logoC.elegans small RNAs

miR-Intess™


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cel-mir-50

cel-mir-50

Cloning frequencies
absoluteCE1
cel-mir-50 5arm858
normalizedCE1
cel-mir-50 5arm0.599
cel-mir-50 relative cloning frequencies

block706 (miRBase cel-mir-50) [miRNAknown_cloningHIGH_randfoldOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase cel-mir-500.001nono0.33/0.4418/25/0.950.0
1.4
794
0
1
0
15
5
5arm
1
nd
0.12
3
8581nana
Families
Member of family miR-50/62/90 (seed GAUAUGU): cel-mir-50, cel-mir-90, cel-mir-62
block706 hairpin
  readsmiRBase family seed
seed     ------------------------------GAUAUGU---------------------------------------------------------------------------------------     844miR-50/62/90
seed     ----------------------------------UGU-CUGG----------------------------------------------------------------------------------     8novel
seed     -------------------------------AUAUGU-C-------------------------------------------------------------------------------------     6novel
  lencloning frequencies
   CE1
      -----------------------------TGATATGT-CTGGTA----TTCTTGGGTT------------------------------------------------------------------     24295
cel-miR-50     -----------------------------TGATATGT-CTGGTA----TTCTTGGG--------------------------------------------------------------------     22209
      -----------------------------TGATATGT-CTGGTA----TTCTTGG---------------------------------------------------------------------     21186
      -----------------------------TGATATGT-CTGGTA----TTCTTGGGT-------------------------------------------------------------------     23104
      -----------------------------TGATATGT-CTGGTA----TTCTTGGGTTT-----------------------------------------------------------------     2532
      -----------------------------TGATATGT-CTGGTA----TTCTTG----------------------------------------------------------------------     2016
      ------------------------------GATATGT-CTGGTA----TTCTTGGGTT------------------------------------------------------------------     236
      ---------------------------------ATGT-CTGGTA----TTCTTGGG--------------------------------------------------------------------     185
      -----------------------------TGATATGT-CTGGTA----TTCT------------------------------------------------------------------------     182
      ---------------------------------ATGT-CTGGTA----TTCTTGGGTT------------------------------------------------------------------     202
      ---------------------------------ATGT-CTGGTA----TTCTTGGGTTT-----------------------------------------------------------------     211
celegans     --------------CTGCCCGCCGGCCGCTGATATGT-CTGGTA----TTCTTGGGTTTG-----AACTTCCAGCGTTG-AACCCGCATATTAGACGTATCGACGGCCGGCGGGGCAGGTAATG      
cbriggsae     -------------TCCACCCACCGGCCGCTGATATGT-CTGATA----TTCTTGGGTTAT---CTGATAATGATTGTTGTAACTCAAGTATTAGACGTATCGACGGCCGGCTGGGTTGGA----      
cjaponica     CACTATATTCCCGCTCGCCCACCGGACCTTGATATGT-CTAGTA----TTCTAGGTTTCG-CCCTTTTATTGGCATGCG-AACCAGTTTATTAGATATATCGACGTCCGGTTTGGGCGGCG---      
cbrenneri     ------------TCTCACCCACCGGCCGCTGATATGT-CTGGTA----TTCTTGGGTTCATTCCTTACTCTG--------AACCAGTTTATTAGACGTATCGACGGCCGGATCGGGTGAGA---      
ppacificus     ------------------------------GATATGTGCTGGTAAGTCCTCTAAGTTCAA------GGTCTAGGAGGTGATTTCCAATTAAC-----TATC-----------------------      
cremanei     -----------------------------TGATATGT-CTGGTA----TTCTTGGGTTCG----ATACTCTGAAAAACG-AACCAAAGTAGCAGACGTATCG----------------------      
                                    ******* **  **     ***  * *                               **       ****                             
 +++++              +++++++++++++++++++++++ ++++++    ++++++++++++     ++++++++++++++ +++++++++++++++++++++++++++++++++++++++++++++++++Y71G12B.11a Y71G12B.11 Y71G12B.11
celegans                   ((((((((((((((.(((((((( ((((((    (...(((((((.     (((.......)))) )))))).))))))))))))))).)))))))).))))))......     1.000 -59.60
cbriggsae                  (((((((((((((((.(((((((( ((((((    ..((((((((((   ..((((.....)))))))))))))))))))))))))))).))))))).))))).)))         1.000 -56.00
cjaponica     ...........(((.((((((((((((.((((((((( ((((((    ..((.((.(((( (((.......))...))) ))))))..))))))))))))))).)))))))..))))))))        1.000 -56.90
cbrenneri                 ((((((((.(((((((.(((((((( ((((((    ..((..((((((..........))        ))))))..)))))))))))))).)))))))...))))))))        1.000 -55.00
ppacificus                                   ((((.((..(((.((..(((((.((.....      ...)).)))))...)).)))....))     ))))                            0.999 -12.20
cremanei                                  .((((((( (((.((    ((....((((((    .............)) ))))..)))).)))))))))).                           1.000 -25.32

celeganschromosome:I:1738636:1738734:1Same_strand|Intronic_coding|Y71G12B.11a|Y71G12B.11 ## Same_strand|Boundary_non-coding|Y71G12B.11b|Y71G12B.11 ## Y71G12B.11|protein_coding|Y71G12B.11|Y71G12B.11a [Source:RefSeq_peptide;Acc:NP_490886] ## {MIR: cel-mir-50}
cbriggsaechromosome:chrI:2124811:2124909:1Opposite_strand|Intronic_coding|NM_174569 ## Same_strand|Intronic_coding|NM_001107428 ## {MIR: cbr-mir-50}
cjaponicachromosome:chrUn:44675841:44675954:-1Same_strand|Intronic_coding|NM_143141
cbrennerichromosome:chrUn:31668280:31668375:-1Opposite_strand|Intronic_coding|NM_203889 ## Same_strand|Intronic_coding|NM_001113428
ppacificuschromosome:chrUn:5001520:5001658:-1intergenic
cremaneichromosome:chrUn:17804059:17804197:-1Same_strand|Intronic_coding|NM_001009560 ## Same_strand|Boundary_coding|NM_058485


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