitochondrial import

Tgene

LARP4

chr12:51445990

chr12:50847243

ENST00000347328

113_202

654.0

Domain

HTH La-type RNA-binding

Tgene

LARP4

chr12:51445990

chr12:50847243

ENST00000347328

203_281

654.0

Domain

Note=RRM

- 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

LETMD1

chr12:51445990

chr12:50847243

ENST00000262055

186_360

130.0

361.0

Domain

Letm1 RBD

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000380123

186_360

372.3333333333333

Domain

Letm1 RBD

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000418425

186_360

374.0

Domain

Letm1 RBD

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000550929

186_360

74.0

305.0

Domain

Letm1 RBD

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000380123

1_110

372.3333333333333

Region

Note=Required and sufficient for mitochondrial import

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000418425

1_110

374.0

Region

Note=Required and sufficient for mitochondrial import

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000550929

1_110

74.0

305.0

Region

Note=Required and sufficient for mitochondrial import

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000262055

159_360

130.0

361.0

Topological domain

Mitochondrial intermembrane

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000262055

1_137

130.0

361.0

Topological domain

Cytoplasmic

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000380123

159_360

372.3333333333333

Topological domain

Mitochondrial intermembrane

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000380123

1_137

372.3333333333333

Topological domain

Cytoplasmic

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000418425

159_360

374.0

Topological domain

Mitochondrial intermembrane

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000418425

1_137

374.0

Topological domain

Cytoplasmic

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000550929

159_360

74.0

305.0

Topological domain

Mitochondrial intermembrane

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000550929

1_137

74.0

305.0

Topological domain

Cytoplasmic

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000262055

138_158

130.0

361.0

Transmembrane

Helical

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000380123

138_158

372.3333333333333

Transmembrane

Helical

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000418425

138_158

374.0

Transmembrane

Helical

Hgene

LETMD1

chr12:51445990

chr12:50847243

ENST00000550929

138_158

74.0

305.0

Transmembrane

Helical

Tgene

LARP4

chr12:51445990

chr12:50847243

ENST00000293618

113_202

268.0

654.0

Domain

HTH La-type RNA-binding

Tgene

LARP4

chr12:51445990

chr12:50847243

ENST00000293618

203_281

268.0

654.0

Domain

Note=RRM

Tgene

LARP4

chr12:51445990

chr12:50847243

ENST00000398473

113_202

268.0

725.0

Domain

HTH La-type RNA-binding

Tgene

LARP4

chr12:51445990

chr12:50847243

ENST00000398473

203_281

268.0

725.0

Domain

Note=RRM

Tgene

LARP4

chr12:51445990

chr12:50847243

ENST00000429001

113_202

274.0

731.0

Domain

HTH La-type RNA-binding

Tgene

LARP4

chr12:51445990

chr12:50847243

ENST00000429001

203_281

274.0

731.0

Domain

Note=RRM

Tgene

LARP4

chr12:51445990

chr12:50847243

ENST00000518444

113_202

267.0

724.0

Domain

HTH La-type RNA-binding

Tgene

LARP4

chr12:51445990

chr12:50847243

ENST00000518444

203_281

267.0

724.0

Domain

Note=RRM

Tgene

LARP4

chr12:51445990

chr12:50847243

ENST00000522085

113_202

268.0

446.0

Domain

HTH La-type RNA-binding

Tgene

LARP4

chr12:51445990

chr12:50847243

ENST00000522085

203_281

268.0

446.0

Domain

Note=RRM

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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
LETMD1
LARP4

- 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
Tgene	LARP4	chr12:51445990	chr12:50847243	ENST00000293618		7	15	13_22	268.0	654.0	PABPC1
Tgene	LARP4	chr12:51445990	chr12:50847243	ENST00000398473		7	16	13_22	268.0	725.0	PABPC1
Tgene	LARP4	chr12:51445990	chr12:50847243	ENST00000429001		7	16	13_22	274.0	731.0	PABPC1
Tgene	LARP4	chr12:51445990	chr12:50847243	ENST00000518444		7	16	13_22	267.0	724.0	PABPC1
Tgene	LARP4	chr12:51445990	chr12:50847243	ENST00000522085		7	11	13_22	268.0	446.0	PABPC1
Tgene	LARP4	chr12:51445990	chr12:50847243	ENST00000293618		7	15	111_303	268.0	654.0	the poly-A tract of mRNA
Tgene	LARP4	chr12:51445990	chr12:50847243	ENST00000398473		7	16	111_303	268.0	725.0	the poly-A tract of mRNA
Tgene	LARP4	chr12:51445990	chr12:50847243	ENST00000429001		7	16	111_303	274.0	731.0	the poly-A tract of mRNA
Tgene	LARP4	chr12:51445990	chr12:50847243	ENST00000518444		7	16	111_303	267.0	724.0	the poly-A tract of mRNA
Tgene	LARP4	chr12:51445990	chr12:50847243	ENST00000522085		7	11	111_303	268.0	446.0	the poly-A tract of mRNA

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Related Drugs to LETMD1-LARP4

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 LETMD1-LARP4

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