logoC.elegans small RNAs

miR-Intess™


Summary
Preprocessing
Mapping
Composition

miR classification
miR expression
Downloads
Table
Thresholds

Families
Clusters
Families of known and novel miRNAs
FamilySizeSeedMembers
miR-35/36/38/39/40/417 miRNAsCACCGGGcel-mir-40
   cel-mir-35
   cel-mir-36
   cel-mir-37
   cel-mir-39
   cel-mir-41
   cel-mir-38
miR-51/52/556 miRNAsACCCGUAcel-mir-53
   cel-mir-51
   cel-mir-55
   cel-mir-54
   cel-mir-56
   cel-mir-52
miR-645 miRNAsAUGACACcel-mir-64
   cel-mir-229
   cel-mir-65
   cel-mir-66
   cel-mir-63
miR-241/48/let-7/845 miRNAsGAGGUAGcel-mir-795
   cel-mir-48
   cel-mir-241
   cel-let-7
   cel-mir-84
miR-80/81/824 miRNAsGAGAUCAcel-mir-82
   cel-mir-81
   cel-mir-80
   block4332_cand
miR-44/45/613 miRNAsGACUAGAcel-mir-61
   cel-mir-44
   cel-mir-45
miR-73/743 miRNAsGGCAAGAcel-mir-74
   cel-mir-72
   cel-mir-73
miR-50/62/903 miRNAsGAUAUGUcel-mir-50
   cel-mir-90
   cel-mir-62
miR-433 miRNAsAUCACAGcel-mir-2
   cel-mir-797
   cel-mir-43
novel12 miRNAsAACCACUcel-mir-1829c
   cel-mir-1829b
miR-239a2 miRNAsUUGUACUcel-mir-238
   cel-mir-239a
miR-785/862 miRNAsAAGUGAAcel-mir-86
   cel-mir-785
miR-231/7872 miRNAsAAGCUCGcel-mir-231
   cel-mir-787
miR-75/792 miRNAsUAAAGCUcel-mir-75
   cel-mir-79
miR-46/472 miRNAsGUCAUGGcel-mir-46
   cel-mir-47
lin-42 miRNAsCCCUGAGcel-lin-4
   cel-mir-237
miR-233/356/872 miRNAsUGAGCAAcel-mir-233
   cel-mir-87
miR-789a/789b2 miRNAsCCCUGCCcel-mir-789-1
   cel-mir-789-2
novel52 miRNAsAUUGAUGcel-mir-789-1
   cel-mir-789-2
miR-790/7912 miRNAsUUGGCACcel-mir-791
   cel-mir-790
miR-49/832 miRNAsAGCACCAcel-mir-49
   cel-mir-83
miR-35/36/38/39/40/41
cel-mir-40------TCCTGTCCGCACCTCAGTGGATGTATGCCATGATGATAAGATATCA----GAAATCCTATCACCGGGTGTACATCAGCTAAGGT-GCGGGTACAGGT
cel-mir-35TCTCGGATCAGATCGAGCCATTGCTGGTTTCTTCCACAGTGGTACTTTCCATTAG-AA----CTATCACCGGGTGGAAACTAGCAGTGGC-TCGATCTTTTCC
cel-mir-36--CACCGCTGTCGGGGAACCGCGCCAATTTTCGCTTCAGTGCTAGACCATCCA---AAGTGTCTATCACCGGGTGAAAATTCGCATGGGTCCCCGACGCGGA-
cel-mir-37---TAGAAACCCTTGGACCAGTGTGGGTGTCCGTTGCGGTGCTACATTCTC-----TAATCTGTATCACCGGGTGAACACTTGCAGTGGTCCTCGTGGTTTCT
cel-mir-39-------TATACCGAGAGCCCAGCTGATTT-CGTCTTGGTAATAAGCTCGTCATT-GA--GATTATCACCGGGTGTAAATCAGCTTGGCT-CTGGTGTC----
cel-mir-41-----GGGTCCCAGAGACCTTGGTGGTTTTTCTCTGCAGTGATAGATACTTCTAACAACTCGCTATCACCGGGTGAAAAATCACCTAGGT-CTGGAGCCTCCT
cel-mir-38---TCTGTGAGCCAGGTCCTGTTCCGGTTTTTTCCGTGGTGATAACGCATCCAA--AAGTCTCTATCACCGGGAGAAAAACTGGAGTAGGACCTGTGACTCAT
                   *        * *         *  **             *     ********** * * *                        

miR-51/52/55
cel-mir-53------------CCGATTCTGA---CAGTCCA--CCCGTACATTTGTTTCCGTGCTTGACTTCAAAGCTCAATCACGGCACAATATATGGGTCGCCAGTCATTGTAGTCGGA-----
cel-mir-51--------------GTCCGAAAAGTCCGTCTA--CCCGTA-GCTCCTATCCATGTTACTGGTCAAAAAGTGAACATGGAAGCAGGTACAGGTGCACGGCGAGTAGGGTCATGAAGCT
cel-mir-55-------------AGATTTGGAACTTAATGGGACTCGGCAGAAACCTATCGGTTATACTTTTTGGATAT-----GCTATACC-CGTATAAGTTTCTGCTGAGCCCCTTATTCCTGTT
cel-mir-54GTGAGTCGCGCTCTGACTAGGATATGAGACGA--CGAGAACAT---------TGCTTTTTTAAAAGACTTGTACCCGTAATC---TTCATAATCCGAGTCAGGGCTAGCTGAC----
cel-mir-56--------------GAGCCAGTGTCTGTTCTTGGCGGATCCATTTTGGGTTGTACCTCATCCTAAATTTG----ACGGTACC-CGTA-ATGTTTCCGCTGAGAACCGACTGTGCACC
cel-mir-52-----------TCCAACTCTAA---CAGTCCA--CCCGTACATATGTTTCCGTGCTTGACAGCGAAGCTCAATCACGTTACAATGAAAGGGTAGCCGGTTATTGAAGTTGGGTCTT-
                                                     *                          *                    *                

miR-64
cel-mir-64---CGCTGAC-----------CTCGCCG---------------------------AATATGACAC------------------TGAA----GCGTTACCGAACCGTTTTCCC----------------ACACCTGGATTCGGTGCAACGATC-AGTGGCATGCTCGGCTAGCGCCAGT-------
cel-mir-229-----------------------CGCCG---------------------------GCAATGACACTGGTTATCTTTTCCATCGTGGA----ATGCCCCCCATTGATTTTTTCCCCTTTTCGGGGGGAAAAAATTGGAAACGAGAAAGGTATCGGGTGTCATAGCCGGCG----------------
cel-mir-65--ATGGAGCC-----------TTCGCCG---------------------------ATTATGACAC------------------TGAA----GCGTAACCGAAC------ACC----------------ATATTTTGAGATTCTGCTACGCGC-AGTGCCATGCTCGGCGCGTTGGCTCCATTAAA
cel-mir-66CCACAAAAAT--------------GCCA---------------------------TACATGACACTGATTAGGGATGTGA---TGAATGTTAAGATCCCGATC-------------------------AAATTCCTAAC--------------GGTGTCAAACATGGCGTATGTGGTTGTAG---
cel-mir-63ACAAGCAGACACAATTTCTAACTCGTCGGTAGTCATCGTTCTAGCTGAAAAGGACACTATGACAC------------------TGAA----GCG------------------------------------AGTTGGAAATAGTG------------GTTCTACTTG-------------------
                         * *                               *******                  ** *      *                                    *     *                   *        *                   

miR-241/48/let-7/84
cel-mir-795GAA----ACGTTACC--TGCTGAGGTAGATTGATCAGC--------GAGCTTGATACCCCGTTCAAAATC-GTGATCAGTATACTTCGTCAGGCAGCTTGTTTT
cel-mir-48AAACTCCCGGGAACT-----TGAGGTAGGCTCAGTAGATGCGAATTGAACGGTATCTCACATCCACCAGC-CTAGCTCGCATTCCCAGAGTTTACGGTATTGTT
cel-mir-241-----CGGGGGTGTCAAAGTTGAGGTAGGTGCGAGAAATGACGGCATCCATATAGTAATCGTTCATTGTCTCTCAGCTGCTTCATCTGTGACATGGCTACG---
cel-let-7-TACACTGTGGATCCGGTGAGGTAGTAGGTTGTATAGTTTGGAATATTACCACCGGTGAACTATGCAA----TTTTCTACCTTACCGGAGACAGAACTCTTCGA
cel-mir-84-------GTGGCATC--TGAGGTAGTATGTAATATTGT--------AGACTGTCTATAATGTCCACAA----TGTTTCAACTAACTCG-------GCTGTTCT-
          *           *  ***                                  *          *        *     *         *      

miR-80/81/82
cel-mir-82---GAAATAGGTTCTTTTAGC-----AACCGGTTTTCTCTGTGATCTACAGAATGACAGCTAATCGTC------TGAGATCATCG--TGAAAGCCAGTTGTT--TTTATGAACTC---------
cel-mir-81ATCAGTGCCATCGTGCCCAAC-----AGTCGGTTTTCACCGTGATCTG-AGAGCAATCCAAAAATGCTTTTC--TGAGATCATCG--TGAAAGCTAGTTGTTGGTCTACGGGCTTTTG------
cel-mir-80ATGGACACTCGTTCGCTCAGC-----TTTCGACAT---------GATTCTGAACAATCCGCAAGCCCATGTTGTTGAGATCATTAGTTGAAAGCCGAATGAT----CAGAGATATC--------
block4332_candGTGACGATATTCAATTGCAACCTGTTGGTTGATCT---------CCTACCAAATAATGGATAAGAGA-------TCAGGCAATAGGTTCAAAAGTGAATAAT-----ATTGATTTTTGAGTGAC
                   * *         *   *           *    *   *     **           * **   **    * ***      *  *     *                

miR-44/45/61
cel-mir-61----TATCGCTGAACCTCGAGATGGGTTACGGGGCTTAGTCCTTCCTCCGTA----TGGCAATGACTAGAACCGTTACTCATCTCG-------AGGTTTCGGTGAT
cel-mir-44GAGAAAATGGCCAATCTGGATGT-GCTCGTTGGTCATAGACGTCAACACGAA-CTGTTCATATGACTAGAGACA-CATTCAGCTTGGC-----CTGCTTCTCTA--
cel-mir-45-CACCATGTGCCACGCTGGATGT-GCTCGTTAGTCATAATATCCTCCACAAAGCAAGGACTATGACTAGAGACA-CATTCAGCTTGGCGCCGAATGCAT-------
      *      *  ** **  * * *     * * **          *  *         *********  *   * *** ** *         *  *       

miR-73/74
cel-mir-74---AAATGGTTCAAAAAACGTTCGGGCT--TCCATCTCTTTCC-CAGCCTA--------CATCTCAAC--CTGGGCTGGCAAGAAAT-GGCAGTCTACACGTTTTTCAACCAAA
cel-mir-72------AGGTCC------CGTCAGAGCTAGGCAAGATGTTGGCATAGCTGAATGATCGCTATAACAACTATCAGCTTCGCCACATTC-TGCCACGCACTGATGTGAGGACCT--
cel-mir-73CAGTGAGAGTCCCACACACGACTGGACT--TCCATATCGAGCCACAGC-------------TATCAACGAATTTGCTGGCAAGATGTAGGCAGTTCAGTTGTGCGTTTATGGAG
         ** *      **   *  **   * *  *     *  ***             *  ****        * ** * *     **     *    *      *     

miR-50/62/90
cel-mir-50CTGCCCGCCGGCCGCTGATATGTCTGGTATTCTTGGGTTTGAAC-----TTCCAGCGTTGAACCCGCATATTAGACGTATCGACGGCCGGCGGGGCAGGTAAT-------------------------G
cel-mir-90---------GGGCGCCATTTCGA---------GCGGCTTTCAACGACGATATCAACCGACAACTCACACTTTTG-CGTGTT------------GATATGTTGTTTGAATGCCCCTTGAATTGGATGCCA
cel-mir-62--------------------------------GTGAGTTAGATC-----TCATATCCTT----CCGCAAAATGGAAAT---------------GATATGTAATCTAGCT---------------TACAG
                                   *  **  * *     *   * *        * **   * *   *               *  * **  *                          

miR-43
cel-mir-2TAAACAGTATACAGA------------AAGCCATCAAAGCGGTGGTTGATGTGTTGCAAATTATGACTTTCATATCACAGCCAGCTTTGATGTGCTGCCTGTTGCACTGT---------
cel-mir-797-----CGTCCAATGG------------ACGATATCACAGCAAT-------------CACAATGAGAAGAATACATCTAGATACTCTTTTCATTGGTTTCTGTGAAATCGTATTTGAATG
cel-mir-43---------TATTGGCACTAGTCGCCCGTGACATCAAGAAACTAGTGATTATG---CCAAACCACAGGGACATATCACAG------TTTACTTGCTGTCGCGGGCGGTGC---TGAGTT
           *  *               *  ****      *             *  *     *     * ***          **    ** *  *         *          

novel1
cel-mir-1829cAAGCGAAATTCAAGATGGTTGTAAAACATCGAGTACTACAACCACTGGAATTTCTCTATTGC
cel-mir-1829bAAGCGATCTTCTAGATGGTTGTAAAACATCGAGTATTACAACCACTGGAATTTCTCTATT--
 ******  *** *********************** ************************  

miR-239a
cel-mir-238TCTCCATTGACTGTTTGGATGTT-CTCGGACGTTCAAAGCTACATCCAACAAATTGGTAGCTTTGTACTCCGATGCCATTCAGATAGTTATGAGCCATG---
cel-mir-239aTACACGTTTGCAATTTTTGTACTACACATAGGTACTGGACAATTTTCAAAATATATCCAG-TGTCTAGTCTAGTGCAA---ACATTGCTCGGTGTTGTTTGA
 *   * **  *  ***   *  * * *  * ** *    * *  * *** * **    ** * * ** **   *** *   * ** * *  * *   *    

miR-785/86
cel-mir-86---CGTGTCCACGCCGTCTA--AGTGAATGCTTTGC---CACAGTCTTCGATGTTCTG-AAATGAAGCCTGGGCTCAGATTCGCTTAGGCCGGAGTTTGACACGGCA
cel-mir-785GCTCTTTTTCTCACCCATCAGCACAGAATTTTTCGCTAACAGAAACCTCAAAACAATGTAAGTGA-------------ATTGTTTTGTGTAGATGGTGGAAATGAGC
    * * * * * **    *  *  ****  ** **   ** *  * ** *     ** ** ***             ***   **  *  *  * * ** * *   

miR-231/787
cel-mir-231TA-GCACCACAGGTTGTTCTGACTGTTTCAAAAGCTTGTAGTATCTTAA-----TAAATAAACATATAAGCTCGTGATCAACAGGCAGAACAACTCGGTTTTG------TG
cel-mir-787GATGTATCAGTGGACG-------------AAAGATACATACGATCTTACATCTTCAAAATGGTATGTAAGCTCGTTTT--------AGTATCTTTCGTCTCTGATCACATT
  * * * **  **  *             ***      **  ******       ***     ** *********  *        ** *    ***  * **      * 

miR-75/79
cel-mir-75---------TTCTTGTTGCTTTGAAGAATTGCAGTCGGTTGCAA-GCTTAAATACAAATCCGAATTGTTATTAAAGC-----TACCAACCGGCTTCAAGTCTGAAAGAGCAG
cel-mir-79TAGTAGACATTCTCCGATCTTTGGTG------ATTCAGCTTCAATGATTGGCTACAGGTT----TCTTTCATAAAGCTAGGTTACCAA--AGCTCGGCGTCTT---GATCTA
          ****     *****  *      * ** * * *** * **   ****  *     *  **  ******     ******   ***    ****    ** *  

miR-46/47
cel-mir-46CTGAGG------TGAAGCTGAAGAGAGCCGTCTATTGACAGTTCAAGACCACGAGTCGTTGTGTGCTGTCATGGAGTCGCTCTCTTCAGATGA--TCCGGTCAAT
cel-mir-47--GAGAGCCGACTGAAACTGAAGAGAGCAGTCTATTGACAGTCGGTTACTCGAAATC----TTTACTGTCATGGAGGCGCTCTCTTCAGATGATGTCTGGCCC--
   ***       **** *********** *************     **    * **    * * *********** ****************  ** ** *   

lin-4
cel-lin-4ATGCTTCCGGCCTGTTCCCTGAGA--CCTCAAGTGTGAGTGTACTATTGATGCTTCACACCTGGGCTCTCCGGGTACC---------AGGACGGTTTGAGCAGAT
cel-mir-237TTCTACATTGCGTGGTCCCTGAGAATTCTCGAACAGCTTCAAAGTGTTCAAGCT----GTCGAGTTTTGTCAAGGACCAAACAATAGAAGATCACTTGGGAAC--
  *       ** ** *********   *** *          * * ** * ***      *  *  *   *  * ***         * **    *** * *   

miR-233/356/87
cel-mir-233--ATATAGCATCTTTCTGTCTCGCCCATCCCGTTGCTCCAATATT-CTAACA-ACAAGTGATTATTGAGCAA---TGCGCATGTG-CGGGATAGACTGATGGCTGC
cel-mir-87GGTTGTGCCATCCGGCCGCCT----GATACTTTCGTCTCAACCTCGCTGTCAGATTGGTCGTAGGTGAGCAAAGTTTCAGGTGTGCCGGAACACACC--------C
    * *  ****   * * **     ** *  * *   ***  *  **  ** *   **  *   *******   * *   **** *** * * **         *

miR-789a/789b
cel-mir-789-1TGTCCTGAAGGCAGGCAATTGATGACCCAGACAAGGACTAATCAAGATTGTCGATCTAGTCCCTGCCTGGGTCACCAATTGTCGGCCCCCGCGGGCA
cel-mir-789-2TGTCCTGAAGGCGGACAATTGATGACTCAGGCAGGGACTAATCATGATTGTCGATTTAGTCCCTGCCTGGGTCACCAATTGTCGGCCCCCGCGGACA
 ************ * *********** *** ** ********** ********** ************************************** **

novel5
cel-mir-789-1TGTCCTGAAGGCAGGCAATTGATGACCCAGACAAGGACTAATCAAGATTGTCGATCTAGTCCCTGCCTGGGTCACCAATTGTCGGCCCCCGCGGGCA
cel-mir-789-2TGTCCTGAAGGCGGACAATTGATGACTCAGGCAGGGACTAATCATGATTGTCGATTTAGTCCCTGCCTGGGTCACCAATTGTCGGCCCCCGCGGACA
 ************ * *********** *** ** ********** ********** ************************************** **

miR-790/791
cel-mir-791---------GAACCTTCGATTACCTTATCCGTTGTAGCCAAAGTTCAACGAAGCGGCAACTTTGGCACTCCGCAGATAAGGCAATCGATTGTTT
cel-mir-790GCCGGCTTGGCACTCGCGAACACC---GCGATTTCACTTATAACTC---------GCGGCGTTAGCTCTGTGTCAAACCGGC------------
          * **   ***  ***    *  **  *   * *  **         **  * ** ** **  *   *   ***            

miR-49/83
cel-mir-49TTTTGAAAAAGACCACCGTCCGCAGT-------TTGTTGTGATGTGCTCCA-AGCAATCATGAGTCTGA----AGCACCACG-AGAAGCTGCAGATGGAGGTTCTGATTT
cel-mir-83-----------AGCACCACTCGGAACCACTGAATTTATGTG-TGTACTTGACGGCCAACAAGAGCATCGATCTAGCACCATATAAATTCAGTAATTTCGCGTCGAGAGCT
            * ****   ** *         **  **** *** **  *  ** * ** ***  *      *******   * *  * * *  *    **   **  *

Families of candidate miRNAs
FamilySizeSeedMembers
novel22 miRNAsGUAUUAAsblock65_cand
   sblock79_cand
novel32 miRNAsCCGGCCCsblock65_cand
   sblock79_cand
novel42 miRNAsGCCAAGCblock2960_cand
   block3587_cand
novel2
sblock65_cand-------AAATGAATGTAAAGCCCCAGCCGGCCCTTACCGTTTAATACATGTTCC--CGGTCGATGCACCATGTATTAAACGGTAAGGGCCGGCTGGGGCTTTACA-ACATTT----------
sblock79_candATTTAGGAAATG-TTGTAAAGCCCCAGCCGGCCCTTACCGTTTAATACATGGTGCATCGACCG--GGAACATGTATTAAACGGTAAGGGCCGGCTGGGGCTTTACATTCATTTATTGTTAGAA
        *****  ************************************* * *  **  **  * * *************************************  *****          

novel3
sblock65_cand-------AAATGAATGTAAAGCCCCAGCCGGCCCTTACCGTTTAATACATGTTCC--CGGTCGATGCACCATGTATTAAACGGTAAGGGCCGGCTGGGGCTTTACA-ACATTT----------
sblock79_candATTTAGGAAATG-TTGTAAAGCCCCAGCCGGCCCTTACCGTTTAATACATGGTGCATCGACCG--GGAACATGTATTAAACGGTAAGGGCCGGCTGGGGCTTTACATTCATTTATTGTTAGAA
        *****  ************************************* * *  **  **  * * *************************************  *****          

novel4
block2960_candGTCGACCGAGCGTCCGTGCCAAGCGCTACGTCACCAGGGGATAACTGTCGGAAGGCGGTTAGTCCCGGGTGCATAAGGAGTCGTGGATGGTTCAGGACCGAAAGGTAGCAGACA
block3587_candGTCGACCGAGCGTCCGTGCCAAGCGCTACGTCACCAGGGGATAACTGTCGGAAGGCGGTTAGTCCCGGGTGCATAAGGAGTCGTGGATGGTTCAGGACCGAAAGGTAGCAGACA
 ******************************************************************************************************************

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