gi_545778205_gb_U000_68

cmsearch-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:

210.9

E-value:

8.4e-55

From sequence:

3986432

To sequence:

3986638

Alignments:

                                                                                                                 NC
                               <<---<<<<<<<<<<-----<<<<<---<<______>>-->>>>>----->>>>>>>->>>-->>,,,,,,,,,((((((( CS
               RF00083       1 GuAGAUGCUCaUcCCAuuUcuUaUGuUuGCcUuauuGCuUCAuAaACuCaGGgAuGAuGCAGAgCCGaUUuUAcGGuGCcU 81     
                               GUAGAUGCUCAU:CCAU+UCUUAUGUU+GCCUUA+UGC+UCAUAAACUC GG:AUGA+GCAGAGCCG+U  UACGGUGC:U
  gi_545778205_gb_U000 3986432 GUAGAUGCUCAUUCCAUCUCUUAUGUUCGCCUUAGUGCCUCAUAAACUCCGGAAUGACGCAGAGCCGUU--UACGGUGCUU 3986510
                               *********************************************************************..********** PP

                                                                                                                 NC
                               ,,,<<<<--------<<<<______________>>>>-..------>>>>,,,<<_____>>,))))))),,,,,,,,,<< CS
               RF00083      82 AUuGuCCAucUaAcaGaUGUcgaauuuauuccuCAuCA..CAuacuGGaCAuAaCGUUGAGuGAgGCaCCgauuuUGUUGU 160    
                               AU+GUCCA CU+ACAGAUGUCG   UUAU+CCUCAUCA  CA+++UGGACA+AACGUUGAGUGA:GCACC A  UUGUUGU
  gi_545778205_gb_U000 3986511 AUCGUCCA-CUGACAGAUGUCGC--UUAUGCCUCAUCAgaCACCAUGGACACAACGUUGAGUGAAGCACCCA-CUUGUUGU 3986587
                               ********.**************..99*******************************************55.566***** PP

                                                                                        NC
                               <_____>>>,,,,,,,,,,,,<<<<<<<<<<<____....>>>>>>>>>>>::::: CS
               RF00083     161 CuuacAGACCUGAaaauUUUagaCGCcuGCccuuua....ggGCagGCGucUUUUU 212    
                               C+UACAGACCUG     UUU+:ACGCCUGC:C+ UA    G:GCAGGCGU:UUUUU
  gi_545778205_gb_U000 3986588 CAUACAGACCUG-----UUUUAACGCCUGCUCCGUAauaaGAGCAGGCGUUUUUUU 3986638
                               ************.....****************9999999**************** PP

>>

RNAfold
>gi_545778205_gb_U000_68
GAGUAGAUGCUCAUUCCAUCUCUUAUGUUCGCCUUAGUGCCUCAUAAACU
CCGGAAUGACGCAGAGCCGUUUACGGUGCUUAUCGUCCACUGACAGAUGU
CGCUUAUGCCUCAUCAGACACCAUGGACACAACGUUGAGUGAAGCACCCA
CUUGUUGUCAUACAGACCUGUUUUAACGCCUGCUCCGUAAUAAGAGCAGG
CGUUUUUUUAUG
..(((((((((((((((.....(((((..(((....)))...))))).....))))))).)))(.((((....)))).).....(((((.((.(.((((..((....))..)))).).))...)))))(((((...(((((.......))))))))))...(((....)))...(((((((((((........)))))))))))..))))). (-62.00)

Length sequence

: 212

Length match:

205