Insertion Sequence Annotation (ISA) System

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

Archaeoglobus_fulgidus

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_000917

List of recently active Insertion Sequence Annotations for Archaeoglobus_fulgidus

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ID	RefSeq ID	Region	Annotation	Copy no	Terminal Inverted Repeats	Covering genes
0	NC_000917	1261649-1262905 (-)	ISA0963-5	4	details	11499005, (all)
1	NC_000917	1168616-1169177 (+)	ISA0963-3	4	details	11498908, (all)
2	NC_000917	258440-259647 (-)	ISA1214-1	5	details	11497894, 11497895, (all)
3	NC_000917	278690-279897 (-)	ISA1214-1	5	details	11497920, 11497921, (all)
4	NC_000917	763062-764269 (-)	ISA1214-1	5	details	11498463, 11498464, (all)
5	NC_000917	1880752-1881959 (-)	ISA1214-1	5	details	11499673, 11499674, (all)
6	NC_000917	578103-579310 (-)	ISA1214-1	5	details	11498249, 11498250, (all)
7	NC_000917	1527178-1527739 (+)	ISA0963-6	4	details	11499295, (all)
8	NC_000917	1234589-1235861 (-)	ISA0963-4	4	details	11498979, (all)

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Disclaimer:
The dataset and this website is freely available to academic users. Commercial users should contact the CSBL lab.

Last updated: Oct-26-2007.