gi_545778205_gb_U000_87

cmsearch-Rfam

Family :

IS128

Id:

RF00125

Type:

Gene; sRNA;

Taxonomy:

Eukaryota; Bacteria;

Ontology:

Not found

Description:

This family consists of a number of bacterial RNA genes of 209 bases in length. The
IS128 RNA gene is present in Escherichia coli and Shigella flexneri and where it is
found between the sseA and sseB genes. The function of this RNA is unknown.

Score:

34.3

E-value:

5.8e-05

From sequence:

2653567

To sequence:

2653342

Alignments:

                                           v                           v            vvvv                         NC
                               :::::::<<<<<<<<<<<-<<<<_______>>>>>>->>>>>>>>>-------[[[[,,<~~~~~~>,,,,,,,,,,,,,, CS
               RF00125       1 uuuAgCauauuacCGaCaCcggcaaUuuCcgccguGUuCGguaauaAAAUAACCuggCUu*[22]*aUAAAcAAaUccuGC 97     
                                UUA   UAUUA CGA:: CGGC       GCCG:: UCG UAAUA   UAA       U      AU A +   U++UGC
  gi_545778205_gb_U000 2653567 GUUAUUUUAUUACCGAACACGGCGGAAAGGGCCGGUGUCGAUAAUACGCUAAA------U*[ 8]*AUUACUCUCUUUUGC 2653491
                               **********************************************9999987......3...4..366666677888899 PP

                                                   v                                                             NC
                               ,,,,,,,,,,,,,,,,,,((((((,,..,,<<--<<<<~~~~~~>>>>-->>,,,,,,,,,,,,,,<<<<<<-<<<<<<<_ CS
               RF00125      98 UcAAaAUUAAAAAUaCUAaCCgGuAA..AAGaUAuuaC*[ 8]*GuaaAUuCACUUUcCUUUAAAaaaCaaaAaaCCGCCA 178    
                               U+ A A  AAA A A U AC GGU A  A ::U U :C      G: AA ::   U       A  AA:AAAAAACCGCCA
  gi_545778205_gb_U000 2653490 UUGACAA-AAAGAGAGUUACUGGUGAguAUUGUUUUGC*[52]*GCGAACCAGACU-------AGCAAUAAAAAACCGCCA 2653372
                               9988875.4445788899******87223444555554...*..666666554333.......446**************9 PP

                                                      v  vvvv  NC
                               ______>>>>>>>->>>>>>))))))]]]]: CS
               RF00125     179 AAAuCAGGCGGuuAuuuGuugCcGGuccgGU 209    
                               AA UC GGCGGUU UUU:UUGCC GU++++U
  gi_545778205_gb_U000 2653371 AAUUC-GGCGGUUUUUUAUUGCCUGUAAAAU 2653342
                               88777.************************* PP

RNAfold
>gi_545778205_gb_U000_87
UUUUACAGGCAAUAAAAAACCGCCGAAUUUGGCGGUUUUUUAUUGCUAGU
CUGGUUCGCGGCCUUUCCAGCAGGUUGACUUGUGUUACAUGAGCAACGCA
GGUGCUUCACAGCAAAACAAUACUCACCAGUAACUCUCUUUUUGUCAAGC
AAAAGAGAGUAAUUAUUGUUUAUUUAGCGUAUUAUCGACACCGGCCCUUU
CCGCCGUGUUCGGUAAUAAAAUAAC
....((.((((((((((((((((((....)))))))))))))))))).))(((((...((((((.......)))))).((((((((........))))))))((((....))))...........)))))..((((((((((.((...)))))))))))).............(((...((((((((((((.(((.......)))))).)))))))))...))). (-75.40)

Length sequence

: 225

Length match:

224