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Regiona | SH1 startb | SH1 stop | Length (bp) | PH1 start | PH1 stop | Length (bp) | Comment |
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DV1 | 527 | 650 | 123 | 538 | 604 | 66 | Replacement. Both regions have direct repeats at their borders; PH1 has two sets GACCCGGC and CGCTGC, while SH1 has CCCGAC. In SH1, this replacement region includes the C-terminal region of ORF2 and the N-terminal region of ORF3. In PH1, it covers only the C-terminal region of ORF1 |
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DV2 | 2433 | 2588 | 155 | 2386 | 2387 | — | RMDc from PH1. SH1 repeat at border is TGACCG. This removes the homolog of SH1 ORF10 from PH1 |
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DV3 | 3324 | 3598 | 274 | 3137 | 3416 | 279 | Replacement at the beginning of SH1 ORF13/PH1 ORF12 (capsid protein VP1) |
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DV4 | 6656 | 7128 | 472 | 6478 | 7085 | 607 | Replacement near the C-terminus of SH1 ORF13/PH1 ORF12 (capsid protein VP1) |
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DV5 | 7491 | 8341 | 850 | 7446 | 7447 | — | Indel that results in ORFs14-16 of SH1 not being present in PH1. SH1 ORF14 has a close homolog in HHIV-2 (ORF6), in a similar position, just after the VP1 homolog. SH1 ORF15 is a conserved protein in haloarchaea (e.g. NP_2552A, and Hmuk_2978) and halovirus His1 (ORF13). Possible inverted repeat (AGCCATG) at border of SH1 region |
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DV6 | 13705 | 13706 | — | 12818 | 12851 | 33 | RMD from SH1. PH1 repeat at border is CAGCGG(g/t)G. This removes a part of capsid protein VP2 sequence from the SH1 protein |
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DV7 | 13789 | 13863 | 74 | 12934 | 12941 | 7 | Replacement. This occurs within VP2 gene of both viruses |
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DV8 | 15142 | 15186 | 44 | 14220 | 14221 | — | RMD from PH1. SH1 repeat at border is TG(t/c)CCGACGA and occurs within capsid protein VP2 gene of both viruses |
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DV9 | 15303 | 15317 | 14 | 14337 | 14338 | — | RMD from PH1. SH1 repeat at border is GCCGACGA and occurs within capsid protein VP2 gene of both viruses |
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DV10 | 15504 | 15527 | 23 | 14529 | 14530 | — | RMD from PH1. SH1 repeat at border is GACGA and occurs within capsid protein VP2 of both viruses |
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DV11 | 20026 | 20405 | 379 | 19019 | 19173 | 154 | Replacement beginning at the start of SH1 ORF35/PH1 ORF31. This region is longer in SH1, where it includes ORF36, an ORF that has no homolog present in PH1 |
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DV12 | 20440 | 20661 | 221 | 19208 | 19286 | 78 | Replacement. This is unequal and includes an ORF in SH1 (ORF38) that is not present in PH1 |
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DV13 | 20943 | 21085 | 142 | 19562 | 19728 | 166 | Replacement. This covers SH1 ORF40/PH1 ORF34. The predicted proteins are not homologous |
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DV14 | 23541 | 23542 | — | 22171 | 22197 | 27 | Probable RMD in SH1. PH1 repeat at border is CGTCTCGG and occurs in SH1 ORF44/PH1 ORF38 |
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DV15 | 24506 | 24521 | 15 | 23152 | 23153 | — | Probable RMD in PH1. SH1 repeat at border is CTCGGT and occurs near the end of SH1 ORF45/PH1 ORF39 |
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DV16 | 24951 | 24964 | 13 | 23579 | 23580 | — | Probable RMD in PH1. SH1 repeat at border is CGGTC and occurs in SH1 ORF47/PH1 ORF41 |
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DV17 | 26449 | 26450 | — | 25050 | 25274 | 224 | Probable RMD in SH1. PH1 repeat at border is TCATGCG and occurs near the start of SH1 ORF50/PH1 ORF44 and provides an extra ORF for PH1 (ORF45) |
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DV18 | 27074 | 29764 | 690 | 25895 | 26933 | 1038 | Replacement. Left border at start of SH1 ORF51/PH1 ORF47 and extends rightwards into SH1 ORF55/PH1 ORF49 (VP18 gene). It is an unequal replacement and SH1 has two more ORFs in this region than PH1 |
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