gi_545778205_gb_U000_67

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:

57.9

E-value:

8.7e-13

From sequence:

2691339

To sequence:

2691155

Alignments:

                                    v        v                                          v         v              NC
                               <<---<<<<<<<<<<-----<<<<<---<<____.......__>>-->>>>>----->>>>>>>->>>-->>,,,,,,,,, CS
               RF00083       1 GuAGAUGCUCaUcCCAuuUcuUaUGuUuGCcUua.......uuGCuUCAuAaACuCaGGgAuGAuGCAGAgCCGaUUuUAc 74     
                               G:    GCUCAU:C+ +  CUUAUGU +GCC          +UGCU CAUAAA U   G:AUGA+GC   :C       A+
  gi_545778205_gb_U000 2691339 GU---GGCUCAUUCACCGACUUAUGUCAGCCCCUucgggacGUGCUACAUAAAAUAC-GAAUGACGC---ACAA----CAA 2691270
                               *9...999******999*************9888888998888*********98866.*******99...6654....468 PP

                                                                                                                 NC
                               (((((((,,,<<<<--------<<<<______________>>>>------->>>>,,,<<_____>>,))))))),,,,,, CS
               RF00083      75 GGuGCcUAUuGuCCAucUaAcaGaUGUcgaauuuauuccuCAuCACAuacuGGaCAuAaCGUUGAGuGAgGCaCCgauuuU 155    
                               GGUGCCU  +G:CCA+CU  C GAU:UC        +C+ :AUCA  +A +GG:C  AACGU GAGU AGGCACCG +   
  gi_545778205_gb_U000 2691269 GGUGCCUGCCGUCCAACUU-CUGAUAUCAG--CGUAGCUAUAUCAACCAUCGGGCGAAACGUCGAGUUAGGCACCGCC--- 2691195
                               ***************6665.99*****998..55566668***********************************554... PP

                                                                  v      v               NC
                               ,,,<<<_____>>>,,,,,,,,,,,,<<<<<<<<<<<____>>>>>>>>>>>::::: CS
               RF00083     156 GUUGUCuuacAGACCUGAaaauUUUagaCGCcuGCccuuuaggGCagGCGucUUUUU 212    
                                   U UU CA A C           :A GCC:G: :   A: :C:GGC U: UU U
  gi_545778205_gb_U000 2691194 ---UUAUUCCAUAAC-----------AAAGCCGGGUA---AUUCCCGGCUUUGUUGU 2691155
                               ...555555555554...........9*******977...3779************* PP

RNAfold
>gi_545778205_gb_U000_67
GGGAAGUUCAGAUACAACAAAGCCGGGAAUUACCCGGCUUUGUUAUGGAA
UAAGGCGGUGCCUAACUCGACGUUUCGCCCGAUGGUUGAUAUAGCUACGC
UGAUAUCAGAAGUUGGACGGCAGGCACCUUGUUGUGCGUCAUUCGUAUUU
UAUGUAGCACGUCCCGAAGGGGCUGACAUAAGUCGGUGAAUGAGCCACUG
GUUACUAUUAUG
....(((((((....((((((((((((.....)))))))))))).....((((.(.(((((((...........(((.(((((..((((((((((...))).)))))))..))))).))).))))))).).))))((.(((((((...(((((((..((.(((((...))))))))))))))....)))))))))..))))..)))...... (-70.90)

Length sequence

: 212

Length match:

183