Retroviral activation of the mir-106a microRNA cistron in T lymphoma

Lum, Amy M; Wang, Bruce B; Li, Lauri; Channa, Namitha; Bartha, Gabor; Wabl, Matthias

doi:10.1186/1742-4690-4-5

Retrovirology

Table 2 Summary of integrations in tumors assayed for the mmu-mir-106a cistron

From: Retroviral activation of the mir-106a microRNA cistron in T lymphoma

				Gene located near insertion site
Tumor #	Tumor Name	Location	Orientation	Abbr/Acc	Description
1	1759S-158-18	chr18:78192824	G+T+	XM_973419
1	1759S-158-18	chr7:73480330	T-G+	XM_978127.1
1	1759S-158-18	chr5:107965444	G-T-	Gfi1	Growth factor independent 1
2	1890S-76-1	chr10:20756607	G+T-	Ahi1	Jouberin
2	1890S-76-1	chr7:144921997	T-G-	Tpcn2	Two pore segment channel 2
2	1890S-76-1	chr15:61868694	G+T+	PVT1	Plasmacytoma variant translocation 1
3	718S-68-23	chr17:29126185	G+T-	Fgd2	FYVE, RhoGEF and PH domain containing 2
3	718S-68-23	chr11:5819233	G-T-	Gck	Glucokinase
3	718S-68-23	chr11:66037536	G-T-	Gm879	Gene model 879
4	1786S-166-32	chr5:116571294	G-T-	Ccdc60	Coiled-coil domain containing 60
4	1786S-166-32	chr5:107977381	T+G-	Evi5	Ecotropic viral integration site 5
5	818S-36-8	chr18:5348771	G-T-	Zfp438	Zinc finger protein 438
5	818S-36-8	chr5:15380286	T-G+	Cacna2d1	Calcium channel, voltage-dependent, alpha2/delta subunit 1
6	553S-122-16	chr5:107957997	G-T-	Gfi1	Growth factor independent 1
6	553S-122-16	chr15:62006727	G+T-	PVT1	Plasmacytoma variant translocation 1
7	1758S-158-17	chr5:115421225	G-T-	2410014A08Rik	Hypothetical protein LOC109154
7	1758S-158-17	chr5:107968359	G-T+	Gfi1	Growth factor independent 1
7	1758S-158-17	chr17:46990647	G-T-	Tbn	Taube nuss
8	1189S-187-12	chr5:107970686	G-T+	Gfi1	Growth factor independent 1
8	1189S-187-12	chr9:20880975	G-T-	Tyk2	Tyrosine kinase 2
8	1189S-187-12	chr15:63293889	T+G-	XM_139402
8	1189S-187-12	chr19:55328465	G+T-	Acsl5	Acyl-CoA synthetase long-chain family member 5
9	3390T-128-37	chr2:117124415	G-T+	Rasgrp1	RAS guanyl releasing protein 1
9	3390T-128-37	chr7:113933436	G-T+	Rras2	Related RAS viral (r-ras) oncogene homolog 2
9	3390T-128-37	chr7:113636412	G+T-	Spon1	Spondin 1, (f-spondin) extracellular matrix protein
9	3390T-128-37	chr10:20761837	G+T-	Ahi1	Jouberin
10	3412S-171-29	chr10:20781072	G+T-	Ahi1	Jouberin
11	1544S-136-23	chr13_random:67900	G+T+	NM_175538.2	RIKEN cDNA E130304F04 gene
11	1544S-136-23	chr9:36980695	G-T+	Slc37a2	Solute carrier family 37 (glycerol-3-phosphate transporter), member 2
11	1544S-136-23	chr10:58965185	G-T+	NM_001033259.1	RIKEN cDNA D130073L02 gene
12	49S-41-2	chr2:72016508	G+T+	Rapgef4	Rap guanine nucleotide exchange factor (GEF) 4
12	49S-41-2	chr17:47006160	G-T-	Tbn	Taube nuss
13	800S-	chr7:58627272	G+T-	Atp10a	ATPase, class V, type 10A
13	800S-	chr16:94677486	G-T-	Dscr3	Down syndrome critical region gene 3
14	2061S-165-11	chr14:77172712	T+G-	Akap11	A kinase (PRKA) anchor protein 11
14	2061S-165-11	chr5:107977456	T+G-	Evi5	Ecotropic viral integration site 5
14	2061S-165-11	chr17:29125847	G+T-	Fgd2	FYVE, RhoGEF and PH domain containing 2
15	462S-66C-20	chr2:26317278	G-T+	Notch1	Notch gene homolog 1 (Drosophila)
15	462S-66C-20	chr10:20779700	G+T-	Ahi1	Jouberin
15	462S-66C-20	chr12:86435291	G+T-	XM_988509
16	494S-95-4	chr10:120923128	T+G-	Tbk1	TANK-binding kinase 1
16	494S-95-4	chr14:121149083	G+T+	Phgdhl1	Phosphoglycerate dehydrogenase like 1
16	494S-95-4	chr1:139964759	G-T+	Ptprc	Protein tyrosine phosphatase, receptor type, C
17	1469S-150-34	chr16:48708118	G+T+	LOC432823
17	1469S-150-34	chr5:107979863	T+G-	Evi5	Ecotropic viral integration site 5
17	1469S-150-34	chr12:86550688	G+T+	Jundm2	Jun dimerization protein 2
18	195S-19-7	chr10:20744863	G+T-	Ahi1	Jouberin
19	463S-66-21	chr4:98038839	G+T-	Inadl	InaD-like (Drosophila)
19	463S-66-21	chr5:107968538	G-T+	Gfi1	Growth factor independent 1
19	463S-66-21	chr17:46998042	G-T-	Tbn	Taube nuss
19	463S-66-21	chr1:137623944	G+T-	Tnni1	Troponin I, skeletal, slow 1
20	1415S-	chr15:61998664	G+T+	PVT1	Plasmacytoma variant translocation 1
20	1415S-	chr14:68239584	G-T+	Slc25a37	Solute carrier family 25, member 37
20	1415S-	chr14:78271471	G+T-	Elf1	E74-like factor 1
21	2057S-172-23	chr15:79832811	G-T+	Pdgfb	platelet derived growth factor, B polypeptide
21	2057S-172-23	chr13:52820992	T-G-	Auh	AU RNA binding protein/enoyl-coenzyme A hydratase

Additional retroviral insertion sites recovered from tumors containing an insertion site upstream of the mir-106a cistron. Retroviral insertion site locations and orientations are notated as in Table 1. Nearby genes to the insertion sites are also listed.

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ISSN: 1742-4690

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