other hairpins
novel_multiarm_loopOverlap_nonpairedHIGH (17 loci)
sblock11578 [novel_multiarm_loopOverlap_nonpairedHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.653 | no | no | 0.35/0.50 | 20/20/1.00 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 0 27 | 27 -2 | 5arm 3arm_loop | 1 1 | nd nd | 0.55 0.35 | 8 2 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -GCAUUUG---------------------------------------------------------------------------------------- | 1 | novel |
| seed | --------------------------------------------------AGUGCCA--------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| -------------------------------------------------TAGTGCCATGTGCCTTCGTA--------------------------- | 20 | 1 | |
| TGCATTTGATGTCTAGTTCA---------------------------------------------------------------------------- | 20 | 1 | |
| rat | TGCATTTGATGTCTAGTTCAaactcctgaatgaagaagcagagggatagTAGTGCCATGTGCCTTCGTAgtgtccaggaaatctgggttggttaca | ||
| ************************************************************************************************ | |||
| rat | .........(((((((..((...(((((.((((((..(((..((.((....)).)).)))..))))))......)))))....))..))))..))) | 0.820 -20.90 |
| rat | chromosome:8:47130073:47130168:-1 | intergenic |
sblock1860 [novel_multiarm_loopOverlap_nonpairedHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.048 | no | no | 0.40/0.50 | 18/23/0.71 | 0.0 0.0 0.8 | 1.5 0.0 0.2 | 2 1 4 | 0 0 0 | 1 1 1 | 0 0 0 | 16 15 5 | -9 -2 4 | 5arm_loop_3arm 3arm_loop 3arm | 1 1 1 | nd nd nd | 0.52 0.50 0.47 | 6 5 3 | 7 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------AAAGCAA------------------------------------------- | 2 | novel |
| seed | ------------------------------------------AGACCUA------------------ | 2 | novel |
| seed | --------------------------------------------ACCUAUG---------------- | 1 | novel |
| seed | -----------------------------------AUGGCUU------------------------- | 1 | miR-135a/135b |
| seed | -----------------------------------------UAGACCU------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| -----------------------------------------TAGACCTATGGACTCCTTCA------ | 20 | 2 | |
| -------------------------------------------GACCTATGGACTCCTTCAT----- | 19 | 1 | |
| ----------------------------------------TTAGACCTATGGACTCCTTCA------ | 21 | 1 | |
| ----------------TAAAGCAAAGTCCAGGATGATGG---------------------------- | 23 | 1 | |
| ----------------------------------GATGGCTTAGACCTATGG--------------- | 18 | 1 | |
| ----------------TAAAGCAAAGTCCAGGATGA------------------------------- | 20 | 1 | |
| rat | atggcagaaggagaaaTAAAGCAAAGTCCAGGATGATGGCTTAGACCTATGGACTCCTTCATttcca | ||
| ******************************************************************* | |||
| rat | .(((..(((((((..(((.....(((.(((......)))))).....)))...)))))))....))) | 0.500 -15.70 |
| rat | chromosome:1:124844876:124844942:1 | intergenic |
sblock8463 [novel_multiarm_loopOverlap_nonpairedHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.136 | no | no | 0.45/0.53 | 19/22/0.75 | 0.0 0.0 0.0 | 0.0 0.0 0.0 | 1 2 1 | 0 0 0 | 1 1 1 | 0 0 0 | 8 37 31 | 13 -18 -7 | 5arm 5arm_loop_3arm 3arm_loop | 1 1 1 | nd nd nd | 0.35 0.68 0.53 | 2 10 6 | 4 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------ACAACCU------------------------------------------------- | 2 | novel |
| seed | ---------------------------------------------GAAACCU------------------------------------------ | 1 | novel |
| seed | ---------AGGAGUU------------------------------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| -------------------------------------TACAACCTGAAACCTGAGCTCA----------------------------------- | 22 | 2 | |
| --------------------------------------------TGAAACCTGAGCTCATCCC------------------------------- | 19 | 1 | |
| --------TAGGAGTTGCAAGATCTGGA------------------------------------------------------------------ | 20 | 1 | |
| rat | gcctgaaaTAGGAGTTGCAAGATCTGGAaagggccgcTACAACCTGAAACCTGAGCTCATCCCtaacccagagtttgcagttcagaactagagg | ||
| ********************************************************************************************** | |||
| rat | .(((.......((..((((((.(((((..((((..(((.((..........)))))....))))...))))).))))))..))........))) | 0.980 -25.26 |
| rat | chromosome:4:116141590:116141683:-1 | intergenic |
novel_cloningOK_shortStem_nonpairedHIGH_bulgeHIGH (16 loci)
block239126 [novel_cloningOK_shortStem_nonpairedHIGH_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.486 | no | no | 0.50/0.53 | 19/20/0.81 | 0.1 | 0.1 | 16 | 0 | 8 | 0 | 0 | 2 | 5arm | 1 | nd | 0.35 | 4 | 16 | 8 | na | na |
| reads | miRBase family seed | |||||||||
| seed | -GGGGAGC---------------------------------------------------------------------- | 14 | novel | |||||||
| seed | --GGGAGCC--------------------------------------------------------------------- | 2 | novel | |||||||
| len | cloning frequencies | |||||||||
| T1S1 | T1S2 | T2S1 | T2S2 | T4S1 | T4S2 | T5S1 | T5S2 | |||
| TGGGGAGCCAAACAGGAAAT---------------------------------------------------------- | 20 | 1 | 1 | 2 | 2 | 1 | 2 | 1 | 3 | |
| -GGGGAGCCAAACAGGAAAT---------------------------------------------------------- | 19 | - | - | - | - | - | 1 | - | 1 | |
| TGGGGAGCCAAACAGGAAA----------------------------------------------------------- | 19 | - | - | - | - | - | - | 1 | - | |
| rat | TGGGGAGCCAAACAGGAAATggatctttgataaaacttttgcccaaccagcctgcagacttgctcaaacatataccca | |||||||||
| ****************************************************************************** | ||||||||||
| rat | .(((((((....((((...(((........................))).)))).......)))).........))). | 0.910 -12.66 | ||||||||
| rat | chromosome:13:7066321:7066398:-1 | intergenic |
block404570 [novel_cloningOK_shortStem_nonpairedHIGH_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.093 | no | no | 0.39/0.42 | 18/20/0.90 | 0.0 | 0.0 | 16 | 0 | 7 | 0 | 2 | 14 | 3arm | 1 | nd | 0.35 | 4 | 29 | 7 | na | na |
| reads | miRBase family seed | ||||||||
| seed | -------------------------------------------------------------------------GAGAUGA-------------- | 29 | miR-143 | ||||||
| len | cloning frequencies | ||||||||
| T1S1 | T2S2 | T3S1 | T3S2 | T4S1 | T4S2 | T5S2 | |||
| ------------------------------------------------------------------------TGAGATGAAGCAGAATCTCT-- | 20 | 1 | - | 3 | 4 | 1 | 1 | 16 | |
| ------------------------------------------------------------------------TGAGATGAAGCAGAATCTC--- | 19 | - | 1 | 1 | - | - | - | - | |
| ------------------------------------------------------------------------TGAGATGAAGCAGAATCT---- | 18 | - | - | 1 | - | - | - | - | |
| rat | cagctatccctgttcctccctcatgctccttcccacacaccctctctgactaaataaagaaggaaagcaccaTGAGATGAAGCAGAATCTCTga | ||||||||
| ********************************************************************************************** | |||||||||
| rat | (((..((..(((((.....(((((((((((((..........................))))))..)))...))))....))))).))..))). | 0.970 -15.17 | |||||||
| rat | chromosome:14:61780709:61780802:1 | intergenic |
block1093784 [novel_cloningOK_shortStem_nonpairedHIGH_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.453 | no | no | 0.39/0.44 | 18/23/0.84 | 0.3 | 0.0 | 15 | 0 | 6 | 0 | 3 | 3 | 3arm | 1 | nd | 0.48 | 5 | 25 | 6 | na | na |
| reads | miRBase family seed | |||||||
| seed | ------------------------------------------------AGCAACA----------------- | 17 | novel | |||||
| seed | -----------------------------------------------UAGCAAC------------------ | 8 | novel | |||||
| len | cloning frequencies | |||||||
| T1S1 | T1S2 | T2S2 | T3S1 | T3S2 | T5S1 | |||
| -----------------------------------------------TAGCAACACAGTGGATGAATGA--- | 22 | 1 | 1 | 1 | 1 | - | 11 | |
| ----------------------------------------------TTAGCAACACAGTGGATGAATGA--- | 23 | - | 1 | - | - | 1 | 4 | |
| ----------------------------------------------TTAGCAACACAGTGGATGA------- | 19 | - | - | - | - | - | 2 | |
| -----------------------------------------------TAGCAACACAGTGGATGAA------ | 19 | - | - | - | - | - | 1 | |
| -----------------------------------------------TAGCAACACAGTGGATGA------- | 18 | - | - | - | - | - | 1 | |
| rat | gagttttgtaattccaagggctggggcggggtgggggggggaaccaTTAGCAACACAGTGGATGAATGAttt | |||||||
| ************************************************************************ | ||||||||
| rat | (((((.......((((.....((..((..(((((.........))))).))..))...)))).....))))) | 0.890 -13.80 | ||||||
| rat | chromosome:20:5548155:5548226:1 | intergenic |
block1093974 [novel_cloningOK_shortStem_nonpairedHIGH_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.115 | no | no | 0.50/0.60 | 18/22/0.92 | 0.0 0.9 | 0.0 0.7 | 1 11 | 0 0 | 1 2 | 0 0 | 10 0 | -3 3 | 3arm_loop 3arm | 1 1 | nd nd | 0.35 0.36 | 4 4 | 12 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | --------------------------------------CCGAACU-------------- | 6 | novel | |
| seed | ----------------------------------------GAACUCU------------ | 3 | novel | |
| seed | ------------------------------------GGCCGAA---------------- | 2 | novel | |
| seed | ------------------------------GGUCCUG---------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S2 | T5S1 | |||
| -------------------------------------GCCGAACTCTTCATGGGTCT-- | 20 | 1 | 3 | |
| ---------------------------------------CGAACTCTTCATGGGTCTGA | 20 | - | 2 | |
| -----------------------------------TGGCCGAACTCTTCATGGGTCT-- | 22 | - | 2 | |
| -------------------------------------GCCGAACTCTTCATGGGTCTGA | 22 | - | 2 | |
| ---------------------------------------CGAACTCTTCATGGGTCT-- | 18 | - | 1 | |
| -----------------------------TGGTCCTGGCCGAACTCTTC---------- | 20 | - | 1 | |
| rat | tcagccagcgaggcccacggtcggggagaTGGTCCTGGCCGAACTCTTCATGGGTCTGA | |||
| *********************************************************** | ||||
| rat | ((((((...((((....(((((((((......)))))))))....))))...)).)))) | 0.990 -23.80 | ||
| rat | chromosome:20:5554438:5554496:1 | intergenic |
block1499944 [novel_cloningOK_shortStem_nonpairedHIGH_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.360 | no | no | 0.30/0.43 | 19/25/0.81 | 1.0 | 0.0 | 12 | 0 | 3 | 0 | 0 | 10 | 5arm | 2 | nd | 0.36 | 4 | 21 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | ---CCAUGAA------------------------------------------------------- | 8 | novel | ||
| seed | -CUCCAUG--------------------------------------------------------- | 6 | novel | ||
| seed | -------GAAAGUG--------------------------------------------------- | 5 | novel | ||
| seed | --UCCAUGA-------------------------------------------------------- | 1 | novel | ||
| seed | ----------AGUGAUU------------------------------------------------ | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S1 | T2S2 | T5S1 | |||
| --TCCATGAAAGTGATTGGACT------------------------------------------- | 20 | 1 | - | 6 | |
| TCTCCATGAAAGTGATTGGACT------------------------------------------- | 22 | - | - | 6 | |
| ------TGAAAGTGATTGGACTTTAAGACCT---------------------------------- | 25 | - | 1 | 1 | |
| ------TGAAAGTGATTGGACTTTAA--------------------------------------- | 20 | - | - | 1 | |
| ------TGAAAGTGATTGGACTTTA---------------------------------------- | 19 | - | - | 1 | |
| ------TGAAAGTGATTGGACTTTAAGACC----------------------------------- | 24 | - | - | 1 | |
| ---------AAGTGATTGGACTTTAAGAC------------------------------------ | 20 | - | - | 1 | |
| --TCCATGAAAGTGATTGGAC-------------------------------------------- | 19 | - | - | 1 | |
| -CTCCATGAAAGTGATTGGACT------------------------------------------- | 21 | - | - | 1 | |
| rat | TCTCCATGAAAGTGATTGGACTttaagacctgacacaggccttttataaccctattcttcagggg | ||||
| ***************************************************************** | |||||
| rat | .((((.((.(((.(((.((.....(((.((((...)))).))).......)).)))))))))))) | 0.880 -12.00 | |||
| rat | chromosome:3:141760152:141760216:1 | intergenic |
block2115519 [novel_cloningOK_shortStem_nonpairedHIGH_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.349 | no | no | 0.40/0.48 | 18/25/0.75 | 0.0 | 1.0 | 6 | 0 | 4 | 0 | 1 | 25 | 5arm | 1 | nd | 0.35 | 5 | 12 | 4 | na | na |
| reads | miRBase family seed | |||||
| seed | --CAGGAUG------------------------------------------------------------------------------------------------------ | 11 | novel | |||
| seed | ---AGGAUGA----------------------------------------------------------------------------------------------------- | 1 | novel | |||
| len | cloning frequencies | |||||
| T3S1 | T3S2 | T4S2 | T5S1 | |||
| -TCAGGATGATGAGACTACTGACA--------------------------------------------------------------------------------------- | 23 | - | 4 | - | - | |
| -TCAGGATGATGAGACTACTG------------------------------------------------------------------------------------------ | 20 | 2 | - | - | - | |
| -TCAGGATGATGAGACTAC-------------------------------------------------------------------------------------------- | 18 | - | - | - | 1 | |
| --CAGGATGATGAGACTACTGAC---------------------------------------------------------------------------------------- | 21 | - | - | 1 | - | |
| -TCAGGATGATGAGACTACTGA----------------------------------------------------------------------------------------- | 21 | 1 | - | - | - | |
| -TCAGGATGATGAGACTACT------------------------------------------------------------------------------------------- | 19 | 1 | - | - | - | |
| -TCAGGATGATGAGACTACTGAC---------------------------------------------------------------------------------------- | 22 | 1 | - | - | - | |
| -TCAGGATGATGAGACTACTGACAAA------------------------------------------------------------------------------------- | 25 | - | 1 | - | - | |
| rat | gTCAGGATGATGAGACTACTGACAaaactgcacctgcactgtaaatgctatatagattatgttgttgatgggctagttttggaataacaaagtctgttgtttaaactgatg | |||||
| *************************************************************************************************************** | ||||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000008388 ENSRNOG00000006304 NP_001101569.1 | |||||
| rat | (((((((..((.(((((.....(((((((((.((.(((..((((...((....)).))))..)))....)))).))))))).........)))))))..))....))))). | 0.610 -22.84 | ||||
| rat | chromosome:7:57013247:57013357:-1 | Same_strand|Intronic_coding|ENSRNOT00000008388|ENSRNOG00000006304 ## ENSRNOG00000006304|protein_coding|NP_001101569.1|transformed mouse 3T3 cell double minute 2 homolog [Source:RefSeq_peptide;Acc:NP_001101569] |
block2195742 [novel_cloningOK_shortStem_nonpairedHIGH_bulgeHIGH]
| miRNA | randfold | RNA | rep | GC min/max | len min/max/mir_range | 5'var | 3'var | reads | reads edited | libs | libs edited | base distance | loop distance | position | locations | exon distance | unpaired | max bulge | total reads | total libs | dicer | drosha |
| no | 0.317 | no | no | 0.48/0.50 | 22/23/1.00 | 0.3 | 0.0 | 9 | 0 | 2 | 0 | 1 | 18 | 3arm | 1 | nd | 0.41 | 4 | 10 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -----------------------------------------------------------------GACAGUG---------------- | 6 | novel | |
| seed | ------------------------------------------------------------------ACAGUGA--------------- | 4 | novel | |
| len | cloning frequencies | |||
| T3S1 | T3S2 | |||
| ----------------------------------------------------------------TGACAGTGATGACCATAGACCTG- | 23 | - | 6 | |
| -----------------------------------------------------------------GACAGTGATGACCATAGACCTG- | 22 | 1 | 3 | |
| rat | cgcaacatatggatggcagtgtgcgctgtttccatgcccgtcctttgcacgtaaacagtgttctTGACAGTGATGACCATAGACCTGc | |||
| **************************************************************************************** | ||||
| -------------------------------------------------------------------------------------------------- | ENSRNOT00000030163 ENSRNOG00000025985 LOC687751 | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000007623 ENSRNOG00000005763 Arl1 | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000059363 ENSRNOG00000005763 Arl1 | |||
| rat | .(((...(((((....((.((((((((((((...(((.........)))...))))))))).....))).))....)))))....))) | 0.580 -22.30 | ||
| rat | chromosome:7:25407263:25407350:1 | Same_strand|Intronic_coding|ENSRNOT00000007623|ENSRNOG00000005763 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000051274|ENSRNOG00000025985 ## Opposite_strand|Intronic_coding|ENSRNOT00000030163|ENSRNOG00000025985 ## ENSRNOG00000005763|protein_coding|Arl1|ADP-ribosylation factor-like protein 1. [Source:UniProtKB/Swiss-Prot;Acc:P61212] ## ENSRNOG00000025985|protein_coding|LOC687751| |
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