gi_545778205_gb_U000_346

cmsearch-Rfam

Family :

t44

Id:

RF00127

Type:

Gene; sRNA;

Taxonomy:

Eukaryota; Bacteria;

Ontology:

Not found

Description:

This family consists of a number of bacterial RNA genes of between 135 and 170 bases
in length. The t44 gene has been identified in several species of enteric bacteria but
homologs have also been identified in Pseudomonas and Coxiella species. The t44 gene is found
between the map and rpsB genes in all species in the full alignment apart from
Shigella flexneri. The function of this RNA is unknown.

Score:

83.0

E-value:

2.2e-19

From sequence:

189760

To sequence:

189846

Alignments:

                                                                     v                                v           NC
                              ::::::::::::::::::::::<<<<<<<<----<<<<<<<<<----<<<<<____________>>>>>>>>>.>>>>>->>> CS
               RF00127      1 cUuauuuuauuuaaAaaaCACACACguauCGaCACaugcgcCgGGGUGCcccuauuuuagaaaagggGUcGgc.gcauGGGau 82    
                              CU+A UUU+U U AA AACACACACGUAUCG CACAU:: CCGGGGUGCCC:U+          :GGGUCGG  ::AUGGGAU
  gi_545778205_gb_U000 189760 CUCACUUUGUGU-AACAACACACACGUAUCGGCACAUAUUCCGGGGUGCCCUUU----------GGGGUCGGUaAUAUGGGAU 189831
                              ******888865.899************************************99..........********99********* PP

                                              NC
                              >>>>>:::::::::: CS
               RF00127     83 acGUGGAGGCuUAAC 97    
                              ACGUGGAGGC+UAAC
  gi_545778205_gb_U000 189832 ACGUGGAGGCAUAAC 189846
                              *************** PP

RNAfold
>gi_545778205_gb_U000_346
CAAUCUCACUUUGUGUAACAACACACACGUAUCGGCACAUAUUCCGGGGU
GCCCUUUGGGGUCGGUAAUAUGGGAUACGUGGAGGCAUAACCCCAA
...((((....(((((....)))))((((((((..(.(((((((((....((((....))))))).)))))))))))))))))))........... (-28.80)

Length sequence

: 96

Length match:

85