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

 

Haloarcula_marismortui_ATCC_43049
     
 

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_006396 Click to view the full size in a separate window.
   NC_006397 Click to view the full size in a separate window.
   NC_006389 Click to view the full size in a separate window.
   NC_006390 Click to view the full size in a separate window.
   NC_006391 Click to view the full size in a separate window.
   NC_006392 Click to view the full size in a separate window.
   NC_006393 Click to view the full size in a separate window.
   NC_006394 Click to view the full size in a separate window.
   NC_006395 Click to view the full size in a separate window.

List of recently active Insertion Sequence Annotations for Haloarcula_marismortui_ATCC_43049

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ID RefSeq ID Region Annotation Copy no Terminal Inverted Repeats Covering genes
0 NC_006396 1388665-1389567 (+) ISHma8 4 No TIRs detected. 55378334, (all)
1 NC_006395 409634-410500 (-) ISHma8 4 No TIRs detected. 55376941, (all)
2 NC_006393 64076-64979 (-) ISHma8 4 No TIRs detected. 55376344, (all)
3 NC_006393 37618-38543 (-) ISH9 4 details 55376318, (all)
4 NC_006393 34959-35647 (+) ISH15 3 details 55376316, (all)
5 NC_006396 324727-325415 (-) ISH15 3 details 55377268, (all)
6 NC_006396 477648-478336 (+) ISH15 3 details 55377418, (all)
7 NC_006397 26304-27374 (-) ISH11 4 details 55380099, (all)
8 NC_006397 100989-102059 (-) ISH11 4 details 55380179, (all)
9 NC_006397 12260-13330 (+) ISH11 4 details 55380080, (all)
10 NC_006393 10610-11678 (-) ISH11 4 details 55376289, (all)
11 NC_006397 256979-258381 (+) ISH8 4 details 55380325, (all)
12 NC_006392 20891-22292 (-) ISH8 4 details 55376259, (all)
13 NC_006396 2133459-2134865 (+) ISH8 4 details 55379064, (all)
14 NC_006393 35694-37099 (-) ISH8 4 details 55376317, (all)
15 NC_006393 21648-22392 (+) ISH17 4 details 55376299, (all)
16 NC_006393 107909-108653 (+) ISH17 4 details 55376389, (all)
17 NC_006397 148811-149557 (+) ISH17 4 details 55380225, (all)
18 NC_006395 173327-174071 (-) ISH17 4 details 55376734, (all)
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Website created by Fengfeng Zhou © 2007

Last updated: Oct-26-2007.