ICEberg
I. Information of CIME
ICEberg ID232_CIME
NameTR1 This CIME is derived from experimental literature
Family-
OrganismStreptomyces scabiei 87.22
Size (bp)20089
GC content [Genome] (%)
Insertion siteTTGAAGCGGAAC/TTGAAGCGGAAC
Function-
Species that CIME can be transferred toStreptomyces diastatochromogenes
Nucleotide SequenceNC_013929 (complete CIME sequence in this genome)
Replicon-
Genome coordinates3597603..3617691


II. CIME interaction with ICE/IME

The Interaction Network among ICE/IME/CIME


Detailed Informatioin of the Interaction Network
# CIME Inter_Ele [Type] Methods Donors Recipients Exper_Ref 
1TR1 TR2 [ICE] experimentalin cis Streptomyces scabiei Streptomyces diastatochromogenes 27977935

experimental This is an interactioin derived from experimental literature


The graph information of TR1 components from NC_013929
Complete gene list of TR1 from NC_013929
#GeneCoordinates [+/-], size (bp) Product *Reannotation 
1SCAB_RS150453593375..3594493 [-], 1119DUF4190 domain-containing protein
2SCAB_RS150503594870..3595979 [+], 1110pyridoxal-5'-phosphate-dependent protein subunit beta
3SCAB_RS150553596279..3596659 [+], 381hypothetical protein
4SCAB_RS150603597090..3597530 [+], 441hypothetical protein
5SCAB_RS150703598108..3599295 [-], 1188cytochrome P450
6SCAB_RS150753600056..3600253 [-], 198protein mbtH
7SCAB_RS150803600343..3604809 [-], 4467non-ribosomal peptide synthetase
8SCAB_RS150853604857..3609233 [-], 4377non-ribosomal peptide synthetase
9SCAB_RS150903611115..3611753 [+], 639helix-turn-helix domain-containing protein
10txtE3613916..3615136 [+], 12214-nitrotryptophan synthase
11SCAB_RS151003615200..3616372 [+], 1173nitric oxide synthase oxygenase
12SCAB_RS151103617139..3617423 [-], 285hypothetical protein
13SCAB_RS448453617834..3618586 [-], 753site-specific integrase
14SCAB_RS151203619118..3619351 [-], 234DNA-binding protein
15SCAB_RS151253620559..3620882 [+], 324divalent-cation tolerance protein CutA
16SCAB_RS151303620941..3622182 [-], 1242XRE family transcriptional regulator
 
flank Flanking regions

ElementNo. of sequencesDownload
Nucleotide sequences1Fasta
Proteins8Fasta
(1) Zhang Y; Loria R (2017). Emergence of Novel Pathogenic Streptomyces Species by Site-Specific Accretion and cis-Mobilization of Pathogenicity Islands. Mol Plant Microbe Interact. 30(1):72-82. [PudMed:27977935] experimental in_silico
(2) Chapleau M; Guertin JF; Farrokhi A; Lerat S; Burrus V; Beaulieu C (2016). Identification of genetic and environmental factors stimulating excision from Streptomyces scabiei chromosome of the toxicogenic region responsible for pathogenicity. Mol Plant Pathol. 17(4):501-9. [PudMed:26177341] experimental in_silico
 
experimental experimental literature
in_silico in silico analysis literature

Genomics & Bioinformatics Group in MML, SJTU