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

 

Cyanobacteria_bacterium_Yellowstone_A-Prime
     
 

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_007775 Click to view the full size in a separate window.

List of recently active Insertion Sequence Annotations for Cyanobacteria_bacterium_Yellowstone_A-Prime

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ID RefSeq ID Region Annotation Copy no Terminal Inverted Repeats Covering genes
0 NC_007775 51679-52705 (-) ISRm10 13 details 86604786, (all)
1 NC_007775 1612055-1613078 (+) ISRm10 13 No TIRs detected. 86606265, (all)
2 NC_007775 1290313-1291334 (-) ISRm10 13 No TIRs detected. 86605961, (all)
3 NC_007775 1320993-1322033 (+) ISRm10 3 No TIRs detected. 86605992, (all)
4 NC_007775 2728473-2729494 (+) ISRm10 13 No TIRs detected. 86607317, 86607318, (all)
5 NC_007775 1012713-1013760 (-) ISRm10 13 details 86605697, 86605698, (all)
6 NC_007775 1152497-1153519 (+) ISRm10 13 No TIRs detected. 86605815, 86605816, (all)
7 NC_007775 2653641-2654664 (-) ISRm10 13 No TIRs detected. 86607251, 86607252, (all)
8 NC_007775 1367738-1368759 (+) ISRm10 13 No TIRs detected. 86606029, 86606030, (all)
9 NC_007775 1663879-1664879 (+) ISRm10 13 No TIRs detected. 86606317, 86606318, (all)
10 NC_007775 1300163-1301183 (-) ISRm10 13 No TIRs detected. 86605971, 86605972, (all)
11 NC_007775 2739986-2741005 (+) ISRm10 13 No TIRs detected. 86607328, (all)
12 NC_007775 2862510-2863532 (+) ISRm10 13 No TIRs detected. 86607446, 86607447, (all)
13 NC_007775 2101164-2102169 (-) ISRm10 3 No TIRs detected. 86606721, 86606722, (all)
14 NC_007775 34230-35341 (+) ISRm10 3 details 86604769, 86604770, (all)
15 NC_007775 1154171-1156074 (+) ISSs1 4 No TIRs detected.  
16 NC_007775 2083859-2085674 (-) ISFsp4 9 No TIRs detected. 86606703, 86606704, (all)
17 NC_007775 2235886-2237726 (-) ISFsp4 11 No TIRs detected. 86606859, (all)
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Last updated: Oct-26-2007.