Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200019
Name   oriT_ICEEcoUMN026-1 in_silico
Organism   Escherichia coli UMN026
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   CU928163 (2324734..2324983 [+], 250 nt)
oriT length   250 nt
IRs (inverted repeats)      1..11, 158..168  (GCACACCGTCG.. CGACGGTGTGC)
  57..75, 131..149  (GCGCGACCAACCCCTTTAA..TTAAAGGGGTTGGTCGCGC)
Location of nic site      142..143
Conserved sequence flanking the
  nic site    		  GGTTG|GTCGCG
Note   blastn alignment with the oriT_ ICEKp1

  oriT sequence  


Download         Length: 250 nt

>oriT_ICEEcoUMN026-1
GCACACCGTCGCAGCCAGGCTATATTTCCCGCCCCGGCGGGGAATATGCCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCCGTTGACCCCGGGGGTTTTGACGCGACGTTCAGCCGCGACATTACCCCCATGCGACAGGCAATAAGGGCGTCCAGCCCG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 2312196..2323353

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ECUMN_2279 2308691..2309674 + 984 CAR13468 conserved hypothetical protein -
ECUMN_2280 2310018..2310203 + 186 CAR13469 conserved hypothetical protein -
ECUMN_2281 2310188..2310769 + 582 CAR13470 conserved hypothetical protein -
ECUMN_2282 2310759..2310968 + 210 CAR13471 putative lambdoid prophage protein from the DksA/TraR family with a zinc finger -
ECUMN_2283 2311211..2311339 + 129 CAR13472 conserved hypothetical protein -
ECUMN_2284 2312196..2312924 + 729 CAR13473 putative type IV secretory pathway VirB1 component virB1
ECUMN_2285 2312924..2313217 + 294 CAR13474 putative type IV secretory pathway VirB2 component virB2
ECUMN_2286 2313230..2315968 + 2739 CAR13475 putative type IV secretory pathway VirB4 component virb4
ECUMN_2287 2315987..2316700 + 714 CAR13476 putative type IV secretory pathway VirB5 component -
ECUMN_2288 2316708..2316950 + 243 CAR13477 conserved hypothetical protein; putative exported protein -
ECUMN_2289 2316954..2317298 + 345 CAR13478 Type IV secretory pathway VirB6 component (fragment) virB6
ECUMN_2290 2317336..2318352 - 1017 CAR13479 IS5 transposase and trans-activator; CP4-44 prophage -
ECUMN_2291 2318315..2319226 + 912 CAR13480 Type IV secretory pathway VirB6 component (fragment) virB6
ECUMN_2292 2319444..2320127 + 684 CAR13481 putative type IV secretory pathway VirB8 component virB8
ECUMN_2293 2320124..2321032 + 909 CAR13482 putative type IV secretory pathway VirB9 component virB9
ECUMN_2294 2321070..2322338 + 1269 CAR13483 putative type IV secretory pathway VirB10 component virB10
ECUMN_2295 2322328..2323353 + 1026 CAR13484 putative type IV secretory pathway VirB11 component virB11
ECUMN_2296 2323520..2323753 + 234 Protein_2257 conserved hypothetical protein (partial) -
ECUMN_2297 2323789..2324091 + 303 CAR13486 kikA from plasmid origin; putative exported protein -
ECUMN_2298 2324136..2324441 + 306 CAR13487 conserved hypothetical protein -
ECUMN_2299 2325151..2327010 + 1860 CAR13488 putative MobB mobilization protein -
ECUMN_2300 2327014..2327766 + 753 CAR13489 putative MobC mobilization protein -

Host bacterium

ID   24 Element type   
Element name   ICEEcoUMN026-1 GenBank   CU928163
Element size   5202090 bp Coordinate of oriT [Strand]   2324734..2324983 [+]
Host bacterium   Escherichia coli UMN026 Coordinate of element   2277431..2343162

Cargo genes

Drug resistance gene   -
Virulence gene   ybtS, ybtX, ybtQ, ybtP, ybtA, irp2, irp1, ybtU, ybtT, ybtE, fyuA
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -