gi_545778205_gb_U000_218

cmsearch-Rfam

Family :

RtT

Id:

RF00391

Type:

Cis-reg;

Taxonomy:

Eukaryota; Bacteria;

Ontology:

Not found

Description:

This family represents a bacterial cis-regulatory element known as RtT RNA. The exact function of RtT
is unknown although it is thought that it may be involved in changing the cellular
response in relation to amino acid starvation [1].

Score:

58.5

E-value:

4.3e-11

From sequence:

780850

To sequence:

781016

Alignments:

                                             v    v                           v     v          v                  NC
                              ::::::::::::::(((((((-(---....-----.-((-((.----((((,,,<<__~~~~~~>>,,,,,,<<<<<<____> CS
               RF00391      1 uuauuuugcauaugGgGgaGGAUGAg....AAcCu.UCGacc.aAGGUuCGAgucgAG*[ 5]*cgAGAaAaCGucGCgucAG 76    
                              U+  U++G++ +U+G G:AG  UGA     AA+C+ U:G+:C  AGGU CGA UC: G      :  GA AACGU:GCGUCAG
  gi_545778205_gb_U000 780850 UAGCUCAGUUGGUAGAGCAGU-UGACuuuuAAUCAaUUGGUCgCAGGUUCGAAUCCUG*[45]*G--GAUAACGUUGCGUCAG 780968
                              *********************.***999999999989999999***********7655...9..4..56677*********** PP

                                        v                           v    v           NC
                              >>>>>,,,))))-))))-------------------)-)))))))::::::::: CS
               RF00391     77 CgaCGgCCCGaAGggCGAGGcgCgaAGcGaCGAgUaAUCCucCcCccaCCACCA 130   
                              C:ACGGCCCG AGG:C:AG  +        CGAGU+AU CU:C C ++CCACCA
  gi_545778205_gb_U000 780969 CAACGGCCCGUAGGGCGAGCGA------AGCGAGUCAUCCUGCACGACCCACCA 781016
                              ****************985433......6678********************** PP

>>

RNAfold
>gi_545778205_gb_U000_218
AGCUCAGUUGGUAGAGCAGUUGACUUUUAAUCAAUUGGUCGCAGGUUCGA
AUCCUGCACGACCCACCAGUUUUAACAUCGAAGACAGAUGUUAAGCGUGU
AGGAUAACGUUGCGUCAGCAACGGCCCGUAGGGCGAGCGAAGCGAGUCAU
CCUGCACGACCCACCA
......((.(((.((.(((((((.......))))))).))(((((.......))))).............(((((((((.......)))))))))((((((((((.((.((((.((.((....((((...))))..)))).)))))).))))))))))))).)).. (-58.50)

Length sequence

: 166

Length match:

165