ISPat1

  • Family IS4
  • Group IS10
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
ND Pseudoalteromonas atlantica
Pseudoalteromonas atlantica
DNA section
IS Length : 1325 bp

Ends


IR Length : 14/18

IRL : CTAACGAATCCCCTCATAATTATGAGCAGAAACAATAACATAGACACGCA
IRR : CTGGGGGATCCCCTCATAGAATTGGTCTTCCTTCTTTGTGAACCCAGGTA

Insertion site


Left flankDirect repeatRight flankDR Length
AGCAACCTAACGCCCTAATAACGGGCAAA9
ACAAACTTAACGCCAAGCGTAACGTCACA9
TCGCCTTCAAGGTTGCACTATGGATTAGT9
TTACACCTAACGCTTAACATATGGGGATT9
TGCGGTATAACGCTTCGAATATAAGGCGA9
TGATGTATAACGCCCGCSTAACACGCAAT9

DNA sequence

CTAACGAATCCCCTCATAATTATGAGCAGAAACAATAACATAGACACGCATAGCGCCATTTGATCTAATAAATTTCGCCAAAAACCAACTAGATAACAAC
ACCATGCGTGATATTCATATCTTACACGATTTGCTTAAAAAACAATGCCCTAATCTACATGCCAAACGTCTTTCCTCTTTGATGGTTGCCACCCAATCTT
TGCTAGATGGTCAGCAACTGTCGTTGACCGAATTAGGACGCAATATCTCAGGCTCCGTGGCCCCGAAACACAACATTAAACGCATCGACAGGCTGCTTGG
TAATAACAACCTACATAATGAACGGCTCGACATCTATCGTTGGCACGCAAAGCTACTTTGCGGTGCTAACCCCATGCCCGTTGTCCTTGTGGATTGGTCT
GATGTGCGTGAGCAGCTCAGGCATTTAACCTTACGTGCATCGGTCAGTGTTCAAGGACGCTCTGTCACGCTTTATGAGCGCGTATTTTCATTCGGTGAAT
ACAATTCACCTGTTAGTCATAATCCGTTTTTACGGGAGTTGGCGAGTATCCTGCCGTCGGGTTGTTGCCCGTTGATTGTGACCGATGCAGGCTATCGTAA
CCCTTGGTTTCGTGAAGTCGAAAAGCATGGATGGTTCTGGCTAGGCCGAGTGCGCGGTGATGTGGGATTTAAGCGGGATGGGCAAGCATCATGGCAAAGT
AATAAGTCGTTTTATCCCAGTGCAAATTCTCGGGCCAAATACCTTGGGTGTGGGCAATTAGGGCGTAAAAGCCCGCTTCATGCACACCTACATTTGTACA
AAGCAAAGGCCAAACATCGAAAGGATAAACGCTCTTCAAAGGCAGGGCGAAACCACACCGCCCAGCAAAGCTATCGTGCGGGTAGCAAAGAGCCTTGGCT
ACTCGCCACTAACCTTCCCGAGAACGATAAACTTAACTCAAAACAGCTGGTTTCTCTTTACGCAAGACGAATGCAAATAGAAGAAACCTTCCGCGATATT
AAAAGCCCTCAATACGGCATGGGACTGCGCCACAGCAACAGTCGCAGTACCAAACGATTCGACATATTACTGCTGATAGCGATGCTCGCAGAATGGCTAT
TACGGCTACTCGGTATCATCGCCGTGAAGCAAAACTGGGAAAGAGCATTTCAAGCTAACACCATCCGTCGTCGGCGCGTGTTATCTATTATTAGGCTAGG
CAGAGAAGTCAGGAAAAGGGCAAAAGATTACAGGATGAACTCAGCCCAAATGACATGGGCTATCGCCCAATATATTACCTGGGTTCACAAAGAAGGAAGA
CCAATTCTATGAGGGGATCCCCCAG
Protein section
ORF number : 1

 

ORF 1
LengthBeginEndStrandFusion ORF
1209 bp402 aa1041312+No
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MRDIHILHDLLKKQCPNLHAKRLSSLMVATQSLLDGQQLSLTELGRNISGSVAPKHNIKRIDRLLGNNNLHNERLDIYRWHAKLLCGANPMPVVLVDWSD
VREQLRHLTLRASVSVQGRSVTLYERVFSFGEYNSPVSHNPFLRELASILPSGCCPLIVTDAGYRNPWFREVEKHGWFWLGRVRGDVGFKRDGQASWQSN
KSFYPSANSRAKYLGCGQLGRKSPLHAHLHLYKAKAKHRKDKRSSKAGRNHTAQQSYRAGSKEPWLLATNLPENDKLNSKQLVSLYARRMQIEETFRDIK
SPQYGMGLRHSNSRSTKRFDILLLIAMLAEWLLRLLGIIAVKQNWERAFQANTIRRRRVLSIIRLGREVRKRAKDYRMNSAQMTWAIAQYITWVHKEGRP
IL

 

Blast result :
Comments
This IS element is in the IS4 family, IS10 group. It is most similar to ISSde1; the predicted transposase of this new element has 65% identity and 76% similarity at the amino acid level with the predicted transposase of ISSde1. It also has an 18 bp imperfect IR and gives a 9 bp DR of target sequence. There are nine complete copies/isoforms in the P. atlantica (T6c) genome.
References
1] Higgins, B., Popkowski, A., Caruana, P., and Karls, A. Submitted 2008.