logoC.briggsae small RNAs

miR-Intess™


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cbr-mir-84

cbr-mir-84

block4324 (miRBase cbr-mir-84) [miRNAknown_cloningOK_shortStem]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase cbr-mir-840.021nono0.45/0.4822/23/1.000.0
0.0
5
0
1
0
38
-44
loop
1
nd
0.22
1
51nana
Families
Member of family miR-241/48/let-7/84 (seed GAGGUAG): cbr-let-7, cbr-mir-48, cbr-mir-241, cbr-mir-84
block4324 hairpin
  readsmiRBase family seed
seed     --------------------------------------------GAGGUAG-----------------------------------------------------------------------------------------------------     5miR-241/48/let-7/84
  lencloning frequencies
   AF16
      -------------------------------------------TGAGGTAGTTTGC-A----------ATGCTGTCG---------------------------------------------------------------------------     235
cbr-miR-84     -------------------------------------------TGAGGTAGTTTGC-A----------ATGCTGTC----------------------------------------------------------------------------     22-
cbriggsae     -----TTGCTATATATTCAGCCGTACTGTCTGAAAATAACATCTGAGGTAGTTTGC-A----------ATGCTGTCGACGTAACTGAAAAGTCAACATCATTCCAACTTC--CTCGGCTGTTCAAAAGGCTA--------------------      
cremanei     -------------------ACGAAACAGTCTAACAGAAGCATCTGAGGTAGTTTGT-A----------ATGCTGTCGACGC-ACTGTAATGTCTACATCATTTCAACTGC--CTCGGCTGTTTTTAGACTTTTGTTTTGTCTCCAGATCTTG      
celegans     -------------------------------------------TGAGGTAGTATGT-A----------ATATTGTAGACTG-TCTATAATGTCCACAATGTTTCAACTAA--CTCG------------------------------------      
cbrenneri     -------------------------------------------TGAGGTAGTTTGGAA----------ATGCTGTCGACGC-ATTGTGATGTCAACAACATTTCAACTAA--CTCG------------------------------------      
ppacificus     GCTGGTTAGCGTATTGATTGTCTGGGAGAGAGAGAGGAAGGGAAGAGGTAGGCGGGAGGAGAGCAGGTAGATCGCTAGCCTCCTCCCGGCCTCTTCCTCCCTCCGCCCTCCACTCAGTTTGTCAAAGGTCAACTACGT--------------      
                                                  *******   *             *    *    *            **  *     * *  *     ***                                           
 -----     --------------------------------------------------- -          ------------------------------------------  --------------------                    -----NM_001095669
 -----     --------------------------------------------------- -          ------------------------------------------  --------------------                    -----NM_001047906
 -----     --------------------------------------------------- -          ------------------------------------------  --------------------                    -----NM_001047906
 +++++     +++++++++++++++++++++++++++++++++++++++++++++++++++ +          ++++++++++++++++++++++++++++++++++++++++++  ++++++++++++++++++++                    +++++NM_001122840
 +++++     +++++++++++++++++++++++++++++++++++++++++++++++++++ +          ++++++++++++++++++++++++++++++++++++++++++  ++++++++++++++++++++                    +++++NM_033150
 +++++     +++++++++++++++++++++++++++++++++++++++++++++++++++ +          ++++++++++++++++++++++++++++++++++++++++++  ++++++++++++++++++++                    +++++NM_001090075
 +++++     +++++++++++++++++++++++++++++++++++++++++++++++++++ +          ++++++++++++++++++++++++++++++++++++++++++  ++++++++++++++++++++                    +++++NM_214509
 +++++     +++++++++++++++++++++++++++++++++++++++++++++++++++ +          ++++++++++++++++++++++++++++++++++++++++++  ++++++++++++++++++++                    +++++NM_007734
 +++++     +++++++++++++++++++++++++++++++++++++++++++++++++++ +          ++++++++++++++++++++++++++++++++++++++++++  ++++++++++++++++++++                    +++++NM_000090
cbriggsae          ..(((.....(((((.(.....).)))))...((((.((((((.((((.(. (          (((.(((.(((...........))).))).))))).)))).)  ))))).)))).....)))..                         1.000 -29.00
cremanei                        (((((((((((((...((((((.(((((((((.(((. (          (((.(((.((((. .......)))).))).)))).)))))))  ))))).))))))))))))...)))))))............     0.973 -40.90
celegans                                                .(((.((((.((. (          (((((((.(((.. ........))).)))))))).)))))).  ))).                                         1.000 -17.40
cbrenneri                                                .(((.((((...(((          (((.(((.((((( (...)).)))).))).)))))).)))).  ))).                                         1.000 -18.50
ppacificus     (((((((.((...(((((...(((((...(((...((.(((((.((((.((((((((((((.((.(((.....))).))))))))))).))))))).)))))))...)))..)))))...)))))..)).))))).))                   0.956 -61.90

cbriggsaechromosome:chrX:762822:762935:-1Opposite_strand|Intronic_coding|NM_001095669|foxp2a ## Same_strand|Intronic_coding|NM_001122840|si:ch211-212m21.5 ## {Repeats: no} ## {MIR: cbr-mir-84}
cremaneichromosome:chrUn:128707146:128707264:1Same_strand|Intronic_coding|NM_212504
celeganschromosome:chrX:16022294:16022447:-1intergenic ## {MIR: cel-mir-84}
cbrennerichromosome:chrUn:19113949:19114102:1Same_strand|Intronic_coding|NM_001030940 ## Opposite_strand|Intronic_coding|NM_007735
ppacificuschromosome:chrUn:132845957:132846094:-1Same_strand|Intronic_coding|NM_203379


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