other hairpins
novel_lenNOK_mirtron_randfoldOK_nonpairedHIGH_bulgeHIGH (9 loci)
block229010 [novel_lenNOK_mirtron_randfoldOK_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 | 0.004 | no | no | 0.32/0.32 | 25/25/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 7 | 14 | 3arm | 1 | 4 | 0.32 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------------AUCCAGA------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T3S1 | |||
| --------------------------------------------------------------------GATCCAGAAATGTTTTTCTCTTTTG------- | 25 | 1 | |
| rat | agcctctcacacagagaagtgtttacgggtttttattttgttttgatcttgagtttgaggcaagctatGATCCAGAAATGTTTTTCTCTTTTGataggca | ||
| **************************************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>> | ENSRNOT00000001738 ENSRNOG00000001285 Atp2a2 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>> | ENSRNOT00000024347 ENSRNOG00000001285 Atp2a2 | ||
| rat | .((((.(((...(((((((..(((..(((((..((.((((((((((........)))))))))).)).)))))..)))..)))))))....))).)))). | 1.000 -29.30 |
| rat | chromosome:12:35302988:35303087:1 | Same_strand|Intronic_coding|ENSRNOT00000001738|ENSRNOG00000001285 ## ENSRNOG00000001285|protein_coding|Atp2a2|Sarcoplasmic/endoplasmic reticulum calcium ATPase 2 (EC 3.6.3.8) (Calcium pump 2) (SERCA2) (SR Ca(2+)-ATPase 2) (Calcium-transporting ATPase sarcoplasmic reticulum type, slow twitch skeletal muscle isoform) (Endoplasmic reticulum class 1/2 Ca(2+) ATPase). [Source:UniProtKB/Swiss-Prot;Acc:P11507] |
block1058632 [novel_lenNOK_mirtron_randfoldOK_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 | 0.009 | no | no | 0.61/0.61 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 20 | 6 | 3arm | 1 | 2 | 0.44 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------------------------------------------GACCUGC------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T4S2 | |||
| ------------------------------------------------------TGACCTGCCCTTCCCTAC-------------------- | 18 | 1 | |
| rat | tctggaggtgaggagacctatgggcagggctggggagattagaaccagctattcTGACCTGCCCTTCCCTACagctcagtggcccgccagat | ||
| ******************************************************************************************** | |||
| >>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000001153 ENSRNOG00000000860 G7c | ||
| rat | (((((.(((...(((......(((.(((((.((..(((.(((......))).)))..)).))))).))).....)))....)))..))))). | 0.990 -38.70 |
| rat | chromosome:20:3865865:3865956:-1 | Same_strand|Intronic_coding|ENSRNOT00000001153|ENSRNOG00000000860 ## ENSRNOG00000000860|protein_coding|G7c|Protein G7c precursor. [Source:UniProtKB/Swiss-Prot;Acc:Q6MG64] |
block1194370 [novel_lenNOK_mirtron_randfoldOK_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 | 0.001 | no | no | 0.57/0.61 | 18/21/0.50 | 0.5 | 2.0 | 2 | 0 | 2 | 0 | 16 | 3 | 3arm | 1 | 1 | 0.33 | 4 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -----------------------------------------------------------CCCUUUG----------------------------- | 1 | novel | |
| seed | ----------------------------------------------------------CCCCUUU------------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T1S2 | |||
| ---------------------------------------------------------GCCCCTTTGCTTCCTCTG-------------------- | 18 | 1 | - | |
| ----------------------------------------------------------CCCCTTTGCTTCCTCTGCAGA---------------- | 21 | - | 1 | |
| rat | ctgcctcccttccactctgtcagagtgttcctaagggccagctctcaaccttctctgGCCCCTTTGCTTCCTCTGCAGAgatctaaaatcgcagt | |||
| *********************************************************************************************** | ||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000039610 ENSRNOG00000028589 Gria2 | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000039587 ENSRNOG00000028589 Gria2 | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000039491 ENSRNOG00000028589 Gria2 | |||
| rat | ((((..........(((((.(((((.((......(((((((.............)))))))....))...))))))))))..........)))). | 0.980 -30.17 | ||
| rat | chromosome:2:172272477:172272571:-1 | Same_strand|Boundary_coding|ENSRNOT00000039610|ENSRNOG00000028589 ## ENSRNOG00000028589|protein_coding|Gria2|Glutamate receptor 2 precursor (GluR-2) (GluR-B) (GluR-K2) (Glutamate receptor ionotropic, AMPA 2) (AMPA-selective glutamate receptor 2). [Source:UniProtKB/Swiss-Prot;Acc:P19491] |
block1592684 [novel_lenNOK_mirtron_randfoldOK_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 | 0.006 | no | no | 0.61/0.61 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 35 | 5 | 3arm | 1 | 4 | 0.33 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ------------------------------------------------------------------AGAGCUG--------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S2 | |||
| -----------------------------------------------------------------TAGAGCTGCCTTGTCCCC----------------------------------- | 18 | 1 | |
| rat | tgttcaagcagggtctgagagctgagatccgcctgtgtggacaggcagggagccagagaaggttcTAGAGCTGCCTTGTCCCCacagctgcagccggagcagctggactgtggagcag | ||
| ********************************************************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000032158 ENSRNOG00000025209 Plxnd1 | ||
| rat | (((((...((.(((((...(((((...((((((((((.((((((((((((((((......))))))....)))))).)))).))))).....)).))).)))))))))).))))))). | 0.940 -54.10 |
| rat | chromosome:4:152106195:152106312:-1 | Same_strand|Intronic_coding|ENSRNOT00000032158|ENSRNOG00000025209 ## Same_strand|Boundary_non-coding|ENSRNOT00000056398|ENSRNOG00000025209 ## ENSRNOG00000025209|protein_coding|Plxnd1|plexin D1 Gene [Source:MGI (curated);Acc:Plxnd1-001] |
block2157238 [novel_lenNOK_mirtron_randfoldOK_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 | 0.003 | no | no | 0.58/0.62 | 18/21/0.56 | 0.2 | 1.4 | 9 | 0 | 2 | 0 | 23 | 14 | 3arm | 2 | 0 | 0.37 | 4 | 9 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | ---------------------------------------------------------------------------CACUCCA------------------------------------ | 7 | novel | |
| seed | --------------------------------------------------------------------------CCACUCC------------------------------------- | 2 | novel | |
| len | cloning frequencies | |||
| T2S1 | T2S2 | |||
| --------------------------------------------------------------------------CCACTCCATCTCCACTCCCAG----------------------- | 21 | 1 | 3 | |
| -------------------------------------------------------------------------TCCACTCCATCTCCACTCC-------------------------- | 19 | - | 2 | |
| --------------------------------------------------------------------------CCACTCCATCTCCACTCC-------------------------- | 18 | - | 2 | |
| --------------------------------------------------------------------------CCACTCCATCTCCACTCCCA------------------------ | 20 | 1 | - | |
| rat | ggctggtgggtgatgggtgaggaatgcaggtgtgcacagggagatatgggcagtccattgatttgcttgtatcTCCACTCCATCTCCACTCCCAGggcagtccatcaatcccaaggcc | |||
| ********************************************************************************************************************** | ||||
| >>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000050002 ENSRNOG00000030182 Cyp2d1 | |||
| >>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000056006 ENSRNOG00000030182 Cyp2d1 | |||
| rat | ((((..(((((((((((((.(((.((.(((((.......(((((((..(((((((....)))).)))..)))))))....))))).)).))).....)).)))))))..)))).)))) | 0.780 -49.20 | ||
| rat | chromosome:7:120772223:120772340:-1 | Same_strand|Intronic_coding|ENSRNOT00000050002|ENSRNOG00000030182 ## ENSRNOG00000030182|protein_coding|Cyp2d1|Cytochrome P450 2D1 (EC 1.14.14.1) (CYPIID1) (P450-DB1) (P450-CMF1A) (P450-UT-7) (Debrisoquine 4-hydroxylase). [Source:UniProtKB/Swiss-Prot;Acc:P10633] |
block2270674 [novel_lenNOK_mirtron_randfoldOK_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 | 0.009 | no | no | 0.53/0.53 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 12 | 3 | 5arm | 1 | 2 | 0.37 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------GGGGACC---------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| ------------TGGGGACCAAGAAAGTCCA----------------------------------------- | 19 | 1 | |
| rat | agtaccttaaggTGGGGACCAAGAAAGTCCAgaatctgccttcctcttcctggtccctgcccctcaggccct | ||
| ************************************************************************ | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000055358 ENSRNOG00000036874 | ||
| >>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000009979 ENSRNOG00000007346 Grasp | ||
| rat | ((..(((...((..(((((((.((.((....(((......)))..)))).)))))))..))....)))..)) | 1.000 -24.30 |
| rat | chromosome:7:139976357:139976428:1 | Same_strand|Intronic_coding|ENSRNOT00000009979|ENSRNOG00000007346 ## ENSRNOG00000007346|protein_coding|Grasp|General receptor for phosphoinositides 1-associated scaffold protein (GRP1-associated scaffold protein) (Tamalin) (95 kDa postsynaptic density protein discs-large ZO-1 domain-containing protein) (PSD-95 PDZ domain-containing protein). [Source:UniProtKB/Swiss-Prot;Acc:Q8R4T5] ## ENSRNOG00000036874|protein_coding|| |
block2386438 [novel_lenNOK_mirtron_randfoldOK_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 | 0.007 | no | no | 0.67/0.67 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 14 | 17 | 3arm | 1 | 2 | 0.44 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------------------------GAGGGCU------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T3S1 | |||
| --------------------------------------------------------------------------------TGAGGGCTGCAACCGCGA-------------- | 18 | 1 | |
| rat | acttacagggctgctctgtggagaaggccaataacccaggggtccgagaggtggtgtgcatgacgcttctggaaaacaggTGAGGGCTGCAACCGCGAagggtgctgtgagt | ||
| **************************************************************************************************************** | |||
| >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000009342 ENSRNOG00000006931 RGD1307401 | ||
| rat | ((((((((.(((.((.(((((....((((....(((......(((.(((((((..........)))))))))).....)))...))))....))))).))))).)))))))) | 0.980 -44.30 |
| rat | chromosome:8:25174278:25174389:1 | Same_strand|Intronic_coding|ENSRNOT00000009342|ENSRNOG00000006931 ## ENSRNOG00000006931|protein_coding|RGD1307401|similar to RIKEN cDNA 2310005P05 (RGD1307401), mRNA [Source:RefSeq_dna;Acc:NM_001014088] |
novel_lenNOK_multiarm_5varHIGH (9 loci)
block712931 [novel_lenNOK_multiarm_5varHIGH]
| 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 | 0.585 | no | no | 0.45/0.60 | 19/24/0.56 | 0.0 1.9 0.0 | 0.0 2.0 0.0 | 1 7 1 | 0 0 0 | 1 2 1 | 0 0 0 | 0 8 22 | 15 0 -11 | 5arm 5arm 5arm_loop_3arm | 1 1 1 | nd nd nd | 0.25 0.35 0.33 | 3 5 5 | 9 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | ------------GGGUGAC------------------------------------------------- | 3 | novel | ||
| seed | ----------------GACAUCG--------------------------------------------- | 2 | novel | ||
| seed | -----------------------AGUGAUU-------------------------------------- | 1 | novel | ||
| seed | --------------GUGACAU----------------------------------------------- | 1 | novel | ||
| seed | ---------CCAGGGU---------------------------------------------------- | 1 | novel | ||
| seed | -AGGCAAC------------------------------------------------------------ | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S2 | T5S1 | T5S2 | |||
| -----------AGGGTGACATCGAGTGATT-------------------------------------- | 19 | - | 3 | - | |
| ---------------TGACATCGAGTGATTAGGCT--------------------------------- | 20 | - | 2 | - | |
| -------------GGTGACATCGAGTGATTAG------------------------------------ | 19 | - | 1 | - | |
| --------TCCAGGGTGACATCGAGTGA---------------------------------------- | 20 | 1 | - | - | |
| ----------------------GAGTGATTAGGCTGCTGGGGTCAA---------------------- | 24 | - | - | 1 | |
| CAGGCAACTCCAGGGTGACA------------------------------------------------ | 20 | - | 1 | - | |
| rat | CAGGCAACTCCAGGGTGACATCGAGTGATTAGGCTGCTGGGGTCAAgttcttcacgtcggagtgtttg | ||||
| ******************************************************************** | |||||
| rat | (((((.(((((.((((((.....((.((((.((((.....)))).)))))))))).)))))))))))) | 0.670 -16.90 | |||
| rat | chromosome:18:63566077:63566144:-1 | intergenic |
block1577955 [novel_lenNOK_multiarm_5varHIGH]
| 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 | 0.039 | no | no | 0.37/0.52 | 19/24/0.60 | 1.2 0.0 | 1.8 0.0 | 4 1 | 0 0 | 1 1 | 0 0 | 10 21 | 1 -6 | 5arm 5arm_loop_3arm | 1 1 | nd nd | 0.26 0.43 | 2 5 | 5 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ------------CAGCCUU----------------------------------------------------------- | 2 | novel |
| seed | -----------UCAGCCU------------------------------------------------------------ | 1 | novel |
| seed | ----------------CUUAUUA------------------------------------------------------- | 1 | novel |
| seed | ----------------------AACGUUC------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S1 | |||
| -----------TCAGCCTTATTAACGTTCACAGTG------------------------------------------- | 24 | 2 | |
| ---------------------TAACGTTCACAGTGCAGGCAG------------------------------------ | 21 | 1 | |
| ----------TTCAGCCTTATTAACGTTC------------------------------------------------- | 19 | 1 | |
| ---------------CCTTATTAACGTTCACAGT-------------------------------------------- | 19 | 1 | |
| rat | gcatgggggtTTCAGCCTTATTAACGTTCACAGTGCAGGCAGcacaaagaagttgggggccaggaagctgcttaagca | ||
| ****************************************************************************** | |||
| rat | ((..((.((((((.((((..(((((.(((...((((.....))))...))))))))))))...)))))).))...)). | 1.000 -25.60 |
| rat | chromosome:4:122193035:122193112:-1 | intergenic |
sblock10084 [novel_lenNOK_multiarm_5varHIGH]
| 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 | 0.386 | no | no | 0.40/0.47 | 19/25/0.33 | 0.0 3.0 | 0.0 0.5 | 1 2 | 0 0 | 1 1 | 0 0 | 25 3 | 9 31 | 5arm 3arm | 1 1 | nd nd | 0.42 0.30 | 7 3 | 3 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -----------------------------------------------------------------------------------------ACAAAUA--------------------- | 1 | novel | |
| seed | --------------------------GGUUGCU------------------------------------------------------------------------------------ | 1 | novel | |
| seed | -----------------------------------------------------------------------------------------------ACAGGUG--------------- | 1 | novel | |
| len | cloning frequencies | |||
| T5S1 | T5S2 | |||
| ----------------------------------------------------------------------------------------------TACAGGTGAAACTGAAGTGT--- | 20 | 1 | - | |
| -------------------------TGGTTGCTTTGTGGTAGGA------------------------------------------------------------------------- | 19 | - | 1 | |
| ----------------------------------------------------------------------------------------GACAAATACAGGTGAAACTGAAGTG---- | 25 | 1 | - | |
| rat | tgataaccattgccttgtaccttcaTGGTTGCTTTGTGGTAGGAtgacagtcagaaatgggtttattgtttggaagaagcaccatgcaGACAAATACAGGTGAAACTGAAGTGTcaa | |||
| ********************************************************************************************************************* | ||||
| rat | (((((..(((((((.((((.((.(((((.((((((.......(((((...(((....)))..)))))........))))))))))).)).....)))))))))...))...))))). | 0.750 -25.36 | ||
| rat | chromosome:6:122558189:122558305:-1 | intergenic |
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