ISMac25

  • Family IS1
  • Group ISMhu11
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_003552 ND Methanosarcina acetivorans
Methanosarcina acetivorans C2A
DNA section
IS Length : 1157 bp

Ends


IR Length : 21/30

IRL : GGTCAATTTGTATTTGATTGGTATTATATATTAGAAATTATATGTTCATA
IRR : GGTCCATCTTTATCCGATTGATGTTTTAAAACACCTGAATTTCATCAGCT

Insertion site


Left flankDirect repeatRight flankDR Length
TTGCATTCAACAAGAATGATATCACAAGAATGCTAATGAAATA0
AACTGAGTAATTCTTTTGATATCGAAGGTTTGAGGTGATT0
CATGATATGGAAGGTTTGATATCGAAGGTTTTGAATCACC0

DNA sequence

GGTCAATTTGTATTTGATTGGTATTATATATTAGAAATTATATGTTCATATTATGGGAAAAAGAGGTCCTAAACCACAATTTACTGACGTTGCCTGTCCG
AACAAAAGCTGCGAGCTCTACGGCCTTACTGGTCAAGGCAATGTTACTGGAAATGGAACTTACATCAGCCGTGGAGAAAAAACAAGAATATATCGTTGCA
ATGAATGTGGCAAAGCATTTTGCGACCATACAGGCACTTTTTATCATGATCTTCGCAAAGATGATAAAACAATCGATTTAGCTTTAAAAATGTCTATGAA
AGGTATGAGCATTCAAGCCATTGCCGAAGTTTTAGAGGTACAACCTGCCAGTGTAAAGCGCTGGCTAGCCCGTGCAGCTGAACAATGCGATAAACTAAAT
GATACTCTGATGAAGAACGTGGATGTGTTAAAGGTAGAAATGGACGAACTATGGGTTATAATCCAAAAAAATAGTTCCAAGAATGAAAAATTATGAAGAT
GATGGGCCCTGGATGTGGGTAGCTTTTGTACCAGGTTGCAGGCTAATACTTGACTTTGTAATAGGGCCAAGAAAGCAGTATGTTGCGGATAAGTTTATTG
AGTTAGTTAATAAGCATATTTCGGATAAAATCCCTGTTTTTGTCACAGATGGGTTGAACTTTTATAGAGAAGCGCTTTTGAAACAATTTGGAGTTTTGAG
AGAGTTTCCAAGAACTGGGAAAAGAGGAAGACCAAAGAAACCAAAAATAGTTCCCTCTGAGGATTTGAGGTATGCTCAGGTAGTCAAAACAAGAGTAAAT
GGGGTGCTTGAGAAAGTAGAGAAGAAGATCATTTTTGGAGAAAACATTGAACAAAGCGAAATCTCAACAACTTTACTGGAAAGACAAAACCTAACCTTCA
GGCAGGATAACAACAGAGTGTCAAGGAAAACAATAGGGTTTTCAAAAATGAAAGAATGGTTAGAAATACAGATGAAGCTCTATTGCACGCATTTTAACTT
CTGTAGAGGGCATGGAGGATTAAGGTACAAAGATGAAAGAGGGGTTGAATGCAAAAATACACCTGCAAGAAAAGCAGGAATTGCGGATTCAAAATGGACT
TTGAAGGAGCTGATGAAATTCAGGTGTTTTAAAACATCAATCGGATAAAGATGGACC
Recoding section
  • Recoding by frameshift
  • Frame
  • Type
  • Experimentally demonstrated

Stimulators :

  • Shine-Dalgarno sequence :
  • Secondary structure :

Recoding motif :

Protein section
ORF number : 3

 

ORF 1
LengthBeginEndStrandFusion ORF
444 bp147 aa53496+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MGKRGPKPQFTDVACPNKSCELYGLTGQGNVTGNGTYISRGEKTRIYRCNECGKAFCDHTGTFYHDLRKDDKTIDLALKMSMKGMSIQAIAEVLEVQPAS
VKRWLARAAEQCDKLNDTLMKNVDVLKVEMDELWVIIQKNSSKNEKL

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
687 bp228 aa4621148+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

SKKIVPRMKNYEDDGPWMWVAFVPGCRLILDFVIGPRKQYVADKFIELVNKHISDKIPVFVTDGLNFYREALLKQFGVLREFPRTGKRGRPKKPKIVPSE
DLRYAQVVKTRVNGVLEKVEKKIIFGENIEQSEISTTLLERQNLTFRQDNNRVSRKTIGFSKMKEWLEIQMKLYCTHFNFCRGHGGLRYKDERGVECKNT
PARKAGIADSKWTLKELMKFRCFKTSIG

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1096 bp365 aa531148+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MGKRGPKPQFTDVACPNKSCELYGLTGQGNVTGNGTYISRGEKTRIYRCNECGKAFCDHTGTFYHDLRKDDKTIDLALKMSMKGMSIQAIAEVLEVQPAS
VKRWLARAAEQCDKLNDTLMKNVDVLKVEMDELWVIIQKKIVPRMKNYEDDGPWMWVAFVPGCRLILDFVIGPRKQYVADKFIELVNKHISDKIPVFVTD
GLNFYREALLKQFGVLREFPRTGKRGRPKKPKIVPSEDLRYAQVVKTRVNGVLEKVEKKIIFGENIEQSEISTTLLERQNLTFRQDNNRVSRKTIGFSKM
KEWLEIQMKLYCTHFNFCRGHGGLRYKDERGVECKNTPARKAGIADSKWTLKELMKFRCFKTSIG

 

Blast result :
Comments
ISMac25 is 37% aa similar to ISDge2. The third ORf is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Galagan,J.E., Nusbaum,C., Roy,A., Endrizzi,M.G., Macdonald,P., FitzHugh,W., Calvo,S., Engels,R., Smirnov,S., Atnoor,D., Brown,A., Allen,N., Naylor,J., Stange-Thomann,N., DeArellano,K., Johnson,R., Linton,L., McEwan,P., McKernan,K., Talamas,J., Tirrell,A., Ye,W., Zimmer,A., Barber,R.D., Cann,I., Graham,D.E., Grahame,D.A., Guss,A.M., Hedderich,R., Ingram-Smith,C., Kuettner,H.C., Krzycki,J.A., Leigh,J.A., Li,W., Liu,J., Mukhopadhyay,B., Reeve,J.N., Smith,K., Springer,T.A., Umayam,L.A., White,O., White,R.H., Conway de Macario,E., Ferry,J.G., Jarrell,K.F., Jing,H., Macario,A.J., Paulsen,I., Pritchett,M., Sowers,K.R., Swanson,R.V., Zinder,S.H., Lander,E., Metcalf,W.W. and Birren,B. (2002) Genome Res. 12 (4), 532-542.