gi_545778205_gb_U000_62

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:

24.6

E-value:

0.0037

From sequence:

1487174

To sequence:

1486982

Alignments:

                                                                                              vvvvvv             NC
                               ::::::::<<<<--<<----<<<<<~~~~~~>>>>>>>>>>>,,,,,,,,,,,,,,~~~~~~,<<<<<<___......... CS
               RF00022       1 aCuucauuAgccggaacGAcaagcu*[23]*agcuuuuggcUUAaggUUgUGAUGU*[32]*ugGuagcaau......... 115    
                                CU +A +:: :  A:CG  A:G::      ::C:U:U: ::UAAGG  +UG UGU                         
  gi_545778205_gb_U000 1487174 UCUGAAAGGAGGAAAUCGU-AUGUC*[23]*GACAUAUCUUUUAAGGAAAUGCUGU*[18]*----------uugcagcag 1487076
                               *******999999999875.77776...8..67778*********98777776665...5............333334333 PP

                                   vvvvvv                    v                         v                         NC
                               ..__>>>>>>..,,,,,.,,,,,,,,,,<<<<<______________..__.__>>>>>,<<<<<<<<_____.....___ CS
               RF00022     116 ..uagcuaCc..uaUUU.CACUUCCUGUacauuUauucugucUGUCu..Ga.UUaauguuagCACCGCcuuuU.....uuu 183    
                                  A++U ++  U+U    A UUCCUG :: UUUA++CU  C GU U  GA UUAA ::+A:::CCG C  U      UU 
  gi_545778205_gb_U000 1487075 ag-AAUUGUAuuUUUC-uGAAUUCCUGAAUUUUUACCCUUACCGUUUuaGAaUUAAUAAAAAACCCGGCGCUAaaugcUUA 1486997
                               33.3333333223444.479***************************9977577776666********9887788888888 PP

                                               NC
                               >>>>>>>>::::::: CS
               RF00022     184 GCGGUGcuUUUUUuU 198    
                                CGG:::UUUU UUU
  gi_545778205_gb_U000 1486996 CCGGGUUUUUUCUUU 1486982
                               *************** PP

RNAfold
>gi_545778205_gb_U000_62
AUAAAGAAAAAACCCGGUAAGCAUUUAGCGCCGGGUUUUUUAUUAAUUCU
AAAACGGUAAGGGUAAAAAUUCAGGAAUUCAGAAAAAUACAAUUCUCUGC
UGCAAGAUGAAUAAUGUUUAUCUACAGCAUUUCCUUAAAAGAUAUGUCAG
GCUUGCGGAGUGGCGGUUAAGGACAUACGAUUUCCUCCUUUCAGAGUG
......((((((((((((..((.....))))))))))))))....(((((.(((.((...((((....))))(((((.((((((........)))).(((((..((((((((...)))))))).))))).............((((((.((((.((......))))))...)))))).)).)))))))))).))))). (-46.40)

Length sequence

: 198

Length match:

191