other hairpins
novel_lenNOK_cloningHIGH (236 loci)
block1848505 [novel_lenNOK_cloningHIGH]
| 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 | 0.259 | no | no | 0.50/0.57 | 18/23/0.06 | 0.0 | 0.0 | 97 | 0 | 5 | 0 | 23 | 4 | 5arm | 1 | nd | 0.21 | 2 | 115 | 5 | na | na |
| reads | miRBase family seed | ||||||
| seed | ------------------------CCCGAUG---------------------------------------------------------------------- | 114 | novel | ||||
| seed | --------------------GGGACCC-------------------------------------------------------------------------- | 1 | novel | ||||
| len | cloning frequencies | ||||||
| T1S1 | T1S2 | T2S1 | T2S2 | T5S1 | |||
| -----------------------ACCCGATGTTCTGAGGAAG----------------------------------------------------------- | 19 | 3 | - | 1 | 1 | 97 | |
| -----------------------ACCCGATGTTCTGAGGAA------------------------------------------------------------ | 18 | - | - | 1 | - | 5 | |
| -----------------------ACCCGATGTTCTGAGGAAGCAG-------------------------------------------------------- | 22 | - | 1 | - | - | 2 | |
| -----------------------ACCCGATGTTCTGAGGAAGCAGG------------------------------------------------------- | 23 | - | - | - | - | 2 | |
| -----------------------ACCCGATGTTCTGAGGAAGC---------------------------------------------------------- | 20 | - | - | - | - | 1 | |
| -------------------TGGGACCCGATGTTCTGAGGAAG----------------------------------------------------------- | 23 | - | - | - | - | 1 | |
| rat | tcacccgctcactgctttctgggACCCGATGTTCTGAGGAAGcaggtgtcttctgctttgtctaggtcgtagtctctggtctttggttcattgtcctgtga | ||||||
| ***************************************************************************************************** | |||||||
| rat | ((((..((.....(((....((((((.(((..(((((.((((((((.....)))))))).)).))).....)))...)))))).))).....))...)))) | 0.510 -27.10 | |||||
| rat | chromosome:5:79246342:79246442:1 | intergenic |
novel_lenNOK_multiarm_loopOverlap (232 loci)
block6780 [novel_lenNOK_multiarm_loopOverlap]
| 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 | 0.094 | no | no | 0.70/0.75 | 18/23/0.50 | 0.0 0.0 0.0 | 0.0 0.0 2.0 | 1 1 2 | 0 0 0 | 1 1 1 | 0 0 0 | 28 11 3 | -17 -1 4 | 5arm_loop_3arm 3arm 3arm | 1 1 1 | nd nd nd | 0.28 0.25 0.32 | 3 3 3 | 4 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | -------------------------------------CCCCAAC------------------ | 2 | novel | ||
| seed | -----------------------------UACCAGG-------------------------- | 1 | novel | ||
| seed | --------------------------------CAGGGCC----------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S2 | T2S1 | T3S2 | |||
| -------------------------------CCAGGGCCCCAACCCCAGAC----------- | 20 | - | 1 | - | |
| ------------------------------------GCCCCAACCCCAGACAGCC------- | 19 | 1 | - | - | |
| ----------------------------GTACCAGGGCCCCAACCC---------------- | 18 | - | - | 1 | |
| ------------------------------------GCCCCAACCCCAGACAGCCCGAT--- | 23 | 1 | - | - | |
| rat | ggaggcctagggggaggggtagctacctGTACCAGGGCCCCAACCCCAGACAGCCCGATtcc | ||||
| ************************************************************** | |||||
| <<<<<<<<<<<------------------------------------------------------------- | ENSRNOT00000021650 ENSRNOG00000015749 Nme3 | ||||
| rat | ((((((((.((((..(((((.....((((...)))))))))..))))))...)))....))) | 1.000 -25.40 | |||
| rat | chromosome:10:14145775:14145836:-1 | Opposite_strand|Intronic_coding|ENSRNOT00000021650|ENSRNOG00000015749 ## ENSRNOG00000015749|protein_coding|Nme3|non-metastatic cell expressed protein 3 [Source:RefSeq_peptide;Acc:NP_445959] |
block17405 [novel_lenNOK_multiarm_loopOverlap]
| 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 | 0.527 | no | no | 0.63/0.68 | 19/19/0.00 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 28 13 | -15 -2 | 5arm_loop_3arm 3arm_loop | 1 1 | nd nd | 0.21 0.16 | 4 1 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -----------------------------UGGGAAC------------------------------ | 1 | novel | |
| seed | -----------------------------------CUCACGA------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T3S1 | T5S1 | |||
| ----------------------------------ACTCACGAGCCTCGCACGC------------- | 19 | - | 1 | |
| ----------------------------GTGGGAACTCACGAGCCTC------------------- | 19 | 1 | - | |
| rat | gttggcggtggcggagtctgaggcgtcgGTGGGAACTCACGAGCCTCGCACGCagaggccctcagc | |||
| ****************************************************************** | ||||
| .....................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000011340 ENSRNOG00000008432 Slc22a5 | |||
| rat | (((((.(((.(((..((..(((((.((.((((....))))))))))))).)))....))).))))) | 1.000 -24.50 | ||
| rat | chromosome:10:39338685:39338750:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000011340|ENSRNOG00000008432 ## ENSRNOG00000008432|protein_coding|Slc22a5|Organic cation/carnitine transporter 2 (Solute carrier family 22 member 5) (High-affinity sodium-dependent carnitine cotransporter) (UST2r) (CT1). [Source:UniProtKB/Swiss-Prot;Acc:O70594] |
block34224 [novel_lenNOK_multiarm_loopOverlap]
| 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 | 0.026 | no | no | 0.67/0.79 | 18/19/0.00 | 1.0 0.0 | 1.0 0.0 | 2 1 | 0 0 | 2 1 | 0 0 | 0 6 | 0 -3 | 5arm 5arm_loop_3arm | 1 1 | nd nd | 0.16 0.33 | 2 3 | 3 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | ---CCGCCCG------------------------------------------ | 1 | novel | ||
| seed | -CACCGCC-------------------------------------------- | 1 | novel | ||
| seed | -------CCGCUGG-------------------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T2S1 | T3S2 | T5S1 | |||
| ACACCGCCCGCTGGGCCCA--------------------------------- | 19 | - | - | 1 | |
| ------CCCGCTGGGCCCACAAAA---------------------------- | 18 | 1 | - | - | |
| --ACCGCCCGCTGGGCCCACA------------------------------- | 19 | - | 1 | - | |
| rat | ACACCGCCCGCTGGGCCCACAAAAtgggggagactacggcgtccaggcggtg | ||||
| **************************************************** | |||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000035280 ENSRNOG00000003679 NP_001100505.1 | ||||
| rat | .((((((((((((..(((.((...)).)))......)))))....))))))) | 0.870 -22.90 | |||
| rat | chromosome:10:74586536:74586587:-1 | Same_strand|Intronic_coding|ENSRNOT00000035280|ENSRNOG00000003679 ## ENSRNOG00000003679|protein_coding|NP_001100505.1|thyroid hormone receptor associated protein 1 [Source:RefSeq_peptide;Acc:NP_001100505] |
block44987 [novel_lenNOK_multiarm_loopOverlap]
| 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 | 0.091 | no | no | 0.44/0.50 | 18/20/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 32 35 | 1 -4 | 5arm 5arm_loop_3arm | 9 9 | nd nd | 0.22 0.35 | 2 4 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | ------------------------------------UGAUGCU------------------------------------------------------------------ | 1 | novel | |
| seed | ---------------------------------CAAUGAU--------------------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S2 | T4S1 | |||
| --------------------------------TCAATGATGCTGCCTTTC----------------------------------------------------------- | 18 | 1 | - | |
| -----------------------------------ATGATGCTGCCTTTCACCAC------------------------------------------------------ | 20 | - | 1 | |
| rat | tgataatgctgttttaattagaattccctacaTCAATGATGCTGCCTTTCACCACtgaaaggcatttactgtggtttatgtatgatatcaaataaagagtatttaacat | |||
| ************************************************************************************************************* | ||||
| ----------------------------------------------------------------------------------------------------------------------- | ENSRNOT00000008541 ENSRNOG00000006285 Tlk2_predicted | |||
| ----------------------------------------------------------------------------------------------------------------------- | ENSRNOT00000051364 ENSRNOG00000006285 Tlk2_predicted | |||
| ----------------------------------------------------------------------------------------------------------------------- | ENSRNOT00000008482 ENSRNOG00000006285 Tlk2_predicted | |||
| rat | ((..((((((.(((..(((.((..((..(((((.(((.((..(((((((((....)))))))))......)).))).))))).))..)).)))))).))))))...)). | 0.910 -21.10 | ||
| rat | chromosome:10:94653871:94653979:-1 | Opposite_strand|Intronic_coding|ENSRNOT00000008482|ENSRNOG00000006285 ## ENSRNOG00000006285|protein_coding|Tlk2_predicted|Tlk2_predicted protein (Fragment). [Source:UniProtKB/TrEMBL;Acc:Q5RJQ5] |
block53366 [novel_lenNOK_multiarm_loopOverlap]
| 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 | 0.207 | no | no | 0.47/0.48 | 19/21/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 34 43 | 1 -6 | 5arm 5arm_loop_3arm | 1 1 | nd nd | 0.29 0.37 | 3 5 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -----------------------------------UCGCACU--------------------------------------------------------------------------- | 1 | novel | |
| seed | --------------------------------------------UUGUCGU------------------------------------------------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T3S2 | T5S1 | |||
| ----------------------------------CTCGCACTAATTGTCGTACAC-------------------------------------------------------------- | 21 | - | 1 | |
| -------------------------------------------ATTGTCGTACACGTTCCTC------------------------------------------------------- | 19 | 1 | - | |
| rat | gaaacagaagtccggaagttcgagagactgttctCTCGCACTAATTGTCGTACACGTTCCTCggttctggcaaacgtgcgtgtcctgcagcttttctggttccgatccgttgtgtcc | |||
| ********************************************************************************************************************* | ||||
| ........................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000054922 ENSRNOG00000036666 LOC619574 | |||
| rat | ((.((((.....(((((....(((((.((((.....(((((...((((((.((.((.....))))..))))))..)))))......)))))))))....))))).....)))).)). | 0.800 -31.10 | ||
| rat | chromosome:10:110462144:110462260:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000054922|ENSRNOG00000036666 ## ENSRNOG00000036666|protein_coding|LOC619574|Uncharacterized protein C17orf62 homolog. [Source:UniProtKB/Swiss-Prot;Acc:Q6AYA6] |
block56871 [novel_lenNOK_multiarm_loopOverlap]
| 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 | 0.973 | no | no | 0.56/0.68 | 18/19/0.00 | 0.0 0.0 1.0 | 0.0 0.0 0.8 | 2 1 5 | 0 0 0 | 1 1 3 | 0 0 0 | 55 62 29 | -10 -16 0 | 5arm_loop_3arm 5arm_loop_3arm 3arm | 1 1 1 | 40 33 24 | 0.47 0.28 0.17 | 4 3 1 | 8 | 4 | na | na |
| reads | miRBase family seed | |||||
| seed | ------------------------------------------------------------------------UGGAAGA--------------------------------------- | 3 | novel | |||
| seed | --------------------------------------------------------GUCGGAG------------------------------------------------------- | 2 | novel | |||
| seed | -----------------------------------------------------------------------CUGGAAG---------------------------------------- | 1 | novel | |||
| seed | ---------------------------------------------------------------CGCAGCA------------------------------------------------ | 1 | novel | |||
| seed | --------------------------------------------------------------------CAGCUGG------------------------------------------- | 1 | novel | |||
| len | cloning frequencies | |||||
| T1S1 | T3S1 | T3S2 | T5S2 | |||
| -----------------------------------------------------------------------CTGGAAGAGTTGGACGTG----------------------------- | 18 | 1 | - | 2 | - | |
| -------------------------------------------------------AGTCGGAGCGCAGCAGCTG-------------------------------------------- | 19 | 2 | - | - | - | |
| ----------------------------------------------------------------------GCTGGAAGAGTTGGACGT------------------------------ | 18 | - | 1 | - | - | |
| -------------------------------------------------------------------GCAGCTGGAAGAGTTGGAC-------------------------------- | 19 | - | 1 | - | - | |
| --------------------------------------------------------------GCGCAGCAGCTGGAAGAG-------------------------------------- | 18 | - | - | - | 1 | |
| rat | ggccccacactccgccctgccagcggccacgcccccagttcccctctattcttgcAGTCGGAGCGCAGCAGCTGGAAGAGTTGGACGTGtcgccaggtaagcggctggtcccgggacc | |||||
| ********************************************************************************************************************** | ||||||
| ...............................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++ | ENSRNOT00000003514 ENSRNOG00000002610 Carhsp1 | |||||
| rat | (((((...(((((((..((((.((((.((((.((.............((((((.((((....((...)).)))).)))))).)).))))))))..)))).))))..)))...))).)) | 0.500 -37.64 | ||||
| rat | chromosome:10:6986525:6986642:1 | Same_strand|Boundary_non-coding|ENSRNOT00000003514|ENSRNOG00000002610 ## ENSRNOG00000002610|protein_coding|Carhsp1|Calcium-regulated heat stable protein 1 (Calcium-regulated heat-stable protein of 24 kDa) (CRHSP-24). [Source:UniProtKB/Swiss-Prot;Acc:Q9WU49] |
block66558 [novel_lenNOK_multiarm_loopOverlap]
| 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 | 0.247 | no | no | 0.44/0.50 | 18/18/0.00 | 0.0 0.0 | 0.0 0.0 | 1 2 | 0 0 | 1 1 | 0 0 | 40 16 | -16 0 | 5arm_loop_3arm 3arm | 1 1 | nd nd | 0.39 0.17 | 4 2 | 3 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -----------------------------------------------GAGUCAA-------------------------- | 2 | novel | |
| seed | -----------------------------------------UAGGGAG-------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T1S2 | |||
| ----------------------------------------------AGAGTCAAACTGGATTCC---------------- | 18 | - | 2 | |
| ----------------------------------------CTAGGGAGAGTCAAACTG---------------------- | 18 | 1 | - | |
| rat | cgcctccttccctttggggttagtgtgcctgtgtttagctCTAGGGAGAGTCAAACTGGATTCCacagggagagcctgca | |||
| ******************************************************************************** | ||||
| ....................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000059557 ENSRNOG00000038963 | |||
| rat | .(((((..(((((.((((((.......((...((((..((((....))))..)))).)))))))).))))))))...)). | 0.450 -25.11 | ||
| rat | chromosome:10:29769198:29769277:1 | Same_strand|Boundary_non-coding|ENSRNOT00000059557|ENSRNOG00000038963 ## ENSRNOG00000038963|pseudogene|| |
block86348 [novel_lenNOK_multiarm_loopOverlap]
| 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 | 0.043 | no | no | 0.72/0.87 | 18/23/0.20 | 0.0 0.0 0.5 | 0.0 0.0 1.0 | 1 2 2 | 0 0 0 | 1 1 2 | 0 0 0 | 28 38 44 | 4 -1 -9 | 5arm 5arm_loop 5arm_loop_3arm | 1 1 1 | nd nd nd | 0.17 0.33 0.44 | 2 2 6 | 5 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | ---------------------------------------GGUGGCG-------------------------------------------------------------------------- | 2 | novel | ||
| seed | ----------------------------------------------GCCCCGA------------------------------------------------------------------- | 1 | novel | ||
| seed | -----------------------------CUGCUGG------------------------------------------------------------------------------------ | 1 | novel | ||
| seed | ---------------------------------------------GGCCCCG-------------------------------------------------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S1 | T3S1 | T3S2 | |||
| --------------------------------------CGGTGGCGGCCCCGAGCA---------------------------------------------------------------- | 18 | - | - | 2 | |
| ----------------------------GCTGCTGGCGCGGTGGCGGCCCC--------------------------------------------------------------------- | 23 | - | 1 | - | |
| --------------------------------------------CGGCCCCGAGCAAGATGG---------------------------------------------------------- | 18 | 1 | - | - | |
| ---------------------------------------------GGCCCCGAGCAAGATGGCG-------------------------------------------------------- | 19 | - | - | 1 | |
| rat | ccccggaagtgcctgtcttcggctgacaGCTGCTGGCGCGGTGGCGGCCCCGAGCAAGATGGCGctgcggccgggagccggagccagcggcgcggcgggggcgggcacagggcccggcgg | ||||
| ************************************************************************************************************************ | |||||
| ...............................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000055908 ENSRNOG00000000242 Ap1gbp1 | ||||
| ...............................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000000259 ENSRNOG00000000242 Ap1gbp1 | ||||
| rat | ((((((..(((((((((..((.(((...(((((((((.((((..(((((.((.((......))..)).)))))...))))..))))))))).)))))..))))))))).....)))).)) | 1.000 -73.70 | |||
| rat | chromosome:10:72247662:72247781:1 | Same_strand|Boundary_non-coding|ENSRNOT00000055908|ENSRNOG00000000242 ## ENSRNOG00000000242|protein_coding|Ap1gbp1|AP1 gamma subunit binding protein 1 Gene [Source:MGI (curated);Acc:Ap1gbp1-001] |
block131352 [novel_lenNOK_multiarm_loopOverlap]
| 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 | 0.217 | no | no | 0.39/0.55 | 18/20/0.50 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 56 33 | -17 1 | 5arm_loop_3arm 3arm | 1 1 | nd nd | 0.50 0.30 | 4 3 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | ---------------------------------------------------------------AUAAACA--------------------------------------------- | 1 | novel | |
| seed | ---------------------------------------------------------UUUUCUA--------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T3S1 | T4S1 | |||
| --------------------------------------------------------GTTTTCTATAAACAGGGG----------------------------------------- | 18 | 1 | - | |
| --------------------------------------------------------------TATAAACAGGGGCCACTGGG--------------------------------- | 20 | - | 1 | |
| rat | ttgggtatttctgggttgaagggtgtgacaggtgtgactcagggctaggtttctgaGTTTTCTATAAACAGGGGCCACTGGGtattgctttggaccttcctggcttgttactcgg | |||
| ******************************************************************************************************************* | ||||
| rat | .((((((...(((((....(((((.(((..(((...((((((((((..((((...((....))..))))...)))).))))))...)))))).)))))))))).....)))))). | 0.980 -33.80 | ||
| rat | chromosome:11:67834456:67834570:-1 | intergenic |
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