logoC.briggsae small RNAs


miR expression

cbr-mir-55

cbr-mir-55

Cloning frequencies
absoluteAF16
cbr-mir-55 3arm795
normalizedAF16
cbr-mir-55 3arm2.072
cbr-mir-55 relative cloning frequencies

block4661 (miRBase cbr-mir-55) [miRNAknown_cloningHIGH_randfoldOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase cbr-mir-550.001nono0.39/0.4618/24/0.980.0
0.0
734
0
1
0
22
6
3arm
1
nd
0.13
2
7951nana
Clusters
Located in cluster 10: cel-mir-56, cbr-mir-55, block4662_novel, cel-mir-54, block4665_novel, block4666_novel
Families
Member of family miR-51/52/55 (seed ACCCGUA): cel-mir-56, cel-mir-54, cbr-mir-55, cbr-mir-52, cbr-mir-51, block4665_novel, block4666_novel
block4661 hairpin
  readsmiRBase family seed
seed     ----------------------------------------------------------------------------------ACCCGUA-----------------------------------------------------     774miR-51/52/55
seed     --------------------------------------------------------------------------------------GUAUAUU-------------------------------------------------     15novel
seed     ---------------------------------------------------------------------------------UACCCGU------------------------------------------------------     5novel
seed     -----------------------------------------------------------------------------------CCCGUAU----------------------------------------------------     1novel
  lencloning frequencies
   AF16
cbr-miR-55     ---------------------------------------------------------------------------------TACCCGTATATTTTTCTGCCGAG--------------------------------------     23734
      ---------------------------------------------------------------------------------TACCCGTATATTTTTCTGCCG----------------------------------------     2128
      -------------------------------------------------------------------------------------CGTATATTTTTCTGCCGAG--------------------------------------     1914
      ---------------------------------------------------------------------------------TACCCGTATATTTTTCTGCCGA---------------------------------------     2211
      --------------------------------------------------------------------------------ATACCCGTATATTTTTCTGCCGAG--------------------------------------     244
      --------------------------------------------------------------------------------ATACCCGTATATTTTTCTGCCGA---------------------------------------     231
      -------------------------------------------------------------------------------------CGTATATTTTTCTGCCGA---------------------------------------     181
      ---------------------------------------------------------------------------------TACCCGTATATTTTTCTGCCGAGC-------------------------------------     241
      ----------------------------------------------------------------------------------ACCCGTATATTTTTCTGCCGA---------------------------------------     211
cbriggsae     ----------AAAATT----GAATCGTCACAAAGGGGGACTCGGCGGAAAATATGGTGGTATACTACACAGTGAATAGATATACCCGTATATTTTTCTGCCGAGCCCCTCCACGACATCAATAAGG----------------      
celegans     --------------TGTCTAGATTTGGAACTTAATGGGACTCGGCAGAAACCTATCGGTTATACTTTTT--GGATATGCTATACCCGTATAAGTTTCTGCTGAGCCCCT----TATTCC-----------------------      
cbrenneri     TAGTATTCCAAGAATTGCCAGGTTTGGTAGTCGCTGGGACTAGGCGGAAGTATAGAGGGTATACTTCAT--CAAGTAACTATACCCGTATATATTTCTGCTTAGCCCCT----GACACCATCTTGGCCTTTCTTGCTATCTA      
                    *     *  * *  *      ****** *** ***        * ******        *     ************  *******  *******     *   *                             
 -----          ------    ----------------------------------------------------------------------------------------------------------                -----NM_026450
 -----          ------    ----------------------------------------------------------------------------------------------------------                -----NM_001011629
 +++++          ++++++    ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++                +++++NM_064155
 +++++          ++++++    ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++                +++++NM_001101467
 -----          ------    ----------------------------------------------------------------------------------------------------------                -----NM_205032
cbriggsae               ...(((    ((.((((......(((((.((((((((((((((((..(((((((((.........))).))))))..)))).)))))))))))))))))..))))..)))))....                     1.000 -41.90
celegans                   ...........((((..(((.(((.((((((((((((.((((((.((((......  ........)))).))).))).))))))))))))))).)    ))))))                            0.930 -33.64
cbrenneri     (((.((..((((((..((((((..((((.((((..(((.(((((((((((((((..((((((((((...  .)))))....)))))...)))))))))))))))))).)    ))))))).))))))..))))))..)))))     1.000 -61.30

cbriggsaechromosome:chrX:16836967:16837078:-1Opposite_strand|Intronic_non-coding|NM_026450|Zfp169 ## Same_strand|Intronic_non-coding|NM_064155|Y17G7B.3 ## {Repeats: no} ## {MIR: cbr-mir-55}
celeganschromosome:chrX:13144752:13144850:-1intergenic ## {MIR: cel-mir-55}
cbrennerichromosome:chrUn:8943944:8944079:1intergenic


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