logoSmall RNA from different tissues of two rat strains.

miR-Intess™


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rno-mir-17

rno-mir-17

Cloning frequencies
absoluteT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-17 5arm3956.66738764641.66743502358120616345653099995.6675832.333
rno-mir-17 3arm33030229832021251566250377325664
normalizedT1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
rno-mir-17 5arm0.1320.1690.2510.2581.1491.5620.2690.2790.6590.388
rno-mir-17 3arm0.0110.0130.0160.0190.1030.1190.0190.0200.0210.044
rno-mir-17 relative cloning frequencies

sblock12719 (miRBase rno-mir-17-2) [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-17-20.001nono0.42/0.5618/25/0.560.0
0.3
1.4
2.2
34793
158
0
0
10
8
0
0
10
9
3
4
5arm
3arm
2
2
nd
nd
0.14
0.06
1
1
810581023
Clusters
Located in cluster 86: rno-mir-363, rno-mir-92a, rno-mir-19b, rno-mir-20b, hsa-mir-18b, rno-mir-17
Families
Member of family miR-106b/17/20a/20b/93 (seed AAAGUGC): rno-mir-20b, rno-mir-17, rno-mir-106b, rno-mir-93, rno-mir-17, rno-mir-20a, block1599388_cand
sblock12719 hairpin
  readsmiRBase family seed
seed     ---------------------------AAAGUGC-------------------------------------------------------------------------------     78695miR-106b/17/20a/20b/93
seed     ----------------------------AAGUGCU------------------------------------------------------------------------------     1725miR-291a
seed     --------------------------CAAAGUG--------------------------------------------------------------------------------     292novel
seed     -----------------------------------------------------------------CUGCACU-----------------------------------------     150novel
seed     ----------------------------------------------------------------ACUGCAC------------------------------------------     101novel
seed     ------------------------------GUGCUUA----------------------------------------------------------------------------     30novel
seed     -----------------------------AGUGCUU-----------------------------------------------------------------------------     23novel
seed     -------------------------------UGCUUAC---------------------------------------------------------------------------     19novel
seed     ---------------------------------CUUACAG-------------------------------------------------------------------------     12novel
seed     ---------------------------------------------------------------UACUGCA-------------------------------------------     8novel
seed     ------------------------------------------------------------------UGCACUG----------------------------------------     2novel
seed     --------------------------------GCUUACA--------------------------------------------------------------------------     1novel
  lencloning frequencies
   T1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
      --------------------------CAAAGTGCTTACAGTGCAG--------------------------------------------------------------------     191620152319331826915588751292179637632470
      --------------------------CAAAGTGCTTACAGTGCAGGTAGC---------------------------------------------------------------     2453753448890735724380800113523231488
      --------------------------CAAAGTGCTTACAGTGCAGGT------------------------------------------------------------------     21728783485305504827004578911456534
      --------------------------CAAAGTGCTTACAGTGCAGGTA-----------------------------------------------------------------     22569545372490252817324057461073523
      --------------------------CAAAGTGCTTACAGTGCAGG-------------------------------------------------------------------     202131941841461245991151219456270
      --------------------------CAAAGTGCTTACAGTGCA---------------------------------------------------------------------     1856517986335321436813176
      ---------------------------AAAGTGCTTACAGTGCAGGTAGC---------------------------------------------------------------     232515214822223328607554
rno-miR-17-5p     --------------------------CAAAGTGCTTACAGTGCAGGTAG----------------------------------------------------------------     232429874413312618354938
      ---------------------------AAAGTGCTTACAGTGCAGGT------------------------------------------------------------------     20810251712111816182628
      ---------------------------AAAGTGCTTACAGTGCAG--------------------------------------------------------------------     1855141276686161814
      ---------------------------AAAGTGCTTACAGTGCAGGTA-----------------------------------------------------------------     218481476495122415
      -------------------------TCAAAGTGCTTACAGTGCAG--------------------------------------------------------------------     2022411404151071
      ---------------------------AAAGTGCTTACAGTGCAGG-------------------------------------------------------------------     19317432242625
      -------------------------TCAAAGTGCTTACAGTGCAGGT------------------------------------------------------------------     2233632618-553
      ----------------------------------------------------------------ACTGCACTGCAAGCACTTCTTAC--------------------------     23111-2035--21
      ----------------------------------------------------------------ACTGCACTGCAAGCACTTCTT----------------------------     211--41216--24
      -------------------------TCAAAGTGCTTACAGTGC----------------------------------------------------------------------     18-11-1813--32
      -------------------------TCAAAGTGCTTACAGTGCAGG-------------------------------------------------------------------     211222109-212
      ---------------------------------------------------------------TACTGCACTGCAAGCACT--------------------------------     18----235---1
      ---------------------------------------------------------------TACTGCACTGCAAGCACTTCT-----------------------------     211--11412--1-
      ----------------------------------------------------------------ACTGCACTGCAAGCACTTCT-----------------------------     201---1214---1
      ---------------------------AAAGTGCTTACAGTGCAGGTAG----------------------------------------------------------------     22--3177-112
      ---------------------------------------------------------------TACTGCACTGCAAGCACTTCTT----------------------------     22--1-87--2-
      -----------------------------AGTGCTTACAGTGCAGGTAGC---------------------------------------------------------------     211-3312-123
      -------------------------TCAAAGTGCTTACAGTGCAGGTA-----------------------------------------------------------------     23122232-111
      ---------------------------------------------------------------TACTGCACTGCAAGCACTTC------------------------------     20----75---1
      -------------------------TCAAAGTGCTTACAGTGCA---------------------------------------------------------------------     191---2711-1
      ----------------------------------------------------------------ACTGCACTGCAAGCACTTC------------------------------     192--244----
      --------------------------------GCTTACAGTGCAGGTAGC---------------------------------------------------------------     18-1-133-112
      ------------------------------GTGCTTACAGTGCAGGTAGC---------------------------------------------------------------     201132211-1-
      --------------------------CAAAGTGCTTACAGTGCAGGTAGCT--------------------------------------------------------------     25--2222-11-
      ----------------------------AAGTGCTTACAGTGCAGGTAGC---------------------------------------------------------------     22----21-15-
      -----------------------------AGTGCTTACAGTGCAGGTAG----------------------------------------------------------------     20-1321---1-
      ----------------------------AAGTGCTTACAGTGCAGGT------------------------------------------------------------------     192-113-----
      ---------------------------------------------------------------TACTGCACTGCAAGCACTTCTTAC--------------------------     24----41----
      ------------------------------GTGCTTACAGTGCAGGTA-----------------------------------------------------------------     18----11--21
      ----------------------------AAGTGCTTACAGTGCAGGTA-----------------------------------------------------------------     201-1-11--1-
      ---------------------------------------------------------------TACTGCACTGCAAGCACTT-------------------------------     19----3---1-
      ----------------------------------------------------------------ACTGCACTGCAAGCACTTCTTA---------------------------     22----31----
      -----------------------------AGTGCTTACAGTGCAGGTA-----------------------------------------------------------------     1911--1-1---
      ----------------------------------------------------------------ACTGCACTGCAAGCACTTCTTACA-------------------------     24---111----
      ---------------------------------------------------------------TACTGCACTGCAAGCACTTCTTA---------------------------     23-----3----
      ----------------------------------------------------------------ACTGCACTGCAAGCACTT-------------------------------     18---1-2----
      --------------------------------------------------------------CTACTGCACTGCAAGCACTTCT-----------------------------     22----11----
      --------------------------------------------------------------CTACTGCACTGCAAGCAC---------------------------------     18----11----
      ------------------------------GTGCTTACAGTGCAGGTAG----------------------------------------------------------------     19---1-----1
      ----------------------------AAGTGCTTACAGTGCAGG-------------------------------------------------------------------     18----11----
      -----------------------------AGTGCTTACAGTGCAGGT------------------------------------------------------------------     18-1-1------
      --------------------------------------------------------------CTACTGCACTGCAAGCACTTC------------------------------     21---11-----
      --------------------------------------------------------------CTACTGCACTGCAAGCACTTCTT----------------------------     23----11----
      -------------------------------TGCTTACAGTGCAGGTAGC---------------------------------------------------------------     19----1-----
      -----------------------------------------------------------------CTGCACTGCAAGCACTTCTTA---------------------------     21-----1----
      -----------------------------------------------------------------CTGCACTGCAAGCACTTCT-----------------------------     19----1-----
rat     ----------------TTGGCCATGTCAAAGTGCTTACAGTGCAGGTAGCTTCTTGA--GATCTACTGCACTGCAAGCACTTCTTACATTACCATG-----------------      
human     GCTACAGGAATAGGCCTTGGCCATGTAAAAGTGCTTACAGTGCAGGTAGCTTTTTGA--GATCTACTGCAATGTAAGCACTTCTTACATTACCATGGTGATTTAGTCAATGGC      
mouse     --AACAAGCTCGGATCCTAGTAGTGCCAAAGTGCTCATAGTGCAGGTAGTTTTTATACCACTCTACTGCAGTGTGAGCACTTCTAGTACTCCTGGATCAACCAAGGTCTTGTT      
                       * *   **  ******** * *********** ** *  *    ********* **  *********   * * *                           
 .....                >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>  >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>                 .....ENSRNOT00000053715 ENSRNOG00000035592 rno-mir-17-2
rat                     .(((..((((..((((((((.((((((((.(((..((....  )).))))))))))).))))))))...))))..)))..                      1.000 -32.40
human     ((((...((((..(((.(((..(((((((((((((((((.((((.((((.((.....  )).)))))))).))))))))))).))))))..))).))).))))......))))     0.852 -40.50
mouse       ((((((.((.(((((.((.(((((..(((((((((((.((((.((((.............)))))))).)))))))))))...))))).)))))))......)).))))))     0.949 -45.22

ratchromosome:X:139741444:139741521:-1Same_strand|Exonic_non-coding|ENSRNOT00000053715|ENSRNOG00000035592 ## ENSRNOG00000035592|miRNA|rno-mir-17-2|rno-mir-17-2 [Source:miRBase;Acc:MI0006131] ## {MIR: rno-mir-17-2}
humanchromosome:X:133131878:133131988:-1Same_strand|Boundary_non-coding|ENST00000384870|ENSG00000207602|miRNA|hsa-mir-106a [Source:miRBase;Acc:MI0000113] ## {MIR: hsa-mir-106a}
mousechromosome:X:50095272:50095382:-1Same_strand|Boundary_non-coding|ENSMUST00000102087|ENSMUSG00000076041|miRNA|mmu-mir-20b [Source:miRBase;Acc:MI0003536] ## {MIR: mmu-mir-20b}


sblock4666 (miRBase rno-mir-17-1) [miRNAknown_lenNOK_cloningHIGH_multiarm_DicerNOK_randfoldOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase rno-mir-17-10.001nono0.42/0.5918/26/0.500.0
0.0
0.4
0.8
26841
2484
0
0
10
10
0
0
13
13
7
5
5arm
3arm
2
2
nd
nd
0.16
0.14
1
1
754281010
Clusters
Located in cluster 26: rno-mir-17, rno-mir-18a, rno-mir-19a, rno-mir-20a, rno-mir-19b, rno-mir-92a
Families
Member of family miR-106b/17/20a/20b/93 (seed AAAGUGC): rno-mir-20b, rno-mir-17, rno-mir-106b, rno-mir-93, rno-mir-17, rno-mir-20a, block1599388_cand
sblock4666 hairpin
  readsmiRBase family seed
seed     ------------------------------AAAGUGC--------------------------------------------------------------------------     67767miR-106b/17/20a/20b/93
seed     -------------------------------------------------------------------CUGCAGU-------------------------------------     6156miR-17/20b
seed     -------------------------------AAGUGCU-------------------------------------------------------------------------     1028miR-291a
seed     -----------------------------CAAAGUG---------------------------------------------------------------------------     297novel
seed     --------------------------------------------------------------------UGCAGUG------------------------------------     76novel
seed     ------------------------------------------------------------------ACUGCAG--------------------------------------     62novel
seed     --------------------------------AGUGCUU------------------------------------------------------------------------     16novel
seed     ---------------------------------GUGCUUA-----------------------------------------------------------------------     14novel
seed     ----------------------------------UGCUUAC----------------------------------------------------------------------     10novel
seed     ----------------------------------------------------------------------CAGUGAA----------------------------------     2novel
  lencloning frequencies
   T1S1T1S2T2S1T2S2T3S1T3S2T4S1T4S2T5S1T5S2
      -----------------------------CAAAGTGCTTACAGTGCAG---------------------------------------------------------------     191620152319331826915588751292179637632470
      -----------------------------CAAAGTGCTTACAGTGCAGGT-------------------------------------------------------------     21728783485305504827004578911456534
      -----------------------------CAAAGTGCTTACAGTGCAGGTA------------------------------------------------------------     22569545372490252817324057461073523
      -----------------------------CAAAGTGCTTACAGTGCAGGTAGT----------------------------------------------------------     241641839284371026984230304598313
      -----------------------------CAAAGTGCTTACAGTGCAGG--------------------------------------------------------------     202131941841461245991151219456270
      ------------------------------------------------------------------ACTGCAGTGAAGGCACTTGTG------------------------     21102911071227574779315262215
      -----------------------------CAAAGTGCTTACAGTGCA----------------------------------------------------------------     1856517986335321436813176
      ------------------------------------------------------------------ACTGCAGTGAAGGCACTTG--------------------------     1951565560369284526384111
      ------------------------------------------------------------------ACTGCAGTGAAGGCACTTGT-------------------------     2083815840339258375743105
      ------------------------------------------------------------------ACTGCAGTGAAGGCACTT---------------------------     1832364338227214354610380
rno-miR-17-5p     -----------------------------CAAAGTGCTTACAGTGCAGGTAG-----------------------------------------------------------     232429874413312618354938
rno-miR-17-3p     ------------------------------------------------------------------ACTGCAGTGAAGGCACTTGTGG-----------------------     22181918241229022281756
      ------------------------------------------------------------------ACTGCAGTGAAGGCACTTGTGGC----------------------     233012102414489717369
      ------------------------------AAAGTGCTTACAGTGCAGGT-------------------------------------------------------------     20810251712111816182628
      ------------------------------AAAGTGCTTACAGTGCAG---------------------------------------------------------------     1855141276686161814
      ------------------------------AAAGTGCTTACAGTGCAGGTA------------------------------------------------------------     218481476495122415
      ----------------------------TCAAAGTGCTTACAGTGCAG---------------------------------------------------------------     2022411404151071
      ------------------------------AAAGTGCTTACAGTGCAGG--------------------------------------------------------------     19317432242625
      ------------------------------AAAGTGCTTACAGTGCAGGTAGT----------------------------------------------------------     231388151954115
      -----------------------------CAAAGTGCTTACAGTGCAGGTAGTG---------------------------------------------------------     253-2617225599
      ----------------------------TCAAAGTGCTTACAGTGCAGGT-------------------------------------------------------------     2233632618-553
      -------------------------------------------------------------------CTGCAGTGAAGGCACTTGTG------------------------     2011--16161123
      ----------------------------TCAAAGTGCTTACAGTGC-----------------------------------------------------------------     18-11-1813--32
      ----------------------------TCAAAGTGCTTACAGTGCAGG--------------------------------------------------------------     211222109-212
      ------------------------------AAAGTGCTTACAGTGCAGGTAG-----------------------------------------------------------     22--3177-112
      -----------------------------------------------------------------TACTGCAGTGAAGGCACTTGTG------------------------     221111611422
      -----------------------------------------------------------------TACTGCAGTGAAGGCACT----------------------------     18-1119211-3
      ------------------------------------------------------------------ACTGCAGTGAAGGCACTTGTGGCA---------------------     24322-53-1-3
      ----------------------------TCAAAGTGCTTACAGTGCAGGTA------------------------------------------------------------     23122232-111
      -------------------------------------------------------------------CTGCAGTGAAGGCACTTG--------------------------     181---37-2-1
      ----------------------------TCAAAGTGCTTACAGTGCA----------------------------------------------------------------     191---2711-1
      -----------------------------------------------------------------TACTGCAGTGAAGGCACTTGT-------------------------     211---3--1-4
      --------------------------------AGTGCTTACAGTGCAGGTAG-----------------------------------------------------------     20-1321---1-
      -------------------------------------------------------------------CTGCAGTGAAGGCACTTGTGG-----------------------     21--1-14--1-
      -----------------------------------------------------------------TACTGCAGTGAAGGCACTT---------------------------     19----1211-2
      -------------------------------AAGTGCTTACAGTGCAGGT-------------------------------------------------------------     192-113-----
      -------------------------------------------------------------------CTGCAGTGAAGGCACTTGTGGC----------------------     22-1--13-1--
      -------------------------------------------------------------------CTGCAGTGAAGGCACTTGT-------------------------     191---14----
      -----------------------------------------------------------------TACTGCAGTGAAGGCACTTG--------------------------     20----42----
      ----------------------------TCAAAGTGCTTACAGTGCAGGTAGT----------------------------------------------------------     25--3---1--1
      ------------------------------AAAGTGCTTACAGTGCAGGTAGTG---------------------------------------------------------     24----3-1--1
      -------------------------------AAGTGCTTACAGTGCAGGTA------------------------------------------------------------     201-1-11--1-
      ---------------------------------GTGCTTACAGTGCAGGTA------------------------------------------------------------     18----11--21
      --------------------------------AGTGCTTACAGTGCAGGTA------------------------------------------------------------     1911--1-1---
      ---------------------------------GTGCTTACAGTGCAGGTAGT----------------------------------------------------------     20---1-2----
      ---------------------------------------------------------------------GCAGTGAAGGCACTTGTG------------------------     18----1--1--
      -------------------------------AAGTGCTTACAGTGCAGG--------------------------------------------------------------     18----11----
      --------------------------------AGTGCTTACAGTGCAGGT-------------------------------------------------------------     18-1-1------
      -------------------------------AAGTGCTTACAGTGCAGGTAGT----------------------------------------------------------     22-----1---1
      ---------------------------------GTGCTTACAGTGCAGGTAG-----------------------------------------------------------     19---1-----1
      -----------------------------------------------------------------TACTGCAGTGAAGGCACTTGTGG-----------------------     23-------1--
      -----------------------------CAAAGTGCTTACAGTGCAGGTAGTGG--------------------------------------------------------     26---1------
      -------------------------------------------------------------------CTGCAGTGAAGGCACTTGTGGCA---------------------     23---------1
      -------------------------------------------------------------------CTGCAGTGAAGGCACTTGTGGCAT--------------------     24---------1
rat     ----------------GTCAGGATAATGTCAAAGTGCTTACAGTGCAGGTAGTGGTGTGTGCATCTACTGCAGTGAAGGCACTTGTGGCATTGTGCTGAC-----------      
human     CTGAAGATTGTGACCAGTCAGAATAATGTCAAAGTGCTTACAGTGCAGGTAGTGATATGTGCATCTACTGCAGTGAAGGCACTTGTAGCATTATGGTGACAGCTGCCTCGG      
mouse     ----------------GTCAGAATAATGTCAAAGTGCTTACAGTGCAGGTAGTGATGTGTGCATCTACTGCAGTGAGGGCACTTGTAGCATTATGCTGAC-----------      
                      ***** ******************************** * ******************* ********* ***** ** ****                 
 .....                >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>           .....ENSRNOT00000053780 ENSRNOG00000035657 rno-mir-17-1
rat                     (((((.(((((((((((((((((.((.(((((.....((((....))))..))))).)).)))))))).))))))))).)))))                1.000 -43.70
human     ((((((.((((.((((.......((((((..((((((((.((.((((.((((((.......)).)))))))).)).))))))))...)))))))))).))))))...))))     0.937 -37.31
mouse                     (((((.(((((((..(((((((..((.(((((.....((((....))))..))))).))..)))))))...))))))).)))))                1.000 -39.10

ratchromosome:15:99853735:99853818:1Same_strand|Exonic_non-coding|ENSRNOT00000053780|ENSRNOG00000035657 ## Same_strand|Boundary_non-coding|ENSRNOT00000053780|ENSRNOG00000035657 ## ENSRNOG00000035657|miRNA|rno-mir-17-1|rno-mir-17-1 [Source:miRBase;Acc:MI0000845] ## {MIR: rno-mir-17-1}
humanchromosome:13:90800844:90800954:1Same_strand|Exonic_non-coding|ENST00000400280|ENSG00000215417|protein_coding|Putative microRNA host gene 1 protein [Source:UniProtKB/Swiss-Prot;Acc:Q75NE6] ## Same_strand|Intronic_coding|ENST00000400282|ENSG00000215417|protein_coding|Putative microRNA host gene 1 protein [Source:UniProtKB/Swiss-Prot;Acc:Q75NE6] ## Same_strand|Boundary_non-coding|ENST00000385012|ENSG00000207745|miRNA|hsa-mir-17 [Source:miRBase;Acc:MI0000071] ## {MIR: hsa-mir-17}
mousechromosome:14:115442893:115442976:1Same_strand|Exonic_non-coding|ENSMUST00000083574|ENSMUSG00000065508|miRNA|mmu-mir-17 [Source:miRBase;Acc:MI0000687] ## {MIR: mmu-mir-17}


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