sraJ,

cmscan-Rfam

Family :

GlmZ_SraJ

Id:

RF00083

Type:

Gene; sRNA;

Taxonomy:

Eukaryota; Bacteria;

Ontology:

Not found

Description:

This RNA was discovered in E. coli during a large scale screen [1]. The sraJ gene
was expressed in early logarithmic phase, but its level decreased with cell growth [1]. Specific
cleavage products of this RNA were found [1]. The function of this RNA is unknown.

Score:

173.3

E-value:

1.6e-45

From sequence:

1

To sequence:

172

Alignments:

                                                                                                                     NC
              <<---<<<<<<<<<<-----<<<<<---<<______>>-->>>>>----->>>>>>>->>>-->>,,,,,,,,,(((((((,,,<<<<--------<<<<__ CS
  RF00083   1 GuAGAUGCUCaUcCCAuuUcuUaUGuUuGCcUuauuGCuUCAuAaACuCaGGgAuGAuGCAGAgCCGaUUuUAcGGuGCcUAUuGuCCAucUaAcaGaUGUc 102
              GUAGAUGCUCAU:CCAU+UCUUAUGUU+GCCUUA+UGC+UCAUAAACUC GG:AUGA+GCAGAGCCG+U  UACGGUGC:UAU+GUCCA CU+ACAGAUGUC
    sraJ,   1 GUAGAUGCUCAUUCCAUCUCUUAUGUUCGCCUUAGUGCCUCAUAAACUCCGGAAUGACGCAGAGCCGUU--UACGGUGCUUAUCGUCCA-CUGACAGAUGUC 99 
              ********************************************************************9..******************.************ PP

                                                                                                      NC
              ____________>>>>-..------>>>>,,,<<_____>>,))))))),,,,,,,,,<<<_____>>>,,,,,,,,,,,,~~~~~~ CS
  RF00083 103 gaauuuauuccuCAuCA..CAuacuGGaCAuAaCGUUGAGuGAgGCaCCgauuuUGUUGUCuuacAGACCUGAaaauUUUa*[31]> 212
              G   UUAU+CCUCAUCA  CA+++UGGACA+AACGUUGAGUGA:GCACC A  UUGUUGUC+UACAGACCUG     UUU+      
    sraJ, 100 GC--UUAUGCCUCAUCAgaCACCAUGGACACAACGUUGAGUGAAGCACCCA-CUUGUUGUCAUACAGACCUG-----UUUU*[ 0]> 172
              **..99*******************************************55.566*****************.....4444...... PP

RNAfold
>sraJ,
uagaugcucauuccaucucuuauguucgccuuagugccucauaaacuccg
gaaugacgcagagccguuuacggugcuuaucguccacugacagaugucgc
uuaugccucaucagacaccauggacacaacguugagugaagcacccacuu
guugucauacagaccuguuuu
....((((((((((.....(((((..(((....)))...))))).....))))))).)))(.((((....)))).).....(((((.((.(.((((..((....))..)))).).))...)))))(((((...(((((.......))))))))))................ (-40.50)

Length sequence

: 171

Length match:

171