gi_545778205_gb_U000_86

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:

261.0

E-value:

2.4e-60

From sequence:

2653515

To sequence:

2653723

Alignments:

                                                                                                                 NC
                               :::::::<<<<<<<<<<<-<<<<_______>>>>>>->>>>>>>>>-------[[[[,,<<<<-<<<-<____>->>>->> CS
               RF00125       1 uuuAgCauauuacCGaCaCcggcaaUuuCcgccguGUuCGguaauaAAAUAACCuggCUuauuAGuCCGAAUUCAGaCAaa 81     
                               UUUAGC+UAUUA:CGACACCGGC++UUUCCGCCGUGUUCG:UAAUAAAAUAACCUGGCUUAUUAGUCCGAAUUCAGACAAA
  gi_545778205_gb_U000 2653515 UUUAGCGUAUUAUCGACACCGGCCCUUUCCGCCGUGUUCGGUAAUAAAAUAACCUGGCUUAUUAGUCCGAAUUCAGACAAA 2653595
                               ********************************************************************************* PP

                                                                                                                 NC
                               >>,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,((((((,,,,<<--<<<<________>>>>-->>,,,,,,,,,,,,, CS
               RF00125      82 uaUAAAcAAaUccuGCUcAAaAUUAAAAAUaCUAaCCgGuAAAAGaUAuuaCUUAAAcAUGuaaAUuCACUUUcCUUUAAA 162    
                               UAUAAA+AAAUCCUGCUCAAAAUUAAAAAU+CUAACC:GUAAAAGAUAUUACUUAAACAUGUAAAUUCACUUUCCUUUAAA
  gi_545778205_gb_U000 2653596 UAUAAAUAAAUCCUGCUCAAAAUUAAAAAUUCUAACCGGUAAAAGAUAUUACUUAAACAUGUAAAUUCACUUUCCUUUAAA 2653676
                               ********************************************************************************* PP

                                                                               NC
                               ,<<<<<<-<<<<<<<_______>>>>>>>->>>>>>))))))]]]]: CS
               RF00125     163 aaaCaaaAaaCCGCCAAAAuCAGGCGGuuAuuuGuugCcGGuccgGU 209    
                               AAACAAAAAACCGCCAAAAUCAGGCGGUU UUUGUUGC:GGUCCGGU
  gi_545778205_gb_U000 2653677 AAACAAAAAACCGCCAAAAUCAGGCGGUUUUUUGUUGCUGGUCCGGU 2653723
                               *********************************************** PP

>>

RNAfold
>gi_545778205_gb_U000_86
UUAGCGUAUUAUCGACACCGGCCCUUUCCGCCGUGUUCGGUAAUAAAAUA
ACCUGGCUUAUUAGUCCGAAUUCAGACAAAUAUAAAUAAAUCCUGCUCAA
AAUUAAAAAUUCUAACCGGUAAAAGAUAUUACUUAAACAUGUAAAUUCAC
UUUCCUUUAAAAAACAAAAAACCGCCAAAAUCAGGCGGUUUUUUGUUGCU
GGUCCGGU
......((((((((((((.(((.......)))))).))))))))).......((((..((((.(((........))).))))................................((((((((..((..((((........))))..))................((((((((((((.......)))))))))))))))))))))))). (-48.90)

Length sequence

: 208

Length match:

207