gcvB,

cmscan-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:

176.8

E-value:

5.6e-44

From sequence:

1

To sequence:

205

Alignments:

                                                                                                                  v  NC
              ::::::::<<<<--<<----<<<<<<-<<<<<<<<____>>>>>>>>>>>>>>>>>>>>,,,,,,,,,,,,,........,,,,,,,,,,,,,<<<<<<<<_ CS
  RF00022   1 aCuucauuAgccggaacGAcaagcucuuucggucuuucuagaccgaagagcuuuuggcUUAaggUUgUGAUG........UUGUGUUUGCAaaugGuCUggu 94 
              ACUUC+U+AGCCGGAACGA+AAG:U:U::C:G::: ++U:::C:G:::A:CUUUUGGCUUA GGUUGUGAUG        UUGUGUUUGCAA+UGGUCUG +
    gcvB,   1 ACUUCCUGAGCCGGAACGAAAAGUUUUAUCGGAAUGCGUGUUCUGGUGAACUUUUGGCUUACGGUUGUGAUGuuguguugUUGUGUUUGCAAUUGGUCUGCG 102
              ****************************************************************************************************** PP

                 v                                                                                                   NC
              ___>>>>>>>>,<<<<<<_____>>>>>>,,,,,.,,,,,,,,,,<<<<<______________.....____>>>>>,<<<<<<<<________>>>>>>> CS
  RF00022  95 aaaccAGaCcaugGuagcaauuagcuaCcuaUUU.CACUUCCUGUacauuUauucugucUGUCu.....GaUUaauguuagCACCGCcuuuUuuuGCGGUGc 190
              A+  CAGACCAUGGUAGCAA  AGCUACCU+UUU CACUUCCUGUACAUUUA++CUGUCUGUC+     GAUUAAUGU AGCACCGCCU++U  UGCGGUGC
    gcvB, 103 AU-UCAGACCAUGGUAGCAA--AGCUACCUUUUUuCACUUCCUGUACAUUUACCCUGUCUGUCCauaguGAUUAAUGU-AGCACCGCCUAAU--UGCGGUGC 198
              *9.*****************..*******888888******************************************8.**********999..9******* PP

                       NC
              >::::::: CS
  RF00022 191 uUUUUUuU 198
              UUUUUUU 
    gcvB, 199 UUUUUUU- 205
              9988887. PP

RNAfold
>gcvB,
cuuccugagccggaacgaaaaguuuuaucggaaugcguguucuggugaac
uuuuggcuuacgguugugauguuguguuguuguguuugcaauuggucugc
gauucagaccaugguagcaaagcuaccuuuuuucacuuccuguacauuua
cccugucuguccauagugauuaauguagcaccgccuaauugcggugcuuu
uuuu
.....(((((((((......(((((.((((((((....)))))))))))))))))))))).((..((((......(((((.......)))))(((((((.....))))))).((((((...)))))).....))))..))..((((((...(((((......)))).)...))))))(((((((......)))))))....... (-61.00)

Length sequence

: 204

Length match:

203