gi_545778205_gb_U000_63

cmsearch-Rfam

Family :

GcvB

Id:

RF00022

Type:

Gene;

Taxonomy:

Eukaryota; Bacteria;

Ontology:

Not found

Description:

The gcvB gene encodes a small untranslated RNA involved in expression of the dipeptide and oligopeptide
transport systems in Escherichia coli. Included several unknown homologues in alignment (Bateman A pers obs).

Score:

28.3

E-value:

0.00041

From sequence:

1756980

To sequence:

1757169

Alignments:

                                       v           vv                             vv     v                       NC
                               ::::::::<<<<--<<----<<<<<<-<<<<<<<<____>>>>>>>>>>>>>>>>>>>>,,,,,,,,,,,,,,,,,,,,,, CS
               RF00022       1 aCuucauuAgccggaacGAcaagcucuuucggucuuucuagaccgaagagcuuuuggcUUAaggUUgUGAUGUUGUGUUUG 81     
                               A UUC    G C+G::+ A+ A:C::+:UC:G          C:GA:::G:  ::G C  A     GUGA GUUGU  UU 
  gi_545778205_gb_U000 1756980 AUUUCUACCGUCUGGGUAAAGAACUGGCUCUG----------CAGAGCGGU--CUGGCACACAAAGGUGACGUUGUAGUU- 1757047
                               **************999999555555555543..........345555555..999999999999999**9999996665. PP

                                    v v            v v  v    v         v    v                                    NC
                               ,,,,<<<<<<<<____>>>>>>>>,<<<<<<___....__>>>>>>,,,,,.,,,,,,,,,,<<<<<______________ CS
               RF00022      82 CAaaugGuCUgguaaaccAGaCcaugGuagcaau....uagcuaCcuaUUU.CACUUCCUGUacauuUauucugucUGUCu 157    
                                A+ :   C  GU  AC  G   :  G::G A U    +  C::C U U U CAC UCCUGU:::::U +U+U   UG  U
  gi_545778205_gb_U000 1757048 -AUGGUUUCUGGUGCACUGGUACCGAGCGGCACUacuaACACCGCAUCUGUuCACGUCCUGUAAUAUUGCUUUUG-UGAAU 1757126
                               .555555555555557777766667777777766887766777776666667***********999998887777.66666 PP

                                           v                      v        NC
                               .__.__>>>>>,<<<<<<<<________>>>>>>>>::::::: CS
               RF00022     158 .Ga.UUaauguuagCACCGCcuuuUuuuGCGGUGcuUUUUUuU 198    
                                 A UU:::::U ::A:CGCC U  U++GCG:U:: UUU UUU
  gi_545778205_gb_U000 1757127 uAAuUUGUAUAUCGAAGCGCCCUGAUGGGCGCUUUUUUUAUUU 1757169
                               534588999999******************************* PP

>>

RNAfold
>gi_545778205_gb_U000_63
AUGAUUUCUACCGUCUGGGUAAAGAACUGGCUCUGCAGAGCGGUCUGGCA
CACAAAGGUGACGUUGUAGUUAUGGUUUCUGGUGCACUGGUACCGAGCGG
CACUACUAACACCGCAUCUGUUCACGUCCUGUAAUAUUGCUUUUGUGAAU
UAAUUUGUAUAUCGAAGCGCCCUGAUGGGCGCUUUUUUUAUUUAAUC
..((((..((((.....)))).(((......)))((((((((((....(((......)))..((((((((..(.((((..(((((....))))))))).).))))).)))))))).)))))(((((....(((....)))...)))))...............(((((((((....)))))))))........)))) (-53.80)

Length sequence

: 197

Length match:

188