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Table 1 Summary of the ERTBV structures in the rice genomes1.

From: Reconstruction of putative DNA virus from endogenous rice tungro bacilliform virus-like sequences in the rice genome: implications for integration and evolution

Chr.2 Accession Number ERTBV position (length)3 Cluster4 alignment of gene5 AT-repeated sequence6
     Intergenic region Region x ORF y (MP/CP/PR) ORF y (RT/RH) ORF z 5'-end 3'-end
  [Japonica]          
1 AP003338 31237-38745 (7509) C 32277-31237 38711-38217 38259-34814 34534-33094 33127-32278 34 (2) 153 (0)
     38745-38712       
2 AP006160a 128189-135399a C 128189-128420a 128421-128915a 128873-129447a 134248-132808a 132841-131989a 97 (0)a 12 (0)b
  AP004842b 1-7610b(11686)   131988-131526a 7379-6885b 130212-131451a     
     135399-134914a   134913-134534a     
     7610-7380b   5595-3136b     
       6927-6352b     
4 AL606628 47001-48868 (1868) B - - 47001-47054 47334-48768 48756-48868 16 (0) 45 (391)
  AL606618 82165-88112 (5948) B - 88112-87631 87673-84239 83959-82532 82544-82165 13 (678) 156 (48)
  AL606592 36282-40413 (4132) B 39437-40413 - 36282-36894 37174-38614 38602-39436 65 (0) 101 (17)
  AL662971 104278-111739 (7462) C 105283-104278 111720-111226 111268-107823 107543-106102 106135-105284 65 (727) -
     111739-111721       
  AL607003 63290-71598 (8309) A 63406-64469 64470-64882 64846-68248 68532-69972 63290-63405 52 (68) 151 (265)
     70794-71598     69939-70793   
5 AC107085 22244-29756 (7513) B 22436-22244 28859-28374 28416-24971 24691-23258 23270-22437 25 (0) 55 (64)
     29756-28860       
6 AP002542 33961-41438 (7478) B 39087-38121 38120-37636 37678-34233 39121-40541 40529-41362 216 (2) 252 (1)
     41363-41438       
  AP006056 28996-33700 (4705) C 29562-28996 - 33700-32101 31821-30381 30414-29563 93 (10) 337 (87)
  AP004750 97242-104472 (7231) A 98061-97242 104472-103986 104022-100607 100323-98883 98916-98062 39 (178) 52 (694)
7 AP006163 118513-126010 (7498) C 118513-118518 118519-119013 118971-122416 122696-124136 124103-124954 82 (502) 224 (129)
     124955-126010       
  AP005719 363-7932 (7570) C 3278-2211 2210-1716 1758-363 5526-4096 4129-3279 65 (100) 33 (2)
       7932-5806     
  AP004348 17568-24897 (7330) A 18513-17568 24897-24437 24473-21059 20775-19335 19368-18514 96 (100) 37 (20)
8 AP005164 171654-179236 (7583) C 173775-174838 174839-175333 175291-178760 171654-172956 172923-173774 52 (284) 274 (11)
        179071-179236    
  AP003883 117668-125143 (7476) C 117668-117743 117744-118238 118196-121641 121921-123361 123328-124179 54 (612) 41 (16)
     124180-125143       
  AP003914 22973-25201 (2229) A - - - 23074-24514 24481-25201 373 (14) 1136 (0)
  AP005301 34330-41566 (7237) A 34330-34741 34742-35228 35192-38611 38895-40314 40281-41135 153 (14) 34 (23)
     41136-41566       
  AP005159 88879-97300 (8422) B 88879-89828 89829-90315 90273-93716 93996-95435 95423-96256 179 (0) 34 (19)
     96257-97300       
9 AP005424 11998-18576 (6579) C 18576-17867 11998-12492 12450-15849 16129-17569 17536-17833 57 (10) 95 (225)
  AP005860 50709-58281 (7573) A 50709-50806 50807-51295 51259-54579 54863-56304 56271-57124 218 (0) 8 (3)
     57125-58281       
10 AC119147 89355-102382 (13028) B 90235-89355 101319-100834 99260-96143 95863-94424 94436-93603 71 (0) 183 (68)
     93602-93432   100876-100548     
     102382-101320       
  AC027660 24299-31769 (7471) A 29370-28257 28256-27768 27804-24390 31632-30192 30225-29371 - 28 (520)
  AC069300 89901-96619 (6719) A 90209-89901 96619-96133 96169-92755 92471-91031 91064-90210 21 (162) 21 (688)
11 AC135957 69527-81251 (11725) A 73392-74286 81251-80765 69527-70846 71130-72570 72537-73391 368 (619) -
     75398-74475   80801-77387   75444-75410   
12 AL713945 45991-49426 (3436) B 47029-45991 - - 49291-47851 47863-47030 55 (1) 261 (9)
  AL731743 14231-18608 (4378) B 17596-18608 14768-14283 14325-14231 15333-16774 16762-17595 - 44 (40)
       14791-15053     
  AL928780 103187-110757 (7571) A 103187-103406 103407-103893 103857-107273 107665-109105 109072-109926 44 (25) 25 (32)
     109927-110757       
  AL928749 6275-11538 (5264) A 7149-6275 - 11538-9695 9411-7971 8004-7150 479 (127) 624 (0)
  [Indica]          
4 AB124591 554-4677(4124) B 3709-4677 - 554-1166 1446-2886 2874-3708 43(0) 105(26)
ND AB124592 8867-14510(5644) C 10990-12051 12052-12546 12504-14510 8867-10171 10138-10989 64(273) unknown
ND AB124593 158-5914(5757) C 4214-5914 - 158-1677 1957-3397 3364-4213 157(0) 62(2)
  1. 1 The sequences were mined from Japonica database or investigated from phage clones isolated from Indica (IR36) genomic library.
  2. 2 Chromosome no. on which the ERTBV segment resides.
  3. 3 Nucleotide positions of ERTBV in the registered genomic clone. Parenthesis indicates a length of ERTBV sequence.
  4. 4 Clusters into which the individual ERTBV sequences were phylogenetically grouped.
  5. 5 The region belongs to the part of ERTBV, and their nucleotide positions in the clone registered in the database.
  6. 6 The numbers indicate repetition times of AT at both the ends of ERTBV, and parenthesis indicates distance (bp) from the ERTBV.
  7. a and b These clones contain the identical ERTBV, but both the clones ended within the ERTBV sequence.