logoC.briggsae small RNAs

miR-Intess™


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cbr-mir-60

cbr-mir-60

Cloning frequencies
absoluteAF16
cbr-mir-60 3arm3172.500
normalizedAF16
cbr-mir-60 3arm8.270
cbr-mir-60 relative cloning frequencies

block993 (miRBase cbr-mir-60) [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-600.002nono0.22/0.3518/24/1.000.0
0.0
3146
0
1
0
5
6
3arm
1
nd
0.18
2
31751nana
block993 hairpin
  readsmiRBase family seed
seed     ----------------------------------------------------------AUUAUGC----------------------------------------     3163miR-60
seed     ---------------------------------------------------------UAUUAUG-----------------------------------------     9novel
seed     -----------------------------------------------------------UUAUGCA---------------------------------------     2novel
seed     --------------------------------------------------------------UGCACAU------------------------------------     1novel
  lencloning frequencies
   AF16
      ---------------------------------------------------------TATTATGCACATTTTCTAGTCC--------------------------     223146
      ---------------------------------------------------------TATTATGCACATTTTCTAGTC---------------------------     2112
      --------------------------------------------------------ATATTATGCACATTTTCTAGTCC--------------------------     236
      ---------------------------------------------------------TATTATGCACATTTTCTAGT----------------------------     203
      --------------------------------------------------------ATATTATGCACATTTTCTAGTC---------------------------     222
      ---------------------------------------------------------TATTATGCACATTTTCTA------------------------------     182
      ----------------------------------------------------------ATTATGCACATTTTCTAGTCCA-------------------------     221
      ----------------------------------------------------------ATTATGCACATTTTCTAGTC---------------------------     201
      -------------------------------------------------------------ATGCACATTTTCTAGTCCAA------------------------     201
      --------------------------------------------------------ATATTATGCACATTTTCTAGTCCA-------------------------     241
cbr-miR-60     ---------------------------------------------------------TATTATGCACATTTTCTAGTCCA-------------------------     23-
cbriggsae     ------------TTCTTGAGCTGGAAAGGTGACATAAAATCATGTCCAAGCACGCGATATTATGCACATTTTCTAGTCCAAGAC---------------------      
cremanei     GAAAACCGCTTGTTCTTGAGCTAGAAAGGTGACATAAAATCATGTATAACAACGCGATATTATGCACATTTTCTAGACCAAGACATGA---TTTATCGGTTCATC      
celegans     ---AACCGCTTGTTCTTGAACTGGAAGAGTGCCATAAAATCATGACAAAGTACGTGATATTATGCACATTTTCTAGTTCAAGACTTGA---GAAATCGGTT----      
cbrenneri     GTAAACCGCTTGCTCTTGAGCTGGAAAGGTGACATAAAATCATGTCAGAGAACGCGATATTATGCACATTTTCTAGTCCAAGACTTGA---TTTACCGGTTTAC-      
cjaponica     --GAACCGCTTG-TCTTGAGCTGGAAAAGTGCTATAAAATCGAGT---AATTTACGATATTATGCACATTTTCTAGTTCAAGACTTGACGCCCTATTGGTTC---      
                   ****** ** ***  ***  ********  *    *      *********************  ******                           
 -----            ------------------------------------------------------------------------                     -----NM_001047975
 -----            ------------------------------------------------------------------------                     -----NM_001047939
 -----            ------------------------------------------------------------------------                     -----NM_006389
 +++++            ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++                     +++++NM_001011629
 -----            ------------------------------------------------------------------------                     -----NM_001002681
 -----            ------------------------------------------------------------------------                     -----NM_068373
 -----            ------------------------------------------------------------------------                     -----NM_075396
cbriggsae                 .(((((..(((((((((((.(((((.(((.(((......))).))).)))))))).))))))))..))))).                          1.000 -26.30
cremanei     ...(((((..((.(((((..(((((((((((.(((((.(((.(((......))).))).)))))))).))))))))..)))))))...   .....)))))....     0.973 -28.70
celegans        (((((((((.((((((((((((((((((.(((((.((((((........)))))).)))))))).)))))))))))))))..)))   )....)))))         0.948 -38.20
cbrenneri     ((((((((.....(((((..(((((((((((.(((((.(((.(((......))).))).)))))))).))))))))..))))).....   .....))))))))      0.991 -33.26
cjaponica       (((((((..( (((((((((((((((((((.((((.((((((.   ...)).)))).)))))))).)))))))))))))))).....))......)))))        0.903 -36.80

cbriggsaechromosome:chrII:8572396:8572467:1Opposite_strand|Intronic_coding|NM_001047975|LOC683871 ## Opposite_strand|Intronic_non-coding|NM_006389|HYOU1 ## Same_strand|Intronic_coding|NM_001011629|Mblk-1 ## {Repeats: no} ## {MIR: cbr-mir-60}
cremaneichromosome:chrUn:132859258:132859359:1intergenic
celeganschromosome:chrII:6328650:6328744:-1intergenic ## {MIR: cel-mir-60}
cbrennerichromosome:chrUn:156677439:156677539:1intergenic
cjaponicachromosome:chrUn:130421852:130421947:1intergenic


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