Insertion Sequence Annotation (ISA) System - Browser

Insertion Sequences show diverse recent activities in Cyanobacteria and Archaea.
Fengfeng Zhou, Victor Olman and Ying Xu.
BMC Genomics 2008, 9:36.


It is worth mentioning that a single-copy IS element might also be active in the host genome. For example, a recently invaded IS element in a genome might not have enough time to accumulate more than one copy. But it's difficult to identify the complete structures of these IS elements. This work defines a recently active IS element as those with two other highly conserved copies in the same genome, and identifies the complete structures of the IS elements with recent activities by comparing the multiple copies of the same element.

Cyano_genomes
Anabaena variabilis ATCC 29413 Gloeobacter violaceus PCC 7421 Nostoc sp. PCC 7120
Prochlorococcus marinus str. MIT 9312 Prochlorococcus marinus str. MIT 9313 Prochlorococcus marinus str. NATL2A
Prochlorococcus marinus subsp. marinus str. CCMP1375 Prochlorococcus marinus subsp. pastoris str. CCMP1986 Synechococcus elongatus PCC 6301
Synechococcus elongatus PCC 7942 Synechococcus sp. CC9311 Synechococcus sp. CC9605
Synechococcus sp. CC9902 Synechococcus sp. JA-2-3B'a(2-13) Synechococcus sp. JA-3-3Ab
Synechococcus sp. WH 8102 Synechocystis sp. PCC 6803 Thermosynechococcus elongatus BP-1
Trichodesmium erythraeum IMS101

Archaea_genomes
Aeropyrum pernix K1 Archaeoglobus fulgidus DSM 4304 Haloarcula marismortui ATCC 43049
Halobacterium sp. NRC-1 Haloquadratum walsbyi DSM 16790 Methanocaldococcus jannaschii DSM 2661
Methanococcoides burtonii DSM 6242 Methanococcus maripaludis S2 Methanopyrus kandleri AV19
Methanosaeta thermophila PT Methanosarcina acetivorans C2A Methanosarcina barkeri str. Fusaro
Methanosarcina mazei Go1 Methanosphaera stadtmanae DSM 3091 Methanospirillum hungatei JF-1
Methanothermobacter thermautotrophicus str. Delta H Nanoarchaeum equitans Kin4-M Natronomonas pharaonis DSM 2160
Picrophilus torridus DSM 9790 Pyrobaculum aerophilum str. IM2 Pyrobaculum islandicum DSM 4184
Pyrococcus abyssi GE5 Pyrococcus furiosus DSM 3638 Pyrococcus horikoshii OT3
Sulfolobus acidocaldarius DSM 639 Sulfolobus solfataricus P2 Sulfolobus tokodaii str. 7
Thermococcus kodakarensis KOD1 Thermofilum pendens Hrk 5 Thermoplasma acidophilum DSM 1728
Thermoplasma volcanium GSS1

 

Methanococcoides_burtonii_DSM_6242
     
 

Distribution of recently active Insertion Sequence elements (raIS) and A+T contents (window size: 1,000 bp) of each chromosomes and plasmids:

raIS elements annotated with different colors based on the IS families and groups they belong to. The information could be found details .
1 A+T contents ranging in [0%, 100%]
2 Positions of annotated raIS
3 A+T content of the chromosome or plasmid
 


   NC_007955 Click to view the full size in a separate window.

List of recently active Insertion Sequence Annotations for Methanococcoides_burtonii_DSM_6242

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ID RefSeq ID Region Annotation Copy no Terminal Inverted Repeats Covering genes
0 NC_007955 640910-642233 (+) ISMbu2 3 details 91772654, (all)
1 NC_007955 541383-542617 (-) ISMbu2 3 No TIRs detected.  
2 NC_007955 929278-930582 (+) ISMbu2 3 details  
3 NC_007955 451968-453021 (+) ISMbu7 7 details 91772501, (all)
4 NC_007955 398396-399448 (-) ISMbu7 7 details 91772463, (all)
5 NC_007955 657329-658382 (-) ISMbu7 7 details 91772667, (all)
6 NC_007955 830047-831100 (-) ISMbu7 7 details 91772809, (all)
7 NC_007955 555795-557050 (-) ISMbu7 7 No TIRs detected.  
8 NC_007955 920473-921996 (-) ISMbu7 7 details  
9 NC_007955 532587-533846 (+) ISMbu7 7 details  
10 NC_007955 1488571-1489331 (-) ISMac16 10 details  
11 NC_007955 77801-78351 (+) ISMac16 10 details  
12 NC_007955 391752-392542 (+) ISMac16 10 details  
13 NC_007955 1343585-1344447 (-) ISMac16 9 details  
14 NC_007955 1057363-1058147 (+) ISMac16 10 details  
15 NC_007955 2415344-2415894 (-) ISMac16 10 details  
16 NC_007955 1100246-1101036 (+) ISMac16 10 details  
17 NC_007955 1102941-1103651 (+) ISMac16 10 details  
18 NC_007955 2145169-2146416 (+) ISMbu10 4 No TIRs detected.  
19 NC_007955 712199-713368 (-) ISMbu10 4 details  
20 NC_007955 800272-801519 (+) ISMbu10 4 No TIRs detected.  
21 NC_007955 2105867-2107175 (+) ISMbu10 4 No TIRs detected.  
22 NC_007955 1146824-1148115 (-) ISMbu6 4 details 91773056, (all)
23 NC_007955 1045828-1047119 (+) ISMbu6 4 details 91772964, (all)
24 NC_007955 302233-303524 (+) ISMbu6 4 details 91772380, (all)
25 NC_007955 655406-656697 (-) ISMbu6 4 details 91772666, (all)
26 NC_007955 537410-538689 (-) ISMbu11 8 details 91772571, (all)
27 NC_007955 1024010-1025287 (-) ISMbu11 8 details 91772945, (all)
28 NC_007955 452965-453976 (-) ISMbu11 8 details 91772502, (all)
29 NC_007955 596116-597395 (+) ISMbu11 8 details 91772616, (all)
30 NC_007955 385941-387218 (+) ISMbu11 8 details 91772453, (all)
31 NC_007955 770989-772266 (+) ISMbu11 8 details 91772761, (all)
32 NC_007955 921688-923200 (+) ISMbu11 8 details 91772878, (all)
33 NC_007955 2111320-2112597 (-) ISMbu11 8 details 91773943, (all)
34 NC_007955 917604-919299 (+) ISMbu5 9 details 91772875, (all)
35 NC_007955 2205529-2207224 (+) ISMbu5 9 details 91774036, (all)
36 NC_007955 666747-668442 (-) ISMbu5 9 details 91772677, (all)
37 NC_007955 983743-985438 (-) ISMbu5 9 details 91772917, (all)
38 NC_007955 1255570-1257265 (+) ISMbu5 9 details 91773148, (all)
39 NC_007955 1198844-1200539 (+) ISMbu5 9 details 91773101, (all)
40 NC_007955 776691-778388 (+) ISMbu5 9 details 91772764, (all)
41 NC_007955 2421707-2423402 (-) ISMbu5 9 details 91774212, (all)
42 NC_007955 292443-294135 (-) ISMbu5 9 details 91772375, (all)
43 NC_007955 2370179-2371811 (+) ISMbu5 10 details 91774171, (all)
44 NC_007955 471025-472650 (+) ISMbu5 4 No TIRs detected. 91772521, (all)
45 NC_007955 382236-384140 (-) ISMbu5 4 details 91772451, (all)
46 NC_007955 542518-544143 (+) ISMbu5 4 No TIRs detected. 91772574, 91772575, (all)
47 NC_007955 78072-78573 (+) ISMma7 10 details  
48 NC_007955 2415131-2415703 (-) ISMma7 10 details  
49 NC_007955 1897754-1898425 (+) ISMma7 10 details  
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Last updated: Oct-26-2007.