gi_545778205_gb_U000_217

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:

63.0

E-value:

3e-12

From sequence:

780561

To sequence:

780729

Alignments:

                                             v    v                                 vv        vv                  NC
                              ::::::::::::::(((((((-(---....-----.-((-((.----((((,,,<<__~~~~~~>>,,,,,,<<<<<<____> CS
               RF00391      1 uuauuuugcauaugGgGgaGGAUGAg....AAcCu.UCGacc.aAGGUuCGAgucgAG*[ 5]*cgAGAaAaCGucGCgucAG 76    
                              U+  U++G++ +U+G G:AG  UGA     AA+C+ U:G+:C  AGGUUCGA UC  G         GA AACGU:GC U AG
  gi_545778205_gb_U000 780561 UAGCUCAGUUGGUAGAGCAGU-UGACuuuuAAUCAaUUGGUCgCAGGUUCGAAUCCUG*[45]*--GGAUAACGUUGCAUGAG 780679
                              *********************.***9999999999899*9999***********7665...9....456777*********** PP

                                                                    v    v           NC
                              >>>>>,,,))))-))))-------------------)-)))))))::::::::: CS
               RF00391     77 CgaCGgCCCGaAGggCGAGGcgCgaAGcGaCGAgUaAUCCucCcCccaCCACCA 130   
                              C:ACGGCCCGAAGG:C:AG CG +    G CGAGU+AU CU:C C ++CCACCA
  gi_545778205_gb_U000 780680 CAACGGCCCGAAGGGCGAGACGAA----GUCGAGUCAUCCUGCACGACCCACCA 780729
                              ******************998887....9************************* PP

>>

RNAfold
>gi_545778205_gb_U000_217
AGCUCAGUUGGUAGAGCAGUUGACUUUUAAUCAAUUGGUCGCAGGUUCGA
AUCCUGCACGACCCACCAAUCGCUAAGGUGGAAGCGGUAGUAAAACGUGA
AGGAUAACGUUGCAUGAGCAACGGCCCGAAGGGCGAGACGAAGUCGAGUC
AUCCUGCACGACCCACCA
(((...((((((.((.(((((((.......))))))).))(((((.......))))).......)))))).)))..(((((..((....))....((((.(((((..((((((....))))))((((...))))..(((........)))))))).))))..))))). (-55.00)

Length sequence

: 168

Length match:

167