logoC.elegans small RNAs


miR classification

Alignments

other hairpins

novel_nonpairedHIGH (27 loci)

block4659 [novel_nonpairedHIGH]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.361nono0.50/0.5020/20/1.000.0
0.0
2
0
1
0
14
15
5arm
2
nd
0.35
2
21nana
  readsmiRBase family seed
seed---------------UUCAAUC------------------------------------------------------------------------------2novel
  lencloning frequencies
   CE1
 --------------TTTCAATCGTTGGCAGTGGC------------------------------------------------------------------202
celegansttgacaaaatttagTTTCAATCGTTGGCAGTGGCattggctggtggtgttcgagcagcatggcggacaaattgctgttggcggatgtcgggtggcggtca 
 **************************************************************************************************** 
celegans.((((...((((.....((.((((..(((((((..((.(((.(((.(((....))).)))))).))....)))))))..)))).))..))))....))))0.440 -26.40

celeganschromosome:IV:12639340:12639439:-1intergenic ## {SimpF: WRM068bH03 -1 fosmid,WRM064cA08 -1 fosmid}


block4662 [novel_nonpairedHIGH]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.361nono0.50/0.5020/20/1.000.0
0.0
2
0
1
0
14
15
5arm
2
nd
0.35
2
21nana
  readsmiRBase family seed
seed---------------UUCAAUC------------------------------------------------------------------------------2novel
  lencloning frequencies
   CE1
 --------------TTTCAATCGTTGGCAGTGGC------------------------------------------------------------------202
celegansttgacaaaatttagTTTCAATCGTTGGCAGTGGCattggctggtggtgttcgagcagcatggcggacaaattgctgttggcggatgtcgggtggcggtca 
 **************************************************************************************************** 
celegans.((((...((((.....((.((((..(((((((..((.(((.(((.(((....))).)))))).))....)))))))..)))).))..))))....))))0.440 -26.40

celeganschromosome:IV:12677131:12677230:-1intergenic


block4800 [novel_nonpairedHIGH]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.023nono0.29/0.2921/21/1.000.0
0.0
2
0
1
0
20
7
5arm
1
nd
0.33
3
21nana
  readsmiRBase family seed
seed---------------------AAUAUUA------------------------------------------------------------------------2novel
  lencloning frequencies
   CE1
 --------------------TAATATTAGTCCAGTCCAATT-----------------------------------------------------------212
celegansagataaaactttgtttatatTAATATTAGTCCAGTCCAATTcaaaaataaaatcgaattttagagtttgacaactatttaaaaaaaacattcattttgtc 
 **************************************************************************************************** 
celegans.(((((((...(((((...((((...((((...(((.(((((.(((((........))))).))))).))).)))).))))...)))))....)))))))0.990 -16.00

celeganschromosome:IV:14556530:14556629:-1intergenic ## {SimpF: WRM0613aA05 -1 fosmid,WRM0616aA10 -1 fosmid,WRM0620cH03 -1 fosmid}


block4896 [novel_nonpairedHIGH]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.639nono0.29/0.2921/21/1.000.0
0.0
1
0
1
0
14
26
3arm
1
nd
0.33
3
11nana
  readsmiRBase family seed
seed     --------------------------------------------------------------------------------------AACAACG---------------------------     1novel
  lencloning frequencies
   CE1
      -------------------------------------------------------------------------------------TAACAACGGTTTTCAAAATTC--------------     211
celegans     ttgaaaaaacaattttaaaatgttctcacatgtttcaactgtttcacgtagttttttttaagtgcaaagattcagcggaggctggTAACAACGGTTTTCAAAATTCtaactttattcaat      
      ************************************************************************************************************************      
 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++Y40H7A.6 Y40H7A.6 sra-30
celegans     (((((.(((.((((((((((((((....((.(((((..(((..((..(((.((......)).)))...))..)))..))))))).....)))).)))).)))))).....))).))))).     0.530 -17.20

celeganschromosome:IV:15193316:15193435:-1Same_strand|Intronic_coding|Y40H7A.6|Y40H7A.6 ## Y40H7A.6|protein_coding|sra-30|Serpentine Receptor, class A (alpha) family member (sra-30) [Source:RefSeq_peptide;Acc:NP_502833] ## {SimpF: WRM0634aD03 -1 fosmid,WRM0632aH08 -1 fosmid}


block4909 [novel_nonpairedHIGH]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.801nono0.33/0.3321/21/1.000.0
0.0
2
0
1
0
11
14
3arm
1
nd
0.33
2
21nana
  readsmiRBase family seed
seed     ---------------------------------------------------------------------AGGGUUG------------------------     2novel
  lencloning frequencies
   CE1
      --------------------------------------------------------------------TAGGGTTGATGAGTTAAGTTT-----------     212
celegans     gtgttttaaattattttttttctgtttcaatttaaaagtatagttgttcgtaatcaaattttattcgtTAGGGTTGATGAGTTAAGTTTtttcaaaacaa      
      ****************************************************************************************************      
 --------------------------------------------------------------------------------------------------------------Y73F8A.5 Y73F8A.5 Y73F8A.5
celegans     .(((((((((..((((...(((....((((((..((.(((...(((........)))....)))...))..)))))).)))..))))..))).)))))).     0.430 -10.50

celeganschromosome:IV:15260381:15260480:-1Opposite_strand|Intronic_coding|Y73F8A.5|Y73F8A.5 ## Y73F8A.5|protein_coding|Y73F8A.5|Y73F8A.5 [Source:RefSeq_peptide;Acc:NP_502841] ## {SimpF: WRM0633cB03 -1 fosmid,WRM0641cC01 -1 fosmid,WRM0615cG05 -1 fosmid}


block4965 [novel_nonpairedHIGH]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.276nono0.30/0.3020/20/1.000.0
0.0
1
0
1
0
16
10
3arm
1
nd
0.35
3
11nana
  readsmiRBase family seed
seed-------------------------------------------------------------UUUGAGG----------------------------1novel
  lencloning frequencies
   CE1
 ------------------------------------------------------------TTTTGAGGTTCTTAACATTG----------------201
celegansacggaacatttttacatttttgtgaactttataaaactggagattcgttttttcttttgaTTTTGAGGTTCTTAACATTGaattttgaaggttttg 
 ************************************************************************************************ 
celegans.((((((.((((...((((.(((((((((((.......(((((.......)))))........))))))))...)))..))))...))))))))))0.410 -15.06

celeganschromosome:IV:15630324:15630419:-1intergenic ## {SimpF: WRM0615dG10 -1 fosmid}


block5325 [novel_nonpairedHIGH]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.678nono0.38/0.3821/21/1.000.0
0.0
1
0
1
0
8
4
5arm
1
nd
0.43
3
11nana
  readsmiRBase family seed
seed---------UGGAUAU-------------------------------------------------------1novel
  lencloning frequencies
   CE1
 --------ATGGATATGTCGAAAAGGAGA------------------------------------------211
celegansattgggatATGGATATGTCGAAAAGGAGAgcaaataaaatggacttgtgaatcccttgatgcacccctcaa 
 *********************************************************************** 
celegans.(((((....((...((((((...(((..((((...........))))...))).))))))..)).)))))0.890 -9.80

celeganschromosome:IV:3897081:3897151:1intergenic ## {SimpF: WRM068aF02 1 fosmid,WRM0628dD05 1 fosmid,WRM0634bC03 1 fosmid,WRM0641bD04 1 fosmid}


block5819 [novel_nonpairedHIGH]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.521nono0.54/0.5424/24/1.000.0
0.0
1
0
1
0
10
0
3arm
1
nd
0.38
3
11nana
  readsmiRBase family seed
seed     -------------------------------------------UUCAGCC--------------------------     1novel
  lencloning frequencies
   CE1
      ------------------------------------------GTTCAGCCATTCGTTCTCCGCTAG----------     241
celegans     attctatacaatttaccgttaacttttggtttgccgagttaaGTTCAGCCATTCGTTCTCCGCTAGattgaaggaa      
      ****************************************************************************      
 --------------------------------------------------------------------------------------Y67H2A.2b Y67H2A.2 Y67H2A.2
 --------------------------------------------------------------------------------------Y67H2A.2a Y67H2A.2 Y67H2A.2
celegans     .((((...(((((((.((..(((...(((((.((........))..)))))...)))...)).)))))))..))))     0.760 -12.10

celeganschromosome:IV:13290963:13291038:1Opposite_strand|Intronic_coding|Y67H2A.2a|Y67H2A.2 ## Opposite_strand|Intronic_non-coding|Y67H2A.2b|Y67H2A.2 ## Y67H2A.2|protein_coding|Y67H2A.2|Y67H2A.2a [Source:RefSeq_peptide;Acc:NP_001041056] ## {SimpF: CEOP4539 -1 Operon}


block5882 [novel_nonpairedHIGH]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.723nono0.29/0.2921/21/1.000.0
0.0
1
0
1
0
9
12
3arm
1
nd
0.33
3
11nana
  readsmiRBase family seed
seed     -------------------------------------------------------------------GAUGAUA----------------------     1novel
  lencloning frequencies
   CE1
      ------------------------------------------------------------------TGATGATAGCATTAAAATTGG---------     211
celegans     tgatttaaatattgatttactgttacgcactttctattaaaaatttggttttcgagcacaatttagTGATGATAGCATTAAAATTGGtaaaaatta      
      ************************************************************************************************      
 ----------------------------------------------------------------------------------------------------------Y37A1B.17a Y37A1B.17 Y37A1B.17
 ----------------------------------------------------------------------------------------------------------Y37A1B.17b Y37A1B.17 Y37A1B.17
celegans     .........(((..((((..(((((((((((.............((((((....))).)))...)))).)).)))))...))))..))).......     0.930 -11.29

celeganschromosome:IV:13978477:13978572:1Opposite_strand|Intronic_coding|Y37A1B.17a|Y37A1B.17 ## Y37A1B.17|protein_coding|Y37A1B.17|Y37A1B.17a [Source:RefSeq_peptide;Acc:NP_001076722] ## {SimpF: WRM062bH10 1 fosmid,WRM067aD04 1 fosmid,WRM0615cE09 1 fosmid}


block5942 [novel_nonpairedHIGH]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.221nono0.43/0.4321/21/1.000.0
0.0
1
0
1
0
8
0
5arm
1
nd
0.43
3
11nana
  readsmiRBase family seed
seed---------UGGUUGU--------------------------------------------------------1novel
  lencloning frequencies
   CE1
 --------TTGGTTGTCAGAGCTATTGCT-------------------------------------------211
celegansgagggtacTTGGTTGTCAGAGCTATTGCTttttttttgtttttggtggtttttttgggaaatatggattttt 
 ************************************************************************ 
celegans((((((.((...((.((((((..((..((..............))..))..)))))).))....))))))))0.920 -9.34

celeganschromosome:IV:14512581:14512652:1intergenic ## {Repeats: dust 9221 9221 0 class=dust} ## {SimpF: WRM0613aE08 1 fosmid,Y57G11A.5 1 Expression_profile}


Back to summary page other hairpins: Page 1 Previous page Page 11 Next page Jump 10 pages forward Page 45
©2008 InteRNA Genomics B.V.