chr5_28

cmsearch-Rfam

Family :

Plant_SRP

Id:

RF01855

Type:

Gene;

Taxonomy:

Eukaryota;

Ontology:

GO:0006617 SRP-dependent cotranslational protein targeting to membrane, signal sequence recognitionRF01855

Description:

not description

Score:

39.3

E-value:

3.8e-08

From sequence:

350314

To sequence:

350037

Alignments:

                         vvv    vvv           vv  vv        vv       vv    v      v    vv v vvv  v    v   v   vv  NC
                 (((<<<<<<<<____>>>>>>>>,,,,<<<<__>>>>)))--.(((((((((((-((((((((((((-((((((((((((((((((-(-(((-((- CS
  RF01855      1 GcCgagcucacUAACgugagcuuGUaACCCaAGuGGGGgCAu.caagguGgugggccguugggcggcuccucccggccGGgcccgcugucugccau 95    
                 GCCG::::       GU ::::UGUAACC++ G  GGGGC U      :GGU  +:CG :GG::: :U::  C+ GC :G :::G  :  UGC   
     chr5 350314 GCCGGAGC-------GUUGCUCUGUAACCUUCG--GGGGCUUcCU---AGGUGGAGCGGGGGUGUCGUGGACCA-GCGAGGGUGGCGCGCUGC--G 350234
                 *******9.......4579**********9855..*****99555...45666677775555555544333333.223555556655555554..4 PP

                    v              vv   v vv                 v              v                       v       v     NC
                 ---(((((((((((-(((((((((((((((,<<<.<<<<<<<<<<<<<<<____>>>>>>>...>>>>>>>>>>><<__>><<<<<<<---<<<<< CS
  RF01855     96 uUuccgGcccGcCCauUCCAcGccgggAGcUggg.ccgcggggcccgggCGAAGGcccggg...ccccgcggccccuAaagcGGcgggcAccgCGu 187   
                 UU+ CG::::GC:C U:C  :GC G  : :U:GG :: :::::C C::::G AG::::G G   ::::: ::CC::U AA:CG :GG:+AC : GU
     chr5 350233 UUGACGCGGUGCUC-UGCUUGGCUGU-GUGUCGGuGUGGCCUGCCCCCCUGUAGAGGGGUGucgUAGGCUACCCGUUGAAGCGAGGGAAACCGGGU 350140
                 689***********.99**9999994.44445553566666678899*******9999965221566666667778899999999999******** PP

                                         v     v     vv v    vv                vvv  v v    v       vvv v vv   v   NC
                 ----<<<______>>>---->>>>>->>>>>>>))))))))))-)))))))---)))))))))))))))))))))))-----)))))))))))))) CS
  RF01855    188 GAGGCuGGuUUCACaGAGCAgCGaguaccgCCggCUcccggCgGUGGAaGGAUaaCgggCcggugcagcgcgggcCCAcuauggccgggagggccg 283   
                  AGGC:GG    AC:GA CAGC :  :CC: CG: :  C GC:G  G:AG:AU AC::::CG +GCA : C::: C:          G  ::: ::
     chr5 350139 CAGGCCGGAA--ACGGAACAGCCCA-UCCUGCGCACGUCCGCCGUUGCAGAAUCACGCCGCGGAGCAUGACCGCACUU---------GAGCCCCAC 350056
                 *********9..**********997.89999986666699999********************999998887666653.........333334555 PP

                      v     vv       vv NC
                 ))-)))-)))-))))))))))) CS
  RF01855    284 ccccaaucggAccacCaccuug 305   
                 :C C: UCG:A  ACC:     
     chr5 350055 GCGCCGUCGCAAAACCU---UU 350037
                 55555568777766655...56 PP

RNAfold
>chr5_28
CCGCGCCUCCGGAAAAGGUUUUGCGACGGCGCGUGGGGCUCAAGUGCGGU
CAUGCUCCGCGGCGUGAUUCUGCAACGGCGGACGUGCGCAGGAUGGGCUG
UUCCGUUUCCGGCCUGACCCGGUUUCCCUCGCUUCAACGGGUAGCCUACG
ACACCCCUCUACAGGGGGGCAGGCCACACCGACACACAGCCAAGCAGAGC
ACCGCGUCAACGCAGCGCGCCACCCUCGCUGGUCCACGACACCCCCGCUC
CACCUAGGAAGCCCCCGAAGGUUACAGAGCAACGCUCCGGCUUGCAAAGC
GCUGC
(((......)))...((((((((((((((.((((((((......((((((((((((....)))))))..))))).((..((((..(((.(((.((((((((((.((....((((((.((.((((.(((..........))).)))).......(((((....)))))))))))))..)).))...)))))............(((((.......)))))))).))))))..)))).))...)))).((((.((((.((......))..))))....)))).)))).)))..))))))))).)).. (-110.70)

Length sequence

: 305

Length match:

276