Table 1.

Transcription mapping of KSHV in BC-1 cells with and without TPA

Probe no.ORFs encoded on probePosition (bp)Probe size (kb)mRNAs (kb) identified in BC-1aTranscription class
Without TPA inductionWith TPA induction
1K1,4 (v-CBP), 6TR (366 bp)6.7156.0+6.0II
1–63494.0III
3.0III
1.8III
1.0III
27, 8, 9, 10, 116900–166009.77.0III
6.0III
2.5III
1.0III
311, K2 (v-IL-6), 2 (DHFR), K3 (IEI)16200–197003.58.0III
6.0III
3.1III
2.0III
1.0 ++ (K2[v-IL-6])1.0II
4K3 (IE1), 70 (TS),19130–239064.7764.0III
K4 (v-MIP-II), K4.12.5III
2.3+2.3II
2.0III
1.5III
0.8 ++ (K4 [vMIP-II])0.8II
5K5 (IE1), K6 (v-MIP-I),24839–288884.0494.0 +4.0II
 K7 (nut-1)1.3 +1.3II
1.1 +++ (T1.1/nut1)1.1II
6K7 (nut-1)28889–296760.7879.0III
1.1 ++++ (T1.1/nut-1)1.1II
716 (v-Bc12), 1729677–308401.1639.0III
7.0III
3.5III
2.0III
1.0III
81730841–323611.527.0III
6.0III
3.5III
2.0III
1.0III
917, 18, 1932362–344012.0397.0III
6.0III
1.0III
1019, 20, 2134021–368822.8617.0III
6.0III
1121, 22, 23, 24, 2536883–431716.2887.0III
6.0III
3.0III
1225, 2643172–471934.0217.0III
2.0III
1326, 27, 28, 29b, 3047517–506373.127.0III
2.0III
1430, 31, 32, 33, 29a, 34, 3550638–557225.0848.0III
6.0III
3.0III
1534, 3555269–558190.554.5III
3.0III
1.1III
1636, 37, 38, 39, 40, 41, 4255820–629017.0814.5III
3.0III
2.5 +2.5II
1.4III
0.5III
1742, 4362902–634030.5019.0III
6.0III
4.5III
3.0III
2.5III
1.4III
184363404–637930.3899.0III
4.5III
3.0III
1943, 4464037–665022.4656.0 +6.0II
4.5III
3.0III
2.7III
2044, 4566503–683241.8219.0III
4.0III
2.5+2.5II
1.5 +++1.5II
2145, 46, 47, 48, 4968325–721913.8668.0III
2.5III
1.5III
0.8III
2249, 50, K8, K8.1, 5272192–770874.8957.0III
4.0III
1.8 +1.8II
1.5 +1.5II
2352, 53, 54, 55, 5677088–810463.9583.0III
2.0III
1.3III
2456, 5781047–832782.2312.0 +2.0II
2557, K9 (v-IRF1), K1083279–862793.02.0III
1.5 ++ (v-IRF)1.5II
26K1086879–901583.2793.0III
2.0 +2.0III
1.5III
27K10.1, K1190159–921101.9512.0 +2.0II
28K1192111–924680.3574.5III
3.0III
2.0 +2.0II
29K11, 58, 59 60, 6192665–998647.1996.0III
3.0III
2.0 +2.0II
3061, 62, 6399865–1012321.3672.0III
1.7III
3162, 63, 64100784–1040753.2912.0III
1.7III
3264104076–1070082.9325.0III
3.0III
2.0III
1.7III
1.2III
3364, 65, 66, 67, 67.5, 68107940–1150517.1117.0III
5.0III
4.0III
2.5III
1.2III
3468115052–1157070.6559.0III
7.0III
6.0III
4.0III
3568, 69, K12 (kaposin)115708–1207255.0174.0III
0.7 ++++ (T0.7/kaposin)0.7II
36K13 (v-FLIP)120601–1225901.9896.0 + (v-FLIP, v-Cyc, LANA)6.0I
2.0 + (v-FLIP, v-Cyc)2.0I
37K13 (v-FLIP),122591–1273924.8016.0 ++ (v-FLIP, v-Cyc, LANA)6.0I
72 (v-Cyc), 73 (LANA)2.0 ++ (v-FLIP, v-Cyc)2.0I
3872 (v-Cyc)122792–1235650.7736.0 ++ (v-FLIP, v-Cyc, LANA)6.0I
2.0 ++ (v-FLIP, v-Cyc)2.0I
39K14, 74 (V-GCR), 75127393–1333815.9886.0 + (v-FLIP, v,Cyc, LANA)6.0I
4.5 +++4.5I
3.0III
2.5III
2.0 + (v-FLIP, v-Cyc)2.0I
40K14 (v-Adh)127882–1289281.0464.5 +4.5I
2.5III
1.5III
1.2III
4174 (v-GCR)129513–1299850.4729.0III
2.5III
42K15135976–1362780.3029.0III
6.0III
  • a Specific genes identified with specific sequence probes are indicated in paretheses. Relative transcription in BC-1 without TPA: −, none; +, low; ++, moderate; +++, high; ++++, very high. For abbreviations, see the legend to Fig. 1.