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

 

Gloeobacter_violaceus
     
 

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_005125 Click to view the full size in a separate window.

List of recently active Insertion Sequence Annotations for Gloeobacter_violaceus

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ID RefSeq ID Region Annotation Copy no Terminal Inverted Repeats Covering genes
0 NC_005125 1171574-1172270 (-) IS4Sa 7 details 37520662, (all)
1 NC_005125 2280225-2280921 (-) IS4Sa 7 details 37521695, (all)
2 NC_005125 920130-920826 (+) IS4Sa 7 details 37520441, (all)
3 NC_005125 1271087-1272246 (-) IS4Sa 7 details 37520764, (all)
4 NC_005125 813734-814893 (+) IS4Sa 7 details 37520330, (all)
5 NC_005125 202239-202935 (-) IS4Sa 7 details 37519778, (all)
6 NC_005125 1185404-1186100 (-) IS4Sa 7 details 37520674, (all)
7 NC_005125 4271175-4272261 (+) ISRm2011-2 3 details 37523644, 37523645, (all)
8 NC_005125 1728479-1729445 (-) ISRm2011-2 3 details 37521180, 37521181, (all)
9 NC_005125 1832675-1833637 (+) ISRm2011-2 3 details 37521295, 37521296, (all)
10 NC_005125 556842-558286 (-) ISXax1 3 details 37520087, 37520088, (all)
11 NC_005125 4387181-4388649 (+) ISXax1 3 details 37523760, 37523761, (all)
12 NC_005125 2714061-2715505 (-) ISXax1 3 details 37522130, 37522131, (all)
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The dataset and this website is freely available to academic users. Commercial users should contact the CSBL lab.

Website created by Fengfeng Zhou © 2007

Last updated: Oct-26-2007.