logoSmall RNA from different tissues of two rat strains.

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rno-mir-7a

rno-mir-7a

Cloning frequencies
absoluteT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-7a 5arm103917420.500641103135834725154381289317
rno-mir-7a 3arm4149253680841315655342563610498
normalizedT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-7a 5arm0.3450.3240.0350.0610.1750.3580.0120.0200.0190.021
rno-mir-7a 3arm0.1380.1110.0040.0050.0640.0500.0270.0300.0400.033
rno-mir-7a relative cloning frequencies

sblock2004 (miRBase rno-mir-7a-2) [miRNAknown_lenNOK_cloningHIGH_multiarm_DicerOK_randfoldOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase rno-mir-7a-20.001nono0.29/0.6118/26/0.580.0
0.0
1.7
0.3
22347
502
0
0
10
5
0
0
13
11
1
3
5arm
3arm
2
2
nd
nd
0.21
0.18
3
2
293711022
Families
Member of family miR-7a/7b (seed GGAAGAC): rno-mir-7a, rno-mir-7a
sblock2004 hairpin
  readsmiRBase family seed
seed     ---------------------------------GGAAGAC-----------------------------------------------------------------------------------     28415miR-7a/7b
seed     -------------------------------------------------------------------------AACAAGU-------------------------------------------     697novel
seed     ----------------------------------GAAGACU----------------------------------------------------------------------------------     200novel
seed     --------------------------------------------------------------------------ACAAGUC------------------------------------------     44novel
seed     -----------------------------------AAGACUA---------------------------------------------------------------------------------     8novel
seed     --------------------------------UGGAAGA------------------------------------------------------------------------------------     4novel
seed     ------------------------------------AGACUAG--------------------------------------------------------------------------------     2novel
seed     ----------------------------------------------------------------------------AAGUCCC----------------------------------------     1novel
  lencloning frequencies
   T1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
      --------------------------------TGGAAGACTAGTGATTTTG------------------------------------------------------------------------     192159173313426910541190371066363
      --------------------------------TGGAAGACTAGTGATTTT-------------------------------------------------------------------------     181801132812120876096730826428
      --------------------------------TGGAAGACTAGTGATTTTGT-----------------------------------------------------------------------     201687110211718565585024713248
      --------------------------------TGGAAGACTAGTGATTTTGTTGTT-------------------------------------------------------------------     241678107813314330855026504780
rno-miR-7a     --------------------------------TGGAAGACTAGTGATTTTGTTGT--------------------------------------------------------------------     231497971395526147321213245
      --------------------------------TGGAAGACTAGTGATTTTGTTG---------------------------------------------------------------------     2210407975811935450412323432
      --------------------------------TGGAAGACTAGTGATTTTGTT----------------------------------------------------------------------     21353258173210411827914
      ------------------------------------------------------------------------CAACAAGTCCCAGTCTGCCACA-----------------------------     22100247--1-----
      ------------------------------------------------------------------------CAACAAGTCCCAGTCTGCCAC------------------------------     2131155--2-----
      ------------------------------------------------------------------------CAACAAGTCCCAGTCTGCCA-------------------------------     201454------1-
      ------------------------------------------------------------------------CAACAAGTCCCAGTCTGCC--------------------------------     191153----1---
      ---------------------------------GGAAGACTAGTGATTTTGTTGTT-------------------------------------------------------------------     232014-265-1--
      ---------------------------------GGAAGACTAGTGATTTTGTTGT--------------------------------------------------------------------     221415--74----
      --------------------------------TGGAAGACTAGTGATTTTGTTGTTG------------------------------------------------------------------     251414--441--1
      ---------------------------------GGAAGACTAGTGATTTTGT-----------------------------------------------------------------------     1991112841-1-
      ---------------------------------GGAAGACTAGTGATTTTG------------------------------------------------------------------------     181442338---1
      -------------------------------------------------------------------------AACAAGTCCCAGTCTGCCACA-----------------------------     211511--------
      ---------------------------------GGAAGACTAGTGATTTTGTTG---------------------------------------------------------------------     2183-532-11-
      ------------------------------------------------------------------------CAACAAGTCCCAGTCTGC---------------------------------     18615--------
      ---------------------------------GGAAGACTAGTGATTTTGTT----------------------------------------------------------------------     20371-33----
      -------------------------------------------------------------------------AACAAGTCCCAGTCTGCCAC------------------------------     20210--------
      ------------------------------------------------------------------------CAACAAGTCCCAGTCTGCCACAT----------------------------     23-6--------
      --------------------------------TGGAAGACTAGTGATTTTGTTGTTGT-----------------------------------------------------------------     26-3------11
      ----------------------------------GAAGACTAGTGATTTTGT-----------------------------------------------------------------------     1821--------
      -------------------------------------------------------------------------AACAAGTCCCAGTCTGCC--------------------------------     1821--------
      ----------------------------------GAAGACTAGTGATTTTGTT----------------------------------------------------------------------     1911--------
      -------------------------------------------------------------------------AACAAGTCCCAGTCTGCCACAT----------------------------     22-2--------
      ----------------------------------GAAGACTAGTGATTTTGTTGT--------------------------------------------------------------------     21-2--------
      -------------------------------CTGGAAGACTAGTGATTT--------------------------------------------------------------------------     18-1--------
      -------------------------------CTGGAAGACTAGTGATTTTGT-----------------------------------------------------------------------     211---------
      ---------------------------------------------------------------------------CAAGTCCCAGTCTGCCAC------------------------------     181---------
      ----------------------------------GAAGACTAGTGATTTTGTTG---------------------------------------------------------------------     201---------
      -------------------------------CTGGAAGACTAGTGATTTTGTTGT--------------------------------------------------------------------     24----1-----
      -----------------------------------AAGACTAGTGATTTTGTTGTT-------------------------------------------------------------------     21-1--------
      -----------------------------------AAGACTAGTGATTTTGTTG---------------------------------------------------------------------     19-1--------
      -------------------------------CTGGAAGACTAGTGATTTTGTTGTT-------------------------------------------------------------------     25-1--------
      -------------------------------------------------------------------------AACAAGTCCCAGTCTGCCA-------------------------------     191---------
rat     -------------------GACCAGCCCTGTCTGGAAGACTAGTGATTTTGTTGTTGTGT--CTGTGTCCAACAACAAGTCCCAGTCTGCCACATGGTGTTGGTC------------------      
human     CCTGGATACAGAGTGGACCGGCTGGCCCCATCTGGAAGACTAGTGATTTTGTTGTTGTCTTACTGCGCTCAACAACAAATCCCAGTCTACCTAATGGTGCCAGCCATCGCAGCGGGGTGCAGG      
mouse     -------------------GGCCAGCCCCGTTTGGAAGACTAGTGATTTTGTTGTTGTGTCTCTGTATCCAACAACAAGTCCCAGTCTGCCACATGGTGCTGGTCATTTCAGCAGCT------      
                         * *  ****  * ************************** *  ***    ********* ********* **  ******   * *                        
 >>>>>                   >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>  >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>                  >>>>>ENSRNOT00000053600 ENSRNOG00000035477 rno-mir-7a-2
rat                        (((((((.((((.(((.(((((...((.((((((((((...  .......))))))))))))..))))).))).)))).)))))))                       1.000 -32.70
human     ((((.((.....((((...(((((((.((((..((.(((((...((.((((((((((............))))))))))))..))))).))..)))).))))))).))))......)).))))     0.925 -48.90
mouse                        (((((((.((((.(((.(((((...((.((((((((((.((......)).))))))))))))..))))).))).)))).)))))))............           0.997 -39.50

ratchromosome:1:134607269:134607352:1Same_strand|Exonic_non-coding|ENSRNOT00000053600|ENSRNOG00000035477 ## ENSRNOG00000035477|miRNA|rno-mir-7a-2|rno-mir-7a-2 [Source:miRBase;Acc:MI0000836] ## {MIR: rno-mir-7a-2}
humanchromosome:15:86956059:86956181:1Same_strand|Boundary_non-coding|ENST00000384970|ENSG00000207703|miRNA|hsa-mir-7-2 [Source:miRBase;Acc:MI0000264] ## {MIR: hsa-mir-7-2}
mousechromosome:7:86033168:86033265:1Same_strand|Boundary_non-coding|ENSMUST00000083675|ENSMUSG00000065609|miRNA|mmu-mir-7a-2 [Source:miRBase;Acc:MI0000729] ## {MIR: mmu-mir-7a-2}


sblock5247 (miRBase rno-mir-7a-1) [miRNAknown_lenNOK_cloningHIGH_multiarm_DicerOK_randfoldOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase rno-mir-7a-10.001nono0.29/0.5018/26/0.650.0
0.0
1.7
0.8
22347
3955
0
0
10
10
0
0
18
15
5
9
5arm
3arm
2
2
nd
nd
0.12
0.05
1
1
389761022
Families
Member of family miR-7a/7b (seed GGAAGAC): rno-mir-7a, rno-mir-7a
sblock5247 hairpin
  readsmiRBase family seed
seed     ----------------------------GGAAGAC---------------------------------------------------------------------------------     28670miR-7a/7b
seed     ----------------------------------------------------------------------AACAAAU---------------------------------------     8346novel
seed     -----------------------------------------------------------------------ACAAAUC--------------------------------------     1535novel
seed     -----------------------------GAAGACU--------------------------------------------------------------------------------     204novel
seed     ------------------------------------------------------------------------CAAAUCA-------------------------------------     192novel
seed     --------------------------------------------------------------------ACAACAA-----------------------------------------     9novel
seed     ------------------------------AAGACUA-------------------------------------------------------------------------------     8novel
seed     -----------------------------------------------------------ACUAAGA--------------------------------------------------     2novel
seed     ---------------------------------------------------------------------CAACAAA----------------------------------------     2miR-7a*
seed     -------------------------------AGACUAG------------------------------------------------------------------------------     2novel
seed     ---------------------------UGGAAGA----------------------------------------------------------------------------------     2novel
seed     ------------------------------------------------------------------CGACAAC-------------------------------------------     1novel
seed     -----------------------------------------------------------------ACGACAA--------------------------------------------     1novel
seed     ----------------------------------------------------------AACUAAG---------------------------------------------------     1novel
seed     -------------------------------------------------------------------GACAACA------------------------------------------     1novel
  lencloning frequencies
   T1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
      ---------------------------TGGAAGACTAGTGATTTTG----------------------------------------------------------------------     192159173313426910541190371066363
      ---------------------------TGGAAGACTAGTGATTTT-----------------------------------------------------------------------     181801132812120876096730826428
      ---------------------------TGGAAGACTAGTGATTTTGT---------------------------------------------------------------------     201687110211718565585024713248
      ---------------------------TGGAAGACTAGTGATTTTGTTGTT-----------------------------------------------------------------     241678107813314330855026504780
rno-miR-7a     ---------------------------TGGAAGACTAGTGATTTTGTTGT------------------------------------------------------------------     231497971395526147321213245
      ---------------------------------------------------------------------CAACAAATCACAGTCTGCCATA-------------------------     22143263731370193111180256152
      ---------------------------TGGAAGACTAGTGATTTTGTTG-------------------------------------------------------------------     2210407975811935450412323432
      ---------------------------------------------------------------------CAACAAATCACAGTCTGCCA---------------------------     20719483314338916673127124144
      ---------------------------------------------------------------------CAACAAATCACAGTCTGCCAT--------------------------     216843571820610052818369
      ---------------------------TGGAAGACTAGTGATTTTGTT--------------------------------------------------------------------     21353258173210411827914
      ----------------------------------------------------------------------AACAAATCACAGTCTGCCATA-------------------------     213221193-635222432916
      ---------------------------------------------------------------------CAACAAATCACAGTCTGCCATAT------------------------     2324885--864519224936
      ----------------------------------------------------------------------AACAAATCACAGTCTGCCA---------------------------     1911069191339138211119
      ---------------------------------------------------------------------CAACAAATCACAGTCTGCC----------------------------     198754425015671633
      ---------------------------TGGAAGACTAGTGATTTTGTTGTTT----------------------------------------------------------------     2575611884543-944
      ----------------------------------------------------------------------AACAAATCACAGTCTGCCATAT------------------------     2290442225202141711
      ----------------------------------------------------------------------AACAAATCACAGTCTGCCAT--------------------------     2092505329171214115
      ---------------------------------------------------------------------CAACAAATCACAGTCTGC-----------------------------     187038411271643158
      -----------------------------------------------------------------------ACAAATCACAGTCTGCCATAT------------------------     2145201-101061633
      ----------------------------GGAAGACTAGTGATTTTGTTGTT-----------------------------------------------------------------     232014-265-1--
      ----------------------------------------------------------------------AACAAATCACAGTCTGCC----------------------------     18236--5231-1
      ----------------------------GGAAGACTAGTGATTTTGTTGT------------------------------------------------------------------     221415--74----
      ----------------------------GGAAGACTAGTGATTTTGT---------------------------------------------------------------------     1991112841-1-
      -----------------------------------------------------------------------ACAAATCACAGTCTGCCATA-------------------------     20214--312221
      ----------------------------GGAAGACTAGTGATTTTG----------------------------------------------------------------------     181442338---1
      ---------------------------TGGAAGACTAGTGATTTTGTTGTTTT---------------------------------------------------------------     261112--6--11-
      -----------------------------------------------------------------------ACAAATCACAGTCTGCCAT--------------------------     19724151221-
      ----------------------------GGAAGACTAGTGATTTTGTTG-------------------------------------------------------------------     2183-532-11-
      -----------------------------------------------------------------------ACAAATCACAGTCTGCCA---------------------------     18533-4--2--
      ----------------------------GGAAGACTAGTGATTTTGTT--------------------------------------------------------------------     20371-33----
      ---------------------------------------------------------------------CAACAAATCACAGTCTGCCATATG-----------------------     2442--11-12-
      ----------------------------GGAAGACTAGTGATTTTGTTGTTT----------------------------------------------------------------     2421--1-----
      -----------------------------GAAGACTAGTGATTTTGT---------------------------------------------------------------------     1821--------
      -------------------------------------------------------------------GACAACAAATCACAGTCTGCCA---------------------------     22-2---1----
      -------------------------------------------------------------------GACAACAAATCACAGTCT-------------------------------     182---------
      ----------------------------------------------------------------------AACAAATCACAGTCTGCCATATG-----------------------     23-2--------
      -------------------------------------------------------------------GACAACAAATCACAGTCTGCCAT--------------------------     23-2--------
      -----------------------------GAAGACTAGTGATTTTGTTGT------------------------------------------------------------------     21-2--------
      -------------------------------------------------------------------GACAACAAATCACAGTCTG------------------------------     19-----2----
      -----------------------------GAAGACTAGTGATTTTGTT--------------------------------------------------------------------     1911--------
      --------------------------------------------------------------------ACAACAAATCACAGTCTGC-----------------------------     191---------
      ---------------------------------------------------------TAACTAAGACGACAACAAATCAC------------------------------------     231---------
      ------------------------------AAGACTAGTGATTTTGTTGTT-----------------------------------------------------------------     21-1--------
      --------------------------GTGGAAGACTAGTGATTTT-----------------------------------------------------------------------     19-1--------
      ----------------------------------------------------------------GACGACAACAAATCACAGTCTGCC----------------------------     241---------
      --------------------------------------------------------------------ACAACAAATCACAGTCTGCCATA-------------------------     231---------
      ----------------------------------------------------------AACTAAGACGACAACAAATCAC------------------------------------     22-1--------
      ----------------------------------------------------------AACTAAGACGACAACAAAT---------------------------------------     19-1--------
      --------------------------GTGGAAGACTAGTGATTT------------------------------------------------------------------------     181---------
      ------------------------------AAGACTAGTGATTTTGTTG-------------------------------------------------------------------     19-1--------
      -----------------------------------------------------------------ACGACAACAAATCACAGTCTGCCA---------------------------     24-1--------
      -----------------------------GAAGACTAGTGATTTTGTTG-------------------------------------------------------------------     201---------
      ------------------------------------------------------------------CGACAACAAATCACAGTCT-------------------------------     191---------
rno-miR-7a*     --------------------------------------------------------------------ACAACAAATCACAGTCTGCCAT--------------------------     22----------
rat     ---------TGTTGGCCTAGTTCTGTGTGGAAGACTAGTGATTTTGTTGTTTTTAGATAACTAAGACGACAACAAATCACAGTCTGCCATATGGCACAGGCCA--CCT--------      
human     TTCATTGGATGTTGGCCTAGTTCTGTGTGGAAGACTAGTGATTTTGTTGTTTTTAGATAACTAAATCGACAACAAATCACAGTCTGCCATATGGCACAGGCCATGCCTCTACAGGA      
mouse     -------------GGCCTAGTTCTGTGTGGAAGACTAGTGATTTTGTTGTTTTTAGATAACTAAAACGACAACAAATCACAGTCTGCCATATGGCACAGGCCA--CCTCTACA---      
                   ***************************************************  *************************************  ***              
 +++++         ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++  +++        +++++ENSRNOT00000025980 ENSRNOG00000019113 Hnrpk
 +++++         ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++  +++        +++++ENSRNOT00000025916 ENSRNOG00000019113 Hnrpk
 +++++         ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++  +++        +++++ENSRNOT00000025961 ENSRNOG00000019113 Hnrpk
 .....         >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>  >>>        .....ENSRNOT00000053736 ENSRNOG00000035613 rno-mir-7a-1
rat              ...((((((.((.((((((((.(((((.(((((((.(((((((((((....)))))..)))))))))))))))))).)))))))).))))))))  ...             1.000 -44.00
human     .....((((.((((((((.((.((((((((.(((((.((((.((((((((((((((....)))))..)))))))))))))))))).)))))))).)))))))).)).)))).....     0.987 -48.00
mouse                  (((((.((.((((((((.(((((.((((.((((((((((((((....)))))..)))))))))))))))))).)))))))).))))))).  ........        1.000 -43.70

ratchromosome:17:12204082:12204178:1Same_strand|Intronic_coding|ENSRNOT00000025961|ENSRNOG00000019113 ## Same_strand|Exonic_non-coding|ENSRNOT00000053736|ENSRNOG00000035613 ## ENSRNOG00000035613|miRNA|rno-mir-7a-1|rno-mir-7a-1 [Source:miRBase;Acc:MI0000641] ## ENSRNOG00000019113|protein_coding|Hnrpk|Heterogeneous nuclear ribonucleoprotein K (hnRNP K) (dC stretch- binding protein) (CSBP). [Source:UniProtKB/Swiss-Prot;Acc:P61980] ## {MIR: rno-mir-7a-1}
humanchromosome:9:85774481:85774596:-1Same_strand|Boundary_non-coding|ENST00000376256|ENSG00000165119|protein_coding|Heterogeneous nuclear ribonucleoprotein K (hnRNP K)(Transformation up-regulated nuclear protein)(TUNP) [Source:UniProtKB/Swiss-Prot;Acc:P61978] ## Same_strand|Intronic_coding|ENST00000376268|ENSG00000165119|protein_coding|Heterogeneous nuclear ribonucleoprotein K (hnRNP K)(Transformation up-regulated nuclear protein)(TUNP) [Source:UniProtKB/Swiss-Prot;Acc:P61978] ## {MIR: hsa-mir-7-1}
mousechromosome:13:58494141:58494238:-1Same_strand|Intronic_coding|ENSMUST00000109849|ENSMUSG00000021546|protein_coding|heterogeneous nuclear ribonucleoprotein K Gene [Source:MGI Symbol;Acc:MGI:99894] ## Same_strand|Exonic_non-coding|ENSMUST00000083500|ENSMUSG00000065434|miRNA|mmu-mir-7a-1 [Source:miRBase;Acc:MI0000728] ## {MIR: mmu-mir-7a-1}


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