ISAcp4
- Family IS3
- Group IS407
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| CP001472 | ND | Acidobacterium capsulatum | Acidobacterium capsulatum ATCC 51196 |
DNA section
IS Length : 1279 bp
Ends
IR Length : 48
IRL : TGACCTGCTCCCGGAAAACTCATCCAGCCATAGCTGGAGTTCTCTCGTAA
IRR : TGACCTGCTCCCGGAAAACTCATCCAGCCATAGCTGGAGTTCTCTCGTTT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GGAGATGTCCA | GAAGCCCCGT | 0 |
DNA sequence
TGACCTGCTCCCGGAAAACTCATCCAGCCATAGCTGGAGTTCTCTCGTAATGTGAAGGAGAGGACTTGGATGAAGAAGAGCCGGTTTACGGAAGAGCAGA
TCATCGGGATTGTGAAGCAGCACGAGGCAGGGATGAAGACGGCGGACCTATGCCGGGAGCATGGGATCAGTGCGGCGACGTTCTACGGCTGGAAGTCGAA
GTTCGGCGGCATGGACGTGAGCGAGGCGCAGCGGCTGCGGCAGATGGAAGACGAGAACCGGAGGCTGAAGTCGCTGGTCGCGGATCTCAGTCTTGACCGG
GAAGTTTTGAGGTCGGTGATTCGAAAAAACGGCTGGAGCTTGCCGGCCTGAGAGAGGATGTTGCGTTCGCTCAGGCCGAGCATGGGGTGAGCGAGCGCAG
GGCCTGCAAGCTGTTGGGTGTGGACCGAGCCAGCTATCGATACGAGCCGAGGCCGGATCGGAACGCTGAGCTGCGCGACGAACTGGTGAAGCTAGCCCGG
CAGAAGCCGCGCTACGGCTACCGGCGATTGCATGCGGTGCTGGAACGCCGCGGTCAGACGGTGAACGTGAAGCGAGTCTACCGGCTGTATGCGGAAGAGG
GACTGGCGGTGCGTCGTCGCCGGCGCAAGCGGCTGGTGCGCGAGCGAGTGGGCGAGGTGCAACTCATCCGTGCCAACCAGGAGTGGGCCATGGATTTCAT
CGTGGACGGTCTGGCGAACGGACGCATGGTGCGCATCCTCAGCGTGGTCGATGCCTTCACTCGCGAGTGCCTGGCGCTTGAAGCGGATACGAGCCTTGGC
AGCGGTCGTGTGACGCGGGCTCTGGATCGGCTGATCGAAGAGCGCGGCTTGCCAGAGAACGTGCGATCGGATAATGGCCCGGAGTTCACCTCCCGCCGCA
TGCTGGGCTGGGCCGAGGAACGCAAGATCAACCTGGTGCACATCCAACCAGGGCGCCCCATGCAGAACGGTCACGTGGAAAGCTTCCACGGCCGCCTGCG
CGACGAGTGCTTGAACGTAAGCTGGTTCCGCACACTGAACGACGTGCGGCGAACCCTGGACAACTACCGGCAGGAGTACAACTGCGAGCGTCCCCACAGC
TCGCTCGCATACAGAACGCCTGCTGAGTTCAGAAGCGCACTGGGCTATGGAGATGTGGAAAGCAAAGTACGCTTCCCACATCTCCACAGCCCCGACTACG
ACGGCGAGATATACTCGCCCACAACACCAAAACGAGAGAACTCCAGCTATGGCTGGATGAGTTTTCCGGGAGCAGGTCA
TCATCGGGATTGTGAAGCAGCACGAGGCAGGGATGAAGACGGCGGACCTATGCCGGGAGCATGGGATCAGTGCGGCGACGTTCTACGGCTGGAAGTCGAA
GTTCGGCGGCATGGACGTGAGCGAGGCGCAGCGGCTGCGGCAGATGGAAGACGAGAACCGGAGGCTGAAGTCGCTGGTCGCGGATCTCAGTCTTGACCGG
GAAGTTTTGAGGTCGGTGATTCGAAAAAACGGCTGGAGCTTGCCGGCCTGAGAGAGGATGTTGCGTTCGCTCAGGCCGAGCATGGGGTGAGCGAGCGCAG
GGCCTGCAAGCTGTTGGGTGTGGACCGAGCCAGCTATCGATACGAGCCGAGGCCGGATCGGAACGCTGAGCTGCGCGACGAACTGGTGAAGCTAGCCCGG
CAGAAGCCGCGCTACGGCTACCGGCGATTGCATGCGGTGCTGGAACGCCGCGGTCAGACGGTGAACGTGAAGCGAGTCTACCGGCTGTATGCGGAAGAGG
GACTGGCGGTGCGTCGTCGCCGGCGCAAGCGGCTGGTGCGCGAGCGAGTGGGCGAGGTGCAACTCATCCGTGCCAACCAGGAGTGGGCCATGGATTTCAT
CGTGGACGGTCTGGCGAACGGACGCATGGTGCGCATCCTCAGCGTGGTCGATGCCTTCACTCGCGAGTGCCTGGCGCTTGAAGCGGATACGAGCCTTGGC
AGCGGTCGTGTGACGCGGGCTCTGGATCGGCTGATCGAAGAGCGCGGCTTGCCAGAGAACGTGCGATCGGATAATGGCCCGGAGTTCACCTCCCGCCGCA
TGCTGGGCTGGGCCGAGGAACGCAAGATCAACCTGGTGCACATCCAACCAGGGCGCCCCATGCAGAACGGTCACGTGGAAAGCTTCCACGGCCGCCTGCG
CGACGAGTGCTTGAACGTAAGCTGGTTCCGCACACTGAACGACGTGCGGCGAACCCTGGACAACTACCGGCAGGAGTACAACTGCGAGCGTCCCCACAGC
TCGCTCGCATACAGAACGCCTGCTGAGTTCAGAAGCGCACTGGGCTATGGAGATGTGGAAAGCAAAGTACGCTTCCCACATCTCCACAGCCCCGACTACG
ACGGCGAGATATACTCGCCCACAACACCAAAACGAGAGAACTCCAGCTATGGCTGGATGAGTTTTCCGGGAGCAGGTCA
Recoding section
- Recoding by frameshift
- Frame -1
- Type translational
- Experimentally demonstrated No
Stimulators :
- Shine-Dalgarno sequence :
- Secondary structure :
Recoding motif :
Protein section
ORF number : 3
ORF 1
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 282 bp | 93 aa | 70 | 351 | + | No |
Description : First part of the transposase
ORF sequence :
MKKSRFTEEQIIGIVKQHEAGMKTADLCREHGISAATFYGWKSKFGGMDVSEAQRLRQMEDENRRLKSLVADLSLDREVLRSVIRKNGWSLPA
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 983 bp | 338 aa | 297 | 1279 | + | No |
Description : Second part of the transposase
ORF sequence :
PGSFEVGDSKKRLELAGLREDVAFAQAEHGVSERRACKLLGVDRASYRYEPRPDRNAELRDELVKLARQKPRYGYRRLHAVLERRGQTVNVKRVYRLYAE
EGLAVRRRRRKRLVRERVGEVQLIRANQEWAMDFIVDGLANGRMVRILSVVDAFTRECLALEADTSLGSGRVTRALDRLIEERGLPENVRSDNGPEFTSR
RMLGWAEERKINLVHIQPGRPMQNGHVESFHGRLRDECLNVSWFRTLNDVRRTLDNYRQEYNCERPHSSLAYRTPAEFRSALGYGDVESKVRFPHLHSPD
YDGEIYSPTTPKRENSSYGWMSFPGAGQKPRTSPWMHR
EGLAVRRRRRKRLVRERVGEVQLIRANQEWAMDFIVDGLANGRMVRILSVVDAFTRECLALEADTSLGSGRVTRALDRLIEERGLPENVRSDNGPEFTSR
RMLGWAEERKINLVHIQPGRPMQNGHVESFHGRLRDECLNVSWFRTLNDVRRTLDNYRQEYNCERPHSSLAYRTPAEFRSALGYGDVESKVRFPHLHSPD
YDGEIYSPTTPKRENSSYGWMSFPGAGQKPRTSPWMHR
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1210 bp | 414 aa | 70 | 1279 | + | Yes |
Chemistry : DDE
ORF sequence :
MKKSRFTEEQIIGIVKQHEAGMKTADLCREHGISAATFYGWKSKFGGMDVSEAQRLRQMEDENRRLKSLVADLSLDREVLRSVIRKKRLELAGLREDVAF
AQAEHGVSERRACKLLGVDRASYRYEPRPDRNAELRDELVKLARQKPRYGYRRLHAVLERRGQTVNVKRVYRLYAEEGLAVRRRRRKRLVRERVGEVQLI
RANQEWAMDFIVDGLANGRMVRILSVVDAFTRECLALEADTSLGSGRVTRALDRLIEERGLPENVRSDNGPEFTSRRMLGWAEERKINLVHIQPGRPMQN
GHVESFHGRLRDECLNVSWFRTLNDVRRTLDNYRQEYNCERPHSSLAYRTPAEFRSALGYGDVESKVRFPHLHSPDYDGEIYSPTTPKRENSSYGWMSFP
GAGQKPRTSPWMHR
AQAEHGVSERRACKLLGVDRASYRYEPRPDRNAELRDELVKLARQKPRYGYRRLHAVLERRGQTVNVKRVYRLYAEEGLAVRRRRRKRLVRERVGEVQLI
RANQEWAMDFIVDGLANGRMVRILSVVDAFTRECLALEADTSLGSGRVTRALDRLIEERGLPENVRSDNGPEFTSRRMLGWAEERKINLVHIQPGRPMQN
GHVESFHGRLRDECLNVSWFRTLNDVRRTLDNYRQEYNCERPHSSLAYRTPAEFRSALGYGDVESKVRFPHLHSPDYDGEIYSPTTPKRENSSYGWMSFP
GAGQKPRTSPWMHR
Blast result :
Comments
ISAcp4 is 74% aa similar to ISCARN116.
The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
There is a conflict with the name of this IS, we have renamed it because it used a name (ISAca4) already attributed to another sequence in Acinetobacter calcoaceticus.
The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
There is a conflict with the name of this IS, we have renamed it because it used a name (ISAca4) already attributed to another sequence in Acinetobacter calcoaceticus.
References
1] ISfinder submission (2018)
2] Ward,N.L., Challacombe,J.F., Janssen,P.H., Henrissat,B., Coutinho,P.M., Wu,M., Xie,G., Haft,D.H., Sait,M., Badger,J., Barabote,R.D., Bradley,B., Brettin,T.S., Brinkac,L.M., Bruce,D., Creasy,T., Daugherty,S.C., Davidsen,T.M., DeBoy,R.T., Detter,J.C., Dodson,R.J., Durkin,A.S., Ganapathy,A., Gwinn-Giglio,M., Han,C.S., Khouri,H., Kiss,H., Kothari,S.P., Madupu,R., Nelson,K.E., Nelson,W.C., Paulsen,I., Penn,K., Ren,Q., Rosovitz,M.J., Selengut,J.D., Shrivastava,S., Sullivan,S.A., Tapia,R., Thompson,L.S., Watkins,K.L., Yang,Q., Yu,C., Zafar,N., Zhou,L. and Kuske,C.R. (2009) Appl. Environ. Microbiol. 75 (7), 2046-2056.
2] Ward,N.L., Challacombe,J.F., Janssen,P.H., Henrissat,B., Coutinho,P.M., Wu,M., Xie,G., Haft,D.H., Sait,M., Badger,J., Barabote,R.D., Bradley,B., Brettin,T.S., Brinkac,L.M., Bruce,D., Creasy,T., Daugherty,S.C., Davidsen,T.M., DeBoy,R.T., Detter,J.C., Dodson,R.J., Durkin,A.S., Ganapathy,A., Gwinn-Giglio,M., Han,C.S., Khouri,H., Kiss,H., Kothari,S.P., Madupu,R., Nelson,K.E., Nelson,W.C., Paulsen,I., Penn,K., Ren,Q., Rosovitz,M.J., Selengut,J.D., Shrivastava,S., Sullivan,S.A., Tapia,R., Thompson,L.S., Watkins,K.L., Yang,Q., Yu,C., Zafar,N., Zhou,L. and Kuske,C.R. (2009) Appl. Environ. Microbiol. 75 (7), 2046-2056.