TABLE 1.
ORF identity between HST and U1102 strains of HHV-6
| ORFa
|
Orientation | Position
|
N-terminal Met?b | Length (aa)c | Identity (%)d | Z29 ORFe | Identity (%)f | HHV-7 homologe | Comments | |||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HST | U1102 | Start | Stop | Poly(A) signalg | ||||||||
| LT1 | LT1 | − | 364 | 17 | Y | 115/112 | 52.5 | |||||
| DR1 | DR1 | + | 576 | 842 | 3912 | Y | 88/97 | 86.4 | DR1 | US22 gene family | ||
| DR2 | DR2 | + | 1027 | 2970 | 3912 | Y | 647/620 | 68.2 | DR2 | US22 gene family | ||
| DR3 | DR3 | − | 3320 | 2718 | Y | 200/192 | 82.5 | |||||
| DR4 | NAh/100 | |||||||||||
| DR5 | NA/145 | |||||||||||
| DR6 | DR6 | + | 5025 | 5336 | 5952 | Y | 103/103 | 84.5 | DR6 | US22 gene family | ||
| DRHN1 | − | 5532 | 5023 | 4745 | Y | 169/NA | ||||||
| DR7 | DR7 | + | 6512 | 7150 | 7468 | Y | 212/363 | 42.2 | DR7 | US22 gene family, transformation, transactivator | ||
| DRHN2 | − | 7706 | 7236 | 4745 | Y | 156/NA | ||||||
| DR8 | DR8 | + | 7928 | 8662 | Y | 244/110 | 13.6 | |||||
| LJ1 | LJ1 | − | 8807 | 8292 | Y | 172/321 | 16.6 | |||||
| U1 | U1 | + | 8929 | 9384 | Y | 151/123 | 25.6 | |||||
| U2 | U2 | − | 10768 | 9467 | 9360 | Y | 433/366 | 92.0 | U2 | US22 gene family | ||
| U3 | U3 | − | 12051 | 10891 | 9360 | Y | 386/373 | 90.1 | U3 | US22 gene family | ||
| U4 | U4 | − | 13883 | 12276 | 9360 | Y | 535/535 | 98.1 | U4 | |||
| U5 | U5 | − | 15333 | 14002 | 13919 | Y | 443/444 | 94.6 | U5/7 | |||
| U6 | U6 | + | 15395 | 15652 | 16088 | N | 85/82 | 95.1 | ||||
| U7 | U7 | − | 16802 | 15678 | 15447* | Y | 374/342 | 97.3 | US22 gene family | |||
| U8 | U8 | − | 18041 | 16806 | 15447 | Y | 411/356 | 83.0 | U8 | US22 gene family | ||
| U9 | U9 | − | 18336 | 18022 | 17999 | Y | 104/104 | 94.2 | ||||
| U10 | U10 | + | 18386 | 19897 | 20435* | Y | 503/436 | 95.6 | U10 | |||
| U11 | U11 | − | 22377 | 19801 | 19765 | Y | 858/870 | 80.1 | p100 | 100 | U11 | pp100, major antigenic structural protein |
| U12EX | U12EX | + | 22479 | 22553 | Y | 353/347 | 88.4 | U12EX | U12 exon 1, spliced donor 22511 | |||
| U12 | U12 | + | 22700 | 23617 | 23634 | Y | 305/318 | 90.2 | U12 | CC-chemokine receptor, exon 2, acceptor 22589 | ||
| U13 | U13 | + | 23699 | 24022 | 24775 | Y | 107/106 | 92.5 | U13 | |||
| U14 | U14 | + | 24136 | 25953 | 26012 | Y | 610/609 | 86.0 | U14 | |||
| U15 | U15 | − | 26891 | 26559 | 26300* | Y | 110/110 | 88.2 | U15 | |||
| U16 | U16 | − | 27603 | 27172 | 27105 | Y | 143/143 | 94.4 | U16 | IE-B, transactivator, US22 gene family | ||
| U17 | U17 | − | 28263 | 28003 | 27975 | Y | 86/133 | 95.3 | U17 | IE-B | ||
| U18 | U18 | − | 30327 | 29443 | 29447i | Y | 294/293 | 88.7 | U18 | IE-B, homology to HCMV IE glycoprotein | ||
| U19 | U19 | − | 31761 | 30592 | 29447 | Y | 389/389 | 91.5 | U19 | IE-B | ||
| U20 | U20 | − | 33288 | 31984 | 31940 | Y | 434/422 | 91.0 | U20 | Glycoprotein, Ig chain C domain | ||
| U21 | U21 | − | 34793 | 33291 | 31940 | Y | 500/433 | 89.8 | U21 | Glycoprotein | ||
| U22 | U22 | − | 35298 | 34690 | 34656* | Y | 202/202 | 95.5 | Glycoprotein | |||
| U23 | U23 | − | 36225 | 35326 | 35010 | Y | 299/236 | 86.9 | U23 | Glycoprotein | ||
| U24 | U24 | − | 36616 | 36350 | 36253* | Y | 88/87 | 81.8 | U24 | |||
| U25 | U25 | − | 37775 | 36825 | 36253* | Y | 316/316 | 98.1 | U25 | US22 gene family | ||
| U26 | U26 | − | 38770 | 37883 | 37847 | Y | 295/295 | 92.9 | U26 | |||
| U27 | U27 | − | 39933 | 38758 | 37847 | Y | 391/393 | 95.4 | U27 | pp41, DNA polymerase processivity transactivator | ||
| U28 | U28 | − | 42389 | 39975 | 39968 | Y | 804/804 | 96.0 | U28 | Large subunit of ribonucleotide reductase | ||
| U29 | U29 | − | 43311 | 42412 | 42365 | Y | 299/299 | 96.0 | U29 | Minor capsid protein | ||
| U30 | U30 | + | 42839 | 46087 | 49520 | Y | 1082/1082 | 92.4 | U30 | Capsid assembly, myosin | ||
| U31 | U31 | + | 46105 | 52338 | 52395 | Y | 2077/2077 | 93.0 | U31 | Large tegument protein | ||
| U32 | U32 | − | 52681 | 52412 | 52380 | Y | 89/88 | 95.5 | U32 | |||
| U33 | U33 | − | 54095 | 52683 | 52380 | Y | 470/470 | 98.3 | U33 | Capsid protein | ||
| U34 | U34 | − | 54876 | 54046 | 53960 | Y | 276/276 | 93.8 | U34 | Possible virion protein | ||
| U35 | U35 | − | 55210 | 54893 | 54255 | Y | 106/106 | 96.2 | U35 | |||
| U36 | U36 | + | 55212 | 56660 | 57454* | Y | 481/484 | 95.0 | U36 | Probable virion protein | ||
| U37 | U37 | + | 56664 | 57458 | 57454*i | Y | 264/264 | 97.0 | U37 | |||
| U38 | U38 | − | 60542 | 57504 | 57469 | Y | 1012/1012 | 97.5 | U38 | DNA polymerase | ||
| U39 | U39 | − | 63034 | 60541 | 60423 | Y | 830/830 | 96.1 | gB | 98.2 | U39 | gB |
| U40 | U40 | − | 65168 | 62988 | 62578 | Y | 726/726 | 98.3 | KA1L | 100 | U40 | Transport protein |
| U41 | U41 | − | 68574 | 65176 | 64037* | Y | 1132/1132 | 98.8 | KA2L | 100 | U41 | Major DNA binding protein |
| U42 | U42 | − | 71487 | 69937 | 69804 | Y | 516/514 | 95.2 | KA3L | 100 | U42 | Conserved herpesvirus transactivator |
| U43 | U43 | − | 74294 | 71712 | 71615* | Y | 860/860 | 97.7 | KA4L | 100 | U43 | Helicase/primase complex, HSV primase |
| U44 | U44 | + | 74335 | 75030 | 75062* | Y | 231/213 | 95.5 | KA5R | 100 | U44 | |
| U45 | U45 | − | 76107 | 74977 | 74714* | Y | 376/376 | 94.4 | KA6L | 100 | U45 | Putative dUTPase |
| U46 | U46 | + | 76180 | 76434 | 76479 | Y | 84/84 | 94.0 | KA7R | 100 | U46 | |
| U47 | U47 | − | 78833 | 76617 | 76578 | Y | 738/651 | 69.8 | KA8L | 99.9 | U47 | |
| U48 | U48 | − | 81183 | 79099 | 79099i | Y | 694/694 | 94.4 | KA9L | 99.9 | U48 | gH |
| U49 | U49 | + | 81342 | 82100 | 84529 | Y | 252/252 | 97.2 | KA10R | 100 | U49 | Fusion protein |
| U50 | U50 | + | 81877 | 83544 | 84529 | Y | 555/555 | 97.3 | KA11R | 100 | U50 | Virion protein |
| U51 | U51 | + | 83642 | 84547 | 84579 | Y | 301/301 | 94.0 | KA12R | 100 | U51 | G-protein-coupled receptor homolog |
| U52 | U52 | − | 85343 | 84744 | 84570 | Y | 258/258 | 96.9 | U52 | |||
| U53 | U53 | + | 85350 | 86936 | 87101 | Y | 528/528 | 96.6 | U53 | Protease, in-frame assembly protein | ||
| U54 | U54 | − | 88550 | 87171 | 87142 | Y | 459/458 | 79.5 | U54 | Tegument transactivator, pp65/72K | ||
| U55 | U55 | − | 90106 | 88628 | 88485* | Y | 492/432 | 93.3 | U55 | |||
| U56 | U56 | − | 90997 | 90107 | 90111*i | Y | 296/296 | 97.6 | U56 | Capsid protein | ||
| U57 | U57 | − | 95036 | 90999 | 90236* | Y | 1345/1345 | 97.6 | U57 | Major capsid protein | ||
| U58 | U58 | + | 95048 | 97366 | 98648* | Y | 772/772 | 97.3 | U58 | |||
| U59 | U59 | + | 97375 | 98415 | 98648* | Y | 350/350 | 94.6 | U59 | |||
| U60 | U60 | − | 99380 | 98412 | 97688* | Y | 322/322 | 100 | U60 | Late spliced gene (U60/66) for DNA packaging | ||
| U61 | U61 | − | 99867 | 99355 | 99089 | N | 170/115 | 94.8 | ||||
| U62 | U62 | + | 99551 | 99814 | 100161* | Y | 87/85 | 92.0 | U62 | |||
| U63 | U63 | + | 99756 | 100412 | 100563* | Y | 218/216 | 98.6 | U63 | |||
| U64 | U64 | + | 100390 | 101718 | 102152 | Y | 442/442 | 93.2 | U64 | |||
| U65 | U65 | + | 101675 | 102682 | 102721 | Y | 335/335 | 85.1 | U65 | |||
| U66 | U66 | − | 103619 | 102702 | 101283* | Y | 305/305 | 97.4 | U66 | Late spliced gene (U60/66) for DNA packaging | ||
| U67 | U67 | + | 103591 | 104652 | 104787* | Y | 353/353 | 96.6 | U67 | |||
| U68 | U68 | + | 104652 | 104996 | 106850 | Y | 114/114 | 93.9 | U68 | |||
| U69 | U69 | + | 104999 | 106690 | 106850 | Y | 563/562 | 94.1 | U69 | Ganciclovir kinase, conserved phosphotransferase | ||
| U70 | U70 | + | 106698 | 108164 | 108399 | Y | 488/488 | 96.3 | CH3R | 99.8 | U70 | Alkaline exonuclease |
| U71 | U71 | + | 108101 | 108346 | 108399 | Y | 81/77 | 85.2 | CH4R | 100 | U71 | |
| U72 | U72 | − | 109462 | 108428 | 108383 | Y | 344/344 | 97.1 | CH5L | 100 | U72 | Integral membrane protein, gM |
| U73 | U73 | + | 109475 | 111817 | 113835 | Y | 780/780 | 97.6 | CH6R | 99.9 | U73 | Origin binding protein |
| U74 | U74 | + | 111786 | 113774 | 113835 | Y | 662/662 | 96.5 | CB1R | 99.7 | U74 | Helicase/primase complex |
| U75 | U75 | − | 113756 | 113379 | 113163 | Y | 249/249 | 96.0 | CB2L | 100 | U75 | |
| U76 | U76 | − | 116455 | 114467 | 113720 | Y | 662/662 | 98.9 | CB3L | 99.7 | U76 | |
| U77 | U77 | + | 116250 | 118724 | 119241* | Y | 824/824 | 98.9 | CB4R | 99.8 | U77 | Helicase/primase complex, helicase |
| U78 | NA/109 | |||||||||||
| U79 | U79 | + | 121322 | 122359 | 123038 | Y | 345/344 | 77.4 | CB7R | 99.7 | U79 | HCMV replication, spliced |
| U80 | U80 | + | 122640 | 122942 | 123038 | Y | 203/198 | 81.0 | CB8R | 100 | U80 | HCMV replication, spliced |
| U81 | U81 | − | 123753 | 122986 | 122950 | Y | 255/255 | 94.1 | CB9L | 98.8 | U81 | Uracil-DNA glycosylase |
| U82 | U82 | − | 124581 | 123829 | 122950 | Y | 250/250 | 93.6 | CB10L | 99.6 | U82 | gL, gH accessory protein |
| U83 | U83 | + | 124657 | 124998 | 125133 | Y | 113/97 | 87.5 | CB11R | 100 | U83 | Chemokine |
| U84 | U84 | − | 126132 | 125104 | 125100 | Y | 342/342 | 90.9 | U84 | Spliced in HCMV | ||
| U85 | U85 | − | 127038 | 126160 | 126117 | Y | 292/290 | 90.8 | U85 | OX-2 homology, glycoprotein | ||
| U86 | U86 | − | 131717 | 127176 | 127157 | Y | 1513/1351 | 64.3 | U86 | IE-A, HCMV IE2 homolog, acceptor 131767 | ||
| U88 | NA/413 | |||||||||||
| U89 | U89 | − | 137684 | 134808 | 134579 | Y | 958/839 | 62.2 | IE1 | 92.3 | U89 | IE-A, HCMV IE1 position, transactivator, acceptor 137737 |
| U90 | U90 | − | 138085 | 137810 | 134579 | N | 89/94 | 61.6 | U90 | IE-A, spliced U86 and U89, acceptor/donor 138059/137848 | ||
| HN1 | − | 138241 | 138143 | 134579 | Y | 32/NA | IE-A, spliced U90, donor 138147 | |||||
| U91 | U91 | + | 138630 | 138974 | 139230* | N | 114/114 | 72.4 | U91 | |||
| U92 | NA/147 | |||||||||||
| U93 | NA/197 | |||||||||||
| HN2 | − | 142355 | 141543 | 141312* | Y | 270/NA | ||||||
| U94 | U94 | − | 144155 | 142683 | 142631 | Y | 490/490 | 97.6 | Parvovirus replication, transactivation | |||
| U95 | U95 | + | 144230 | 147868 | 147919* | Y | 1197/1121 | 64.0 | U95 | MCMV IE2 homolog, US22 gene family | ||
| U96 | NA/99 | |||||||||||
| U97 | U97 | − | 149651 | 149360 | 148258* | Y | 99/89 | 79.8 | Spliced glycoprotein gp82/105 | |||
| HN3 | − | 149913 | 149746 | 148258* | N | 55/NA | Spliced glycoprotein gp82/105 | |||||
| U98 | U98 | − | 150870 | 150376 | 148258* | Y | 164/216 | 78.6 | U98 | gp82/105 | ||
| U99 | U99 | − | 151396 | 151115 | 148258* | Y | 93/93 | 78.9 | U99 | gp82/105 | ||
| U100 | U100 | − | 151918 | 151529 | 148258* | Y | 129/189 | 72.1 | U100 | gp82/105 | ||
| RJ1 | RJ1 | − | 153407 | 153060 | Y | 116/112 | 57.5 | |||||
| DR1′ | DR1′ | + | 153618 | 153884 | 156954 | Y | 88/97 | 86.4 | DR1′ | US22 gene family | ||
| DR2′ | DR2′ | + | 154069 | 156012 | 156954 | Y | 647/620 | 74.8 | DR2′ | US22 gene family | ||
| DR3′ | DR3′ | − | 156362 | 155760 | Y | 200/192 | 82.5 | |||||
| DR4′ | NA/100 | |||||||||||
| DR5′ | NA/145 | |||||||||||
| DR6′ | DR6′ | + | 158067 | 158378 | 158994 | Y | 103/103 | 84.5 | DR6′ | US22 gene family | ||
| DRHN1′ | − | 158574 | 158065 | 157787 | Y | 169/NA | ||||||
| DR7′ | DR7′ | + | 159554 | 160192 | 160510 | Y | 212/363 | 82.4 | DR7′ | US22 gene family, transformation, transactivator | ||
| DRHN2′ | − | 160748 | 160278 | 157787 | Y | 156/NA | ||||||
| DR8′ | NA/110 | |||||||||||
a
HST ORFs are named after their U1102 homologs (16); ORFs unique to HST are prefixed with “HN” or “DRHN” and numbered 1 and 2.
b
Y, yes; N, no.
c
Of ORFs translation product (HST/U1102).
d
Values for percent identity between HST and U1102 homologs are based on ALIGN alignments, with gap and length weights set at 3.0 and 0.1, respectively.
e
Homologous genes were identified by database searches. Listings of homologous genes were based on these analyses and on data from comparisons of HHV-6 and HHV-7 strain JI (9, 26, 27, 44, 48).
f
The values for percent identity between HST and Z29 homologs are based on ALIGN alignments, with gap and length weights set at 3.0 and 0.1, respectively.
g
First downstream polyadenylation signals (AATAAA or ATTAAA*).
h
NA, not applicable.
i
Polyadenylation signals overlapping ORF C-terminal sequences.