logoC.elegans small RNAs


miR classification

Alignments

other hairpins

novel_lenNOK (42 loci)

block2684 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.129nono0.42/0.4219/19/0.000.0
0.0
1
0
1
0
11
15
3arm
2
nd
0.21
3
11nana
  readsmiRBase family seed
seed---------------------------------------------------------------------CAGACUG----------------------1novel
  lencloning frequencies
   CE1
 --------------------------------------------------------------------ACAGACTGAGGATAAACGA-----------191
celeganstttgctgtcattgtttcgaaattctaaatctgtatcataatggtagtttcgttaaacttgcccgttcgACAGACTGAGGATAAACGAagacgtcgaga 
 ************************************************************************************************** 
celegans((((.((((.((((((....(((((...(((((.....(((((.(((((....)))))...)))))..)))))...))))))))))).)))).)))).1.000 -22.80

celeganschromosome:II:13038817:13038914:1intergenic ## {SimpF: WRM065aF11 1 fosmid}


block2829 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.235nono0.26/0.2619/19/0.000.0
0.0
1
0
1
0
19
4
5arm
1
nd
0.26
3
11nana
  readsmiRBase family seed
seed     --------------------CAUGAAU------------------------------------------------------------------------     1novel
  lencloning frequencies
   CE1
      -------------------CCATGAATTTTTGATGATT-------------------------------------------------------------     191
celegans     cctgaaaaataaatagattCCATGAATTTTTGATGATTttcttgcatttttcactagaaaatcttccgttttcccagaaattttgaattttttagccag      
      ***************************************************************************************************      
 <<<<<<-------------------------------------------------------------------------------------------------------Y71H2AM.4.2 Y71H2AM.4 Y71H2AM.4
 <<<<<<-------------------------------------------------------------------------------------------------------Y71H2AM.4.1 Y71H2AM.4 Y71H2AM.4
celegans     .(((.....((((.((((((...(((((((((..((((((((.............))))))))...........))))))))).))))))))))..)))     0.850 -13.74

celeganschromosome:III:2787782:2787880:-1Opposite_strand|Intronic_coding|Y71H2AM.4.2|Y71H2AM.4 ## Y71H2AM.4|protein_coding|Y71H2AM.4|Y71H2AM.4 [Source:RefSeq_peptide;Acc:NP_497619] ## {SimpF: Y71H2_388.D -1 Expression_profile,CEOP3084 -1 Operon}


block3497 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.128nono0.31/0.3321/26/0.330.0
1.7
3
0
1
0
10
7
5arm
1
nd
0.14
1
31nana
  readsmiRBase family seed
seed     -----------UCAAUGC------------------------------------------------------------------------------     3novel
  lencloning frequencies
   CE1
      ----------GTCAATGCCATTTTCTGATTATAAGT------------------------------------------------------------     262
      ----------GTCAATGCCATTTTCTGATTA-----------------------------------------------------------------     211
celegans     aaaaaccctaGTCAATGCCATTTTCTGATTATAAGTtacaatagagacatatttgcatttaaattattgaagatcgcttgacttattcttgttttt      
      ************************************************************************************************      
 .......................................................................................<<<<<<<<<<<<<<<<<<<R13G10.4 R13G10.4 R13G10.4
celegans     ((((((...((((((.((.(((((((((((.(((((...((((......))))...))))))))))..)))))).)))))))).......))))))     0.970 -15.30

celeganschromosome:III:3826275:3826370:1intergenic ## {SimpF: WRM065cE05 1 fosmid,WRM0624bD07 1 fosmid,WRM0640dH02 1 fosmid,WRM063dB07 1 fosmid,WRM0626aB12 1 fosmid,WRM062aH09 1 fosmid,WRM0634bH05 1 fosmid,WRM0613aC06 1 fosmid}


block3706 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.219nono0.35/0.3526/26/0.000.0
0.0
2
0
1
0
10
16
5arm
2
58
0.27
3
21nana
  readsmiRBase family seed
seed     -----------AUGAAUG------------------------------------------------------------------------------------     2novel
  lencloning frequencies
   CE1
      ----------GATGAATGAGCGTTTTTAAAAACTCG------------------------------------------------------------------     262
celegans     tcatctttttGATGAATGAGCGTTTTTAAAAACTCGaaaatacttgaaatttatgagaaaatttttattcagtttagaaactaatatttttcagatggagaa      
      ******************************************************************************************************      
 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>T20B12.1 T20B12.1 T20B12.1
celegans     ((.(((.(((((.(((((...(((((((..((((.(((.......(((((((......)))))))..))))))))))))))...))))).))))).))))).     0.580 -15.80

celeganschromosome:III:7388495:7388596:1Same_strand|Intronic_coding|T20B12.1|T20B12.1 ## T20B12.1|protein_coding|T20B12.1|TPR repeat-containing protein T20B12.1. [Source:UniProtKB/Swiss-Prot;Acc:P41842] ## {SimpF: CEOP3436 1 Operon,WRM0626aC10 1 fosmid,WRM062aD02 1 fosmid,WRM066cF12 1 fosmid}


block3971 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.105nono0.44/0.4418/18/0.000.0
0.0
1
0
1
0
24
2
5arm
1
nd
0.28
3
11nana
  readsmiRBase family seed
seed     -------------------------CUGUGUG------------------------------------------------------------------     1novel
  lencloning frequencies
   CE1
      ------------------------GCTGTGTGTGATTTGTCT--------------------------------------------------------     181
celegans     gacgctgcaaatctccacgccatgGCTGTGTGTGATTTGTCTgaaaacttaaattaaattacgcaaaaattggtgaaaaagagaaaataaataggtta      
      **************************************************************************************************      
 <<<<<<<<<<<<<<<<<<<<<<<<<<<<................................................................................Y76A2B.1 Y76A2B.1 pod-1
celegans     (((.(((....((((..(((((......(((((((((((..(((....)))...))))))))))).....))))).....)))).......)))))).     0.980 -19.20

celeganschromosome:III:13523951:13524048:1intergenic


block3974 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.098nono0.56/0.5625/25/0.000.0
0.0
3
0
1
0
13
11
3arm
1
23
0.28
3
31nana
  readsmiRBase family seed
seed     ---------------------------------------------------------------------------GUGUGAC------------------------------     3novel
  lencloning frequencies
   CE1
      --------------------------------------------------------------------------AGTGTGACATGTCGTCCAGCTGTGG-------------     253
celegans     tcgttggatatggcccgtcaggtaggaaattttcgattttccactatttttttttctaaaatcagaaaatttgcAGTGTGACATGTCGTCCAGCTGTGGatcgtgccaaaga      
      ****************************************************************************************************************      
 >>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>T12D8.1 T12D8.1 set-16
celegans     ((.((((.((((..(((.(((...(((......((((..((((((......((((((......)))))).....)))).))...)))))))..))))))..)))))))).))     0.460 -27.10

celeganschromosome:III:13644000:13644111:1Same_strand|Boundary_coding|T12D8.1|T12D8.1 ## T12D8.1|protein_coding|set-16|Temporarily Assigned Gene name family member (tag-350) [Source:RefSeq_peptide;Acc:NP_499819] ## {SimpF: WRM066cA03 1 fosmid,WRM0630dA02 1 fosmid,WRM0622cC11 1 fosmid,WRM0640dG12 1 fosmid,WRM0611cA01 1 fosmid,WRM0614aE06 1 fosmid}


block4058 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.508nono0.21/0.2119/19/0.000.0
0.0
1
0
1
0
25
8
3arm
1
nd
0.26
3
11nana
  readsmiRBase family seed
seed-----------------------------------------------------------------------------UUAUUAC------------------------------------1novel
  lencloning frequencies
   CE1
 ----------------------------------------------------------------------------ATTATTACATTCGATCAAT-------------------------191
celegansaaaataagaagagagactgatgggattgatttgaaaatattcgtgagatttgaataaaactaactggtatcttacaATTATTACATTCGATCAATaaacgattttactaaattccgattt 
 ************************************************************************************************************************ 
celegans.((((..(((...((...((((..(((((.(((((((((...(((((((...................)))))))...))))...))))))))))...)).))...))...)))..))))0.780 -14.11

celeganschromosome:IV:2559562:2559681:-1intergenic ## {SimpF: WRM0616dE11 -1 fosmid}


block4149 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.230nono0.22/0.2218/18/0.000.0
0.0
1
0
1
0
28
3
5arm
3
nd
0.22
3
11nana
  readsmiRBase family seed
seed     -----------------------------UUUUGAG------------------------------------------------------------------     1novel
  lencloning frequencies
   CE1
      ----------------------------GTTTTGAGTTTTTTGTTT--------------------------------------------------------     181
celegans     gtcctaatttcgatctcagaaaatagttGTTTTGAGTTTTTTGTTTtgttttgttttacagcaataaaagtgtaaattaattgagaatttagaaacaaggat      
      ******************************************************************************************************      
 >>>>>>>>>>>>....................................................................................................F29B9.10 F29B9.10 F29B9.10
celegans     (((((..((((..(((((.......((((.((((...((((((((((((........)))).))))))))..)))).))))))))).....))))..)))))     0.420 -17.21

celeganschromosome:IV:4659019:4659120:-1intergenic ## {Repeats: dust 23955 23973 0 class=dust} ## {SimpF: WRM0621cC02 -1 fosmid,WRM0627bD07 -1 fosmid,WRM0637aB09 -1 fosmid,WRM0629aB05 -1 fosmid,WRM0639aG12 -1 fosmid,WRM068dB06 -1 fosmid,F29B9.10 -1 Expression_profile,WRM065dC01 -1 fosmid,WRM0621aB11 -1 fosmid,WRM0618aF09 -1 fosmid}


block4168 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.176nono0.37/0.3719/19/0.000.0
0.0
1
0
1
0
23
10
3arm
1
nd
0.16
2
11nana
  readsmiRBase family seed
seed--------------------------------------------------------------------UAUGUAG----------------------------------1novel
  lencloning frequencies
   CE1
 -------------------------------------------------------------------TTATGTAGGGATGAATGTC-----------------------191
celegansttccgcttcatcagagctcactgattcatctcatttttataacaataagataacgtctgtttcgtagTTATGTAGGGATGAATGTCgataaggtgaagttactttggga 
 ************************************************************************************************************* 
celegans((((((((((((.....((((..(((((((((.....((((((.((.(((((.....))))).)).))))))..))))))))))).))...))))))))......))))0.550 -23.40

celeganschromosome:IV:4953078:4953186:-1intergenic


block4330 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.688nono0.42/0.4219/19/0.000.0
0.0
1
0
1
0
14
22
3arm
1
65
0.16
1
11nana
  readsmiRBase family seed
seed     -----------------------------------------------------------------------------------UUUGUUG-------------------------     1novel
  lencloning frequencies
   CE1
      ----------------------------------------------------------------------------------TTTTGTTGACGTACGTGGT--------------     191
celegans     tggaatggagttattaaggtattcaagaaaatattttaccgtttcagcttttggtaaaaatagtggcaattttattcggtgaTTTTGTTGACGTACGTGGTaaaatacaagttct      
      *******************************************************************************************************************      
 >>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++C01B10.10 C01B10.10 C01B10.10
celegans     .(((((....((((((..((((((((.((((....((((((.....(((.(((.......))).))).........)))))))))).)))).)))).)))))).......)))))     0.640 -18.74

celeganschromosome:IV:6626509:6626623:-1Same_strand|Intronic_coding|C01B10.10|C01B10.10 ## C01B10.10|protein_coding|C01B10.10|C01B10.10 [Source:RefSeq_peptide;Acc:NP_501021] ## {SimpF: WRM0637dD06 -1 fosmid,WRM0626aD05 -1 fosmid,C01B10.10 -1 Expression_profile,WRM0640dC01 -1 fosmid}


Back to summary page other hairpins: Page 1 Previous page Page 7 Next page Jump 10 pages forward Page 45
©2008 InteRNA Genomics B.V.