other hairpins
novel_lenNOK_cloningOK_shortStem_randfoldOK (36 loci)
block2764039 [novel_lenNOK_cloningOK_shortStem_randfoldOK]
| 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 | 0.16/0.17 | 18/19/0.00 | 0.0 | 0.0 | 11 | 0 | 3 | 0 | 1 | 43 | 5arm | 1 | nd | 0.28 | 3 | 18 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | --AAUUUCC------------------------------------------------------------------------------------------------------------ | 18 | novel | ||
| len | cloning frequencies | ||||
| T1S1 | T1S2 | T2S1 | |||
| -AAATTTCCGTTTTATTTT-------------------------------------------------------------------------------------------------- | 18 | 11 | 2 | 1 | |
| -AAATTTCCGTTTTATTTTT------------------------------------------------------------------------------------------------- | 19 | 3 | 1 | - | |
| rat | aAAATTTCCGTTTTATTTTtgaacatttattccctaggttgcttttacacttgatcttagccaaaaggctgagaagcgatccctaggttgcttttaatgttgatgaaatgctagttt | ||||
| ********************************************************************************************************************* | |||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000000174 ENSRNOG00000000161 Chm | ||||
| rat | .(((((..(((((((((....((((((.....(((((((((((...........((((((((....)))))))))))))..))))))........)))))))))))))))..))))) | 0.940 -32.72 | |||
| rat | chromosome:X:101866504:101866620:-1 | Same_strand|Intronic_coding|ENSRNOT00000000174|ENSRNOG00000000161 ## ENSRNOG00000000161|protein_coding|Chm|Rab proteins geranylgeranyltransferase component A 1 (Rab escort protein 1) (REP-1) (Choroideraemia protein homolog). [Source:UniProtKB/Swiss-Prot;Acc:P37727] |
block2923335 [novel_lenNOK_cloningOK_shortStem_randfoldOK]
| 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 | 0.44/0.47 | 18/20/0.03 | 0.0 | 0.0 | 25 | 0 | 10 | 0 | 4 | 25 | 5arm | 1 | nd | 0.28 | 3 | 33 | 10 | na | na |
| reads | miRBase family seed | |||||||||||
| seed | -----GGUUCAG------------------------------------------------------------------------------------------------------------ | 33 | novel | |||||||||
| len | cloning frequencies | |||||||||||
| T1S1 | T1S2 | T2S1 | T2S2 | T3S1 | T3S2 | T4S1 | T4S2 | T5S1 | T5S2 | |||
| ----TGGTTCAGTTCAGTGAAG-------------------------------------------------------------------------------------------------- | 18 | 3 | 3 | 3 | 4 | 1 | 1 | 2 | 8 | 4 | 2 | |
| ----TGGTTCAGTTCAGTGAAGC------------------------------------------------------------------------------------------------- | 19 | - | - | - | - | - | - | - | 1 | - | - | |
| ----TGGTTCAGTTCAGTGAAGCA------------------------------------------------------------------------------------------------ | 20 | - | - | - | - | - | - | - | 1 | - | - | |
| rat | gaagTGGTTCAGTTCAGTGAAGcagaggtggtagatgttagcaattctaaataaatgtctttaataaatatgaactttaacatctaccacctctgaacaaagttttcattctcacctctt | |||||||||||
| ************************************************************************************************************************ | ||||||||||||
| rat | .(((.(((..((...((((((((((((((((((((((((((...(((........................)))..)))))))))))))))))))........))))))))).))).))) | 0.790 -36.46 | ||||||||||
| rat | chromosome:X:159650954:159651073:-1 | intergenic |
block1767252 [novel_lenNOK_cloningOK_shortStem_randfoldOK]
| 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 | 0.53/0.53 | 19/19/0.00 | 0.0 | 0.0 | 8 | 0 | 3 | 0 | 1 | 33 | 5arm | 1 | nd | 0.05 | 1 | 11 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | --CCCAGUU---------------------------------------------------------------------------------------------------- | 11 | novel | ||
| len | cloning frequencies | ||||
| T1S1 | T5S1 | T5S2 | |||
| -TCCCAGTTTGTCCTTGGTG----------------------------------------------------------------------------------------- | 19 | 1 | 8 | 2 | |
| rat | gTCCCAGTTTGTCCTTGGTGcctaccatgtccttaagtaaaaaccagtgtatatatatatataactgacttcttgggcaacctattgtattcaggagatcaactgggac | ||||
| ************************************************************************************************************* | |||||
| rat | (((((((((.(((((((((((......(((((..((((......(((((((((....)))))).)))))))...))))).......)))).)))).))).))))))))) | 0.930 -34.32 | |||
| rat | chromosome:5:114564668:114564776:-1 | intergenic |
novel_multiarm_loopOverlap_nonpairedHIGH_bulgeHIGH (36 loci)
block132559 [novel_multiarm_loopOverlap_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 | 0.083 | no | no | 0.37/0.50 | 19/24/0.88 | 0.0 0.1 | 0.0 1.1 | 1 7 | 0 0 | 1 5 | 0 0 | 27 31 | 3 -7 | 5arm 5arm_loop_3arm | 1 1 | nd nd | 0.47 0.42 | 8 6 | 8 | 6 | na | na |
| reads | miRBase family seed | |||||||
| seed | ---------------------------------CUCACAU--------------------------------------------------- | 6 | novel | |||||
| seed | ----------------------------CUUAACU-------------------------------------------------------- | 1 | novel | |||||
| seed | --------------------------------ACUCACA---------------------------------------------------- | 1 | novel | |||||
| len | cloning frequencies | |||||||
| T1S1 | T1S2 | T3S1 | T3S2 | T4S2 | T5S2 | |||
| --------------------------------ACTCACATTATCGGGAGCAGTGTC----------------------------------- | 24 | 2 | - | - | 1 | - | 1 | |
| --------------------------------ACTCACATTATCGGGAGCAGT-------------------------------------- | 21 | - | - | 1 | - | - | - | |
| -------------------------------AACTCACATTATCGGGAGCAGT-------------------------------------- | 22 | - | - | - | 1 | - | - | |
| ---------------------------ACTTAACTCACATTATCGG--------------------------------------------- | 19 | - | - | - | - | 1 | - | |
| --------------------------------ACTCACATTATCGGGAGCAGTG------------------------------------- | 22 | - | 1 | - | - | - | - | |
| rat | gcaaaatttccagtacctttgtcacaaACTTAACTCACATTATCGGGAGCAGTGTCttccataatgtataaagaacaaggtagtttttgcc | |||||||
| ******************************************************************************************* | ||||||||
| ----------------------------------------------------------------------------------------------------- | ENSRNOT00000058978 ENSRNOG00000038635 | |||||||
| rat | ((((((...((.....((((((..............(((((((.(((((......)))))))))))))))))).....))....)))))). | 0.620 -18.13 | ||||||
| rat | chromosome:11:69977317:69977407:-1 | Opposite_strand|Boundary_non-coding|ENSRNOT00000058977|ENSRNOG00000038635 ## Opposite_strand|Intronic_coding|ENSRNOT00000058978|ENSRNOG00000038635 ## ENSRNOG00000038635|protein_coding|| |
block174937 [novel_multiarm_loopOverlap_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 | 0.334 | no | no | 0.50/0.64 | 20/22/1.00 | 0.0 0.0 0.0 | 0.0 0.0 0.0 | 3 2 1 | 0 0 0 | 2 1 1 | 0 0 0 | 28 19 10 | -17 -6 3 | 5arm_loop_3arm 3arm_loop 3arm | 1 1 1 | nd nd nd | 0.55 0.41 0.45 | 8 5 4 | 6 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | -----------------------------GACACCC-------------------------------------- | 3 | novel | |
| seed | ----------------------------------CCACAUU--------------------------------- | 2 | novel | |
| seed | -------------------------------------------CACAGCG------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T1S2 | T5S1 | |||
| ----------------------------TGACACCCACATTAGCACAG-------------------------- | 20 | 1 | 2 | |
| ---------------------------------CCCACATTAGCACAGCGGCCTG------------------- | 22 | - | 2 | |
| ------------------------------------------GCACAGCGGCCTGTCTATCATG---------- | 22 | - | 1 | |
| rat | gatccctataaattcacgtgcctgcggcTGACACCCACATTAGCACAGCGGCCTGTCTATCATGatggcagtct | |||
| ************************************************************************** | ||||
| rat | (((..((((..((..(((.(((.((.(((((........)))))...))))).)))..))....))))..))). | 0.880 -16.70 | ||
| rat | chromosome:11:84967428:84967501:1 | intergenic |
block186477 [novel_multiarm_loopOverlap_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 | 0.576 | no | no | 0.71/0.75 | 21/24/1.00 | 0.0 0.0 | 0.0 0.0 | 1 1 | 0 0 | 1 1 | 0 0 | 28 6 | -22 2 | 5arm_loop_3arm 3arm | 1 1 | nd nd | 0.42 0.33 | 5 4 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | --------------------------------------UGGCCCA------------------- | 1 | novel | |
| seed | -----------------------------CACCAGG---------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T2S2 | T3S2 | |||
| ----------------------------GCACCAGGCATGGCCCAGCGGGAG------------ | 24 | 1 | - | |
| -------------------------------------ATGGCCCAGCGGGAGCACCAC------ | 21 | - | 1 | |
| rat | gcagaggaatcgctttgttgcccgcccaGCACCAGGCATGGCCCAGCGGGAGCACCACgctctg | |||
| **************************************************************** | ||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000001783 ENSRNOG00000001314 RGD1311980 | |||
| rat | .(((((....((...((((.((((((((((.....)).)))....)))))))))...))))))) | 0.900 -20.50 | ||
| rat | chromosome:12:16399156:16399219:-1 | Same_strand|Intronic_non-coding|ENSRNOT00000001783|ENSRNOG00000001314 ## ENSRNOG00000001314|protein_coding|RGD1311980|family with sequence similarity 20, member C [Source:RefSeq_peptide;Acc:NP_001012238] ## {SimpF: oe = 0.80 -1 CpG} |
block194080 [novel_multiarm_loopOverlap_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 | 0.736 | no | no | 0.38/0.50 | 19/25/0.75 | 0.0 0.0 0.0 0.0 | 3.0 0.0 1.3 0.0 | 2 2 3 1 | 0 0 0 0 | 1 1 2 1 | 0 0 0 0 | 19 30 38 48 | 14 8 -4 -14 | 5arm 5arm 5arm_loop_3arm 5arm_loop_3arm | 1 1 1 1 | nd nd nd nd | 0.56 0.55 0.45 0.46 | 8 8 4 4 | 8 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | ---------------------------------------GUCUUAG----------------------------------------------------------------------- | 3 | novel | |
| seed | --------------------CAGUGAC------------------------------------------------------------------------------------------ | 2 | novel | |
| seed | -------------------------------AGUACCU------------------------------------------------------------------------------- | 2 | novel | |
| seed | -------------------------------------------------GCAGAAA------------------------------------------------------------- | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T5S1 | |||
| ------------------------------CAGTACCTTGTCTTAGGATG------------------------------------------------------------------- | 20 | - | 2 | |
| --------------------------------------TGTCTTAGGATGCAGAAAGA----------------------------------------------------------- | 20 | 1 | 1 | |
| --------------------------------------TGTCTTAGGATGCAGAAAGATATG------------------------------------------------------- | 24 | 1 | - | |
| -------------------TCAGTGACTTGCAGTACCTTGTCTT------------------------------------------------------------------------- | 25 | - | 1 | |
| ------------------------------------------------TGCAGAAAGATATGTCCCGTGCTC--------------------------------------------- | 24 | - | 1 | |
| -------------------TCAGTGACTTGCAGTACCT------------------------------------------------------------------------------- | 19 | - | 1 | |
| rat | cagtgtgctcctttctcttTCAGTGACTTGCAGTACCTTGTCTTAGGATGCAGAAAGATATGTCCCGTGCTCccagaacatgcctgtcaccttctcttggagattaaccatagctgc | |||
| ********************************************************************************************************************* | ||||
| rat | (((((((......(((((....(((((..(((........(((..(((.(((....((....))...)))))).)))...)))..)))))........))))).....)))).))). | 0.720 -23.00 | ||
| rat | chromosome:12:27563976:27564092:-1 | intergenic |
block209122 [novel_multiarm_loopOverlap_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 | 0.382 | no | no | 0.37/0.46 | 19/24/0.86 | 0.0 0.7 | 0.0 0.3 | 1 6 | 0 0 | 1 2 | 0 0 | 6 10 | -1 -12 | 5arm_loop 5arm_loop_3arm | 1 1 | nd nd | 0.47 0.35 | 4 6 | 7 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | ---------------CCGAGUU---------------------------- | 5 | novel | |
| seed | -----------AGUUCCG-------------------------------- | 1 | novel | |
| seed | -------AUUCAGU------------------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T5S1 | T5S2 | |||
| --------------TCCGAGTTCTTATGATGGGA---------------- | 20 | 3 | 1 | |
| ------TATTCAGTTCCGAGTTCTT------------------------- | 19 | 1 | - | |
| --------------TCCGAGTTCTTATGATGGGATA-------------- | 22 | 1 | - | |
| ----------CAGTTCCGAGTTCTTATGATGGGA---------------- | 24 | 1 | - | |
| rat | ggcccaTATTCAGTTCCGAGTTCTTATGATGGGATAacggcagaggggct | |||
| ************************************************** | ||||
| rat | (((((....((....(((.(((((......)))))..)))..)).))))) | 0.990 -12.30 | ||
| rat | chromosome:12:5618785:5618834:1 | intergenic |
block267833 [novel_multiarm_loopOverlap_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 | 0.478 | no | no | 0.57/0.60 | 20/22/1.00 | 1.0 0.0 | 1.5 0.0 | 2 1 | 0 0 | 2 1 | 0 0 | 47 29 | -17 -1 | 5arm_loop_3arm 3arm | 3 3 | nd nd | 0.48 0.40 | 6 4 | 3 | 3 | na | na |
| reads | miRBase family seed | ||||
| seed | ------------------------------------------------------------CCACCAG----------------------------------------- | 1 | novel | ||
| seed | ------------------------------------------------UGAAGGA----------------------------------------------------- | 1 | novel | ||
| seed | --------------------------------------------------AAGGAGU--------------------------------------------------- | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S1 | T2S2 | T4S1 | |||
| -----------------------------------------------------------ACCACCAGTGAGCAGAGTGC----------------------------- | 20 | - | - | 1 | |
| -------------------------------------------------GAAGGAGTCCACCACCAGTGAG------------------------------------- | 22 | - | 1 | - | |
| -----------------------------------------------CTGAAGGAGTCCACCACCAGT---------------------------------------- | 21 | 1 | - | - | |
| rat | gtgctgcagaattacaaggaatacaatctggctaacatcatttactaCTGAAGGAGTCCACCACCAGTGAGCAGAGTGCcagcatgactgccatggacaacaccagca | ||||
| ************************************************************************************************************ | |||||
| rat | .(((((........((.((....((..(((((.....((......(((((..((......))..)))))....))..)))))..))....)).))........))))) | 0.710 -21.99 | |||
| rat | chromosome:13:71223059:71223166:-1 | intergenic |
block485949 [novel_multiarm_loopOverlap_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 | 0.292 | no | no | 0.45/0.55 | 20/20/1.00 | 0.0 0.0 | 0.0 0.0 | 2 2 | 0 0 | 2 1 | 0 0 | 31 27 | -17 -3 | 5arm_loop_3arm 3arm_loop | 1 1 | nd nd | 0.55 0.55 | 5 3 | 4 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | --------------------------------CCAUCCA-------------------------------------------- | 2 | novel | |
| seed | -------------------------------------CAGGAAC--------------------------------------- | 2 | miR-873 | |
| len | cloning frequencies | |||
| T3S1 | T3S2 | |||
| ------------------------------------CCAGGAACGATTAACTCCCC--------------------------- | 20 | - | 2 | |
| -------------------------------ACCATCCAGGAACGATTAAC-------------------------------- | 20 | 1 | 1 | |
| rat | gggccctgggtgtgccacaaaaggagtcctcACCATCCAGGAACGATTAACTCCCCacagcagccagcctttcatggagccct | |||
| *********************************************************************************** | ||||
| --------------------------------------------------------------------------------------------- | ENSRNOT00000027759 ENSRNOG00000020465 Ripk3 | |||
| rat | ((((((.((((.(((.......(((((..((.((.....))...))...))))).....)))....)))).....)).)))). | 0.510 -22.00 | ||
| rat | chromosome:15:33951198:33951280:1 | Opposite_strand|Intronic_non-coding|ENSRNOT00000027759|ENSRNOG00000020465 ## ENSRNOG00000020465|protein_coding|Ripk3|Receptor-interacting serine/threonine-protein kinase 3 (EC 2.7.11.1) (RIP-like protein kinase 3) (Receptor-interacting protein 3) (RIP-3) (Homocysteine respondent protein HCYP2). [Source:UniProtKB/Swiss-Prot;Acc:Q9Z2P5] |
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