other hairpins
novel_lenNOK_cloningOK_multiarm_DicerNOK_Multihit_loopOverlap_randfoldOK (17 loci)
sblock9585 [novel_lenNOK_cloningOK_multiarm_DicerNOK_Multihit_loopOverlap_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 | 0.56/0.68 | 18/22/0.64 | 0.0 0.0 0.0 | 1.6 0.0 0.0 | 17 6 1 | 0 0 0 | 7 3 1 | 0 0 0 | 3 38 1 | 34 -3 37 | 5arm 3arm_loop 3arm | 17 17 17 | nd nd nd | 0.18 0.27 0.16 | 2 2 2 | 45 | 8 | 0 | 20 |
| reads | miRBase family seed | |||||||||
| seed | ----GGGUCCU------------------------------------------------------------------------------------------------------------- | 34 | novel | |||||||
| seed | -------------------------------------------------------------GGGUCCU---------------------------------------------------- | 9 | novel | |||||||
| seed | -----------------------------------------------------------------------------------------------------AGGUCCC------------ | 1 | novel | |||||||
| seed | ---UGGGUCC-------------------------------------------------------------------------------------------------------------- | 1 | novel | |||||||
| len | cloning frequencies | |||||||||
| T1S1 | T1S2 | T2S1 | T2S2 | T3S1 | T3S2 | T4S1 | T4S2 | |||
| ---TGGGTCCTTCAGGGGTCAT-------------------------------------------------------------------------------------------------- | 19 | - | - | - | - | 2 | 8 | - | - | |
| ---TGGGTCCTTCAGGGGTCATGCC----------------------------------------------------------------------------------------------- | 22 | - | - | - | - | 4 | 5 | - | - | |
| ---TGGGTCCTTCAGGGGTCATG------------------------------------------------------------------------------------------------- | 20 | 2 | 1 | - | - | 2 | 2 | - | 1 | |
| ------------------------------------------------------------TGGGTCCTTCAGGAGTCATGCC-------------------------------------- | 22 | - | - | 2 | - | 1 | 4 | - | - | |
| ---TGGGTCCTTCAGGGGTCA--------------------------------------------------------------------------------------------------- | 18 | - | - | - | - | 1 | 2 | 1 | - | |
| ---TGGGTCCTTCAGGGGTCATGC------------------------------------------------------------------------------------------------ | 21 | - | - | - | 1 | 1 | 1 | - | - | |
| ----------------------------------------------------------------------------------------------------TAGGTCCCTGTGGGCCTGG- | 19 | - | - | - | - | - | 1 | - | - | |
| --CTGGGTCCTTCAGGGGTCATG------------------------------------------------------------------------------------------------- | 21 | - | - | - | - | - | 1 | - | - | |
| ------------------------------------------------------------TGGGTCCTTCAGGAGTCA------------------------------------------ | 18 | - | - | - | - | - | 1 | - | - | |
| ------------------------------------------------------------TGGGTCCTTCAGGAGTCATGC--------------------------------------- | 21 | - | - | - | - | - | 1 | - | - | |
| rat | cccTGGGTCCTTCAGGGGTCATGCCgggtaatgagaagcatggtaggtccctgtggggccTGGGTCCTTCAGGAGTCATGCCgggtaatgagaagcatggtaggtccctgtgggcctggg | |||||||||
| ************************************************************************************************************************ | ||||||||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000023143 ENSRNOG00000017037 RGD1560468_predicted | |||||||||
| rat | .((..(((((..((((((((.(((((.((........((.(((((((..((((.(((((....))))).))))..)).))))).))........)).))))))))))))).)))))..)) | 0.780 -56.29 | ||||||||
| rat | chromosome:5:157735887:157736006:-1 | Same_strand|Intronic_coding|ENSRNOT00000023143|ENSRNOG00000017037 ## ENSRNOG00000017037|protein_coding|RGD1560468_predicted| ## {Repeats: trf 1207 1230 0 class=trf,trf 1284 1303 0 class=trf,trf 1150 1172 0 class=trf,trf 1113 1132 0 class=trf,trf 1094 1116 0 class=trf,trf 1265 1288 0 class=trf} |
sblock9588 [novel_lenNOK_cloningOK_multiarm_DicerNOK_Multihit_loopOverlap_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 | 0.56/0.68 | 18/22/0.64 | 0.0 0.0 0.0 | 1.6 0.0 0.0 | 17 6 1 | 0 0 0 | 7 3 1 | 0 0 0 | 2 38 1 | 35 -2 38 | 5arm 3arm_loop 3arm | 17 17 17 | nd nd nd | 0.18 0.23 0.16 | 2 2 2 | 45 | 8 | 0 | 0 |
| reads | miRBase family seed | |||||||||
| seed | ---GGGUCCU-------------------------------------------------------------------------------------------------------------- | 34 | novel | |||||||
| seed | -------------------------------------------------------------GGGUCCU---------------------------------------------------- | 9 | novel | |||||||
| seed | -----------------------------------------------------------------------------------------------------AGGUCCC------------ | 1 | novel | |||||||
| seed | --UGGGUCC--------------------------------------------------------------------------------------------------------------- | 1 | novel | |||||||
| len | cloning frequencies | |||||||||
| T1S1 | T1S2 | T2S1 | T2S2 | T3S1 | T3S2 | T4S1 | T4S2 | |||
| --TGGGTCCTTCAGGGGTCAT--------------------------------------------------------------------------------------------------- | 19 | - | - | - | - | 2 | 8 | - | - | |
| --TGGGTCCTTCAGGGGTCATGCC------------------------------------------------------------------------------------------------ | 22 | - | - | - | - | 4 | 5 | - | - | |
| --TGGGTCCTTCAGGGGTCATG-------------------------------------------------------------------------------------------------- | 20 | 2 | 1 | - | - | 2 | 2 | - | 1 | |
| ------------------------------------------------------------TGGGTCCTTCAGGAGTCATGCC-------------------------------------- | 22 | - | - | 2 | - | 1 | 4 | - | - | |
| --TGGGTCCTTCAGGGGTCA---------------------------------------------------------------------------------------------------- | 18 | - | - | - | - | 1 | 2 | 1 | - | |
| --TGGGTCCTTCAGGGGTCATGC------------------------------------------------------------------------------------------------- | 21 | - | - | - | 1 | 1 | 1 | - | - | |
| -CTGGGTCCTTCAGGGGTCATG-------------------------------------------------------------------------------------------------- | 21 | - | - | - | - | - | 1 | - | - | |
| ----------------------------------------------------------------------------------------------------TAGGTCCCTGTGGGCCTGG- | 19 | - | - | - | - | - | 1 | - | - | |
| ------------------------------------------------------------TGGGTCCTTCAGGAGTCA------------------------------------------ | 18 | - | - | - | - | - | 1 | - | - | |
| ------------------------------------------------------------TGGGTCCTTCAGGAGTCATGC--------------------------------------- | 21 | - | - | - | - | - | 1 | - | - | |
| rat | ccTGGGTCCTTCAGGGGTCATGCCgggtaatgagaagcatggtaggtccctgtggggcccTGGGTCCTTCAGGAGTCATGCCgggtaatgagaagcatggtaggtccctgtgggcctggg | |||||||||
| ************************************************************************************************************************ | ||||||||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000023143 ENSRNOG00000017037 RGD1560468_predicted | |||||||||
| rat | ((..(((((..((((((((.(((((.((........((.(((((((..((((.((((((...)))))).))))..)).))))).))........)).))))))))))))).)))))..)) | 0.670 -56.29 | ||||||||
| rat | chromosome:5:157736515:157736634:-1 | Same_strand|Intronic_coding|ENSRNOT00000023143|ENSRNOG00000017037 ## ENSRNOG00000017037|protein_coding|RGD1560468_predicted| ## {Repeats: trf 1741 1760 0 class=trf,trf 1722 1745 0 class=trf,trf 1606 1629 0 class=trf,trf 1664 1686 0 class=trf} |
novel_lenNOK_gcHIGH_loopOverlap (17 loci)
block225941 [novel_lenNOK_gcHIGH_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 | 0.019 | no | no | 1.00/1.00 | 19/19/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 40 | -4 | 3arm_loop | 1 | nd | 0.21 | 3 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------GGGCCCC--------------------------------------------------- | 1 | miR-296* |
| len | cloning frequencies | ||
| T1S1 | |||
| --------------------------------------------------------GGGGCCCCCCGGGGGGGGG---------------------------------------- | 19 | 1 | |
| rat | ggccaggaatgatgggtggcattcacctttaatcccaataccctcggggagggggcGGGGCCCCCCGGGGGGGGGgtggtggtggtaggcaagtggatctcttgtaagattggcc | ||
| ******************************************************************************************************************* | |||
| rat | ((((((..((((.((((.((..(((((....(((((....(((((((((.((........))))))))))).)))))...)))))...))......)))).))))....)))))) | 0.440 -50.00 |
| rat | chromosome:12:30045876:30045990:1 | intergenic ## {Repeats: GC_rich 1 26 1 class=Low_complexity,GC_rich 6 25 1 class=Low_complexity,dust 30045921 30045940 0 class=dust} |
block246438 [novel_lenNOK_gcHIGH_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 | 0.622 | no | no | 0.94/0.94 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 26 | -2 | 3arm_loop | 1 | nd | 0.17 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ------------------------------------------------UGGCCGG------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| -----------------------------------------------CTGGCCGGGGCCGGGCGG-------------------------- | 18 | 1 | |
| rat | tggtgtccggggagtgtcgtccttgccttcgtccctcctgagctgggCTGGCCGGGGCCGGGCGGaggggacgcctgctgactgctgacca | ||
| ******************************************************************************************* | |||
| rat | .(((...(((..(((..(((((...(((((((((.(((((.(((.....))))))))..))))))))))))))...)))..)))...))). | 0.690 -40.20 |
| rat | chromosome:13:22162461:22162551:-1 | intergenic |
block265712 [novel_lenNOK_gcHIGH_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 | 0.744 | no | no | 0.94/0.94 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 22 | -2 | 3arm_loop | 3 | nd | 0.28 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------GGGGGCC-------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T4S2 | |||
| -------------------------------------GGGGGGCCGGGGAGGGGG---------------------- | 18 | 1 | |
| rat | ttctaatgttgaaatgtcagcttctccttaacctttgGGGGGGCCGGGGAGGGGGattgtacctagttcatgagagc | ||
| ***************************************************************************** | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000059807 ENSRNOG00000028236 NP_001099429.1 | ||
| rat | ((((.....((((..((((((((((((((..((((....))))..)))))))))..))).))....))))..)))). | 0.440 -18.30 |
| rat | chromosome:13:66960679:66960755:-1 | Same_strand|Intronic_non-coding|ENSRNOT00000059807|ENSRNOG00000028236 ## Same_strand|Boundary_non-coding|ENSRNOT00000003230|ENSRNOG00000028236 ## ENSRNOG00000028236|protein_coding|NP_001099429.1| ## {Repeats: dust 66960701 66960719 0 class=dust} |
block333699 [novel_lenNOK_gcHIGH_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 | 0.014 | no | no | 0.94/0.95 | 18/19/0.00 | 0.0 | 0.3 | 3 | 0 | 2 | 0 | 9 | -1 | 3arm | 1 | nd | 0.21 | 3 | 3 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | ----------------------------------GCGCGGG-------------------- | 3 | novel | |
| len | cloning frequencies | |||
| T2S1 | T3S1 | |||
| ---------------------------------CGCGCGGGCGGGGTCGGGC--------- | 19 | - | 2 | |
| ---------------------------------CGCGCGGGCGGGGTCGGG---------- | 18 | 1 | - | |
| rat | ggcccgtgcggcgccctagctcggccgcgcacaCGCGCGGGCGGGGTCGGGCgcgcagcca | |||
| ************************************************************* | ||||
| rat | (((...(((.((((((...((((.((((((....)))))).))))...)))))))))))). | 1.000 -41.50 | ||
| rat | chromosome:14:3050927:3050987:-1 | intergenic ## {SimpF: oe = 0.86 -1 CpG} |
block519877 [novel_lenNOK_gcHIGH_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 | 0.612 | no | no | 0.89/0.94 | 18/19/0.00 | 0.2 | 0.7 | 6 | 0 | 6 | 0 | 21 | -1 | 3arm | 1 | nd | 0.28 | 3 | 6 | 6 | na | na |
| reads | miRBase family seed | |||||||
| seed | -----------------------------------------AGGCGCG-------------------------------- | 5 | novel | |||||
| seed | ------------------------------------------GGCGCGG------------------------------- | 1 | novel | |||||
| len | cloning frequencies | |||||||
| T1S1 | T2S1 | T2S2 | T3S2 | T4S2 | T5S1 | |||
| ----------------------------------------AAGGCGCGGGGGCGGGGGG--------------------- | 19 | - | 1 | - | - | 1 | 1 | |
| ----------------------------------------AAGGCGCGGGGGCGGGGG---------------------- | 18 | 1 | - | 1 | - | - | - | |
| -----------------------------------------AGGCGCGGGGGCGGGGGG--------------------- | 18 | - | - | - | 1 | - | - | |
| rat | cccggcccacgggcgctcgctctgatgggctcctggacaaAAGGCGCGGGGGCGGGGGGacaaaaggcccaaggcgcggg | |||||||
| ******************************************************************************** | ||||||||
| rat | (((((((...((((.((((((((.....((.(((.......))).)).))))))))..........))))..))).)))) | 0.570 -32.00 | ||||||
| rat | chromosome:16:8021112:8021191:-1 | intergenic |
block867976 [novel_lenNOK_gcHIGH_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 | 0.172 | no | no | 0.94/0.94 | 18/18/0.00 | 0.0 | 0.0 | 2 | 0 | 2 | 0 | 31 | -2 | 3arm_loop | 1 | nd | 0.22 | 2 | 2 | 2 | na | na |
| reads | miRBase family seed | |||
| seed | --------------------------------------------------------CCGGGGG----------------------------------------- | 2 | novel | |
| len | cloning frequencies | |||
| T3S2 | T4S1 | |||
| -------------------------------------------------------CCCGGGGGCCGGGCGACC------------------------------- | 18 | 1 | 1 | |
| rat | ctcagtttccttcgccaaaccccgcccccgtcggccccgcccccgtccctccctaCCCGGGGGCCGGGCGACCtggaccgaatctgccagaggaggcgcggagc | |||
| ******************************************************************************************************** | ||||
| ------------------------------------------------------------------------------------------------------------------ | ENSRNOT00000028194 ENSRNOG00000020783 Ntf5 | |||
| rat | (((.((((((((.((.........((...(((.((((.(((((((............))))))).)))))))..)).........))..))))))))...))). | 0.480 -42.57 | ||
| rat | chromosome:1:95885656:95885759:-1 | Opposite_strand|Intronic_non-coding|ENSRNOT00000028194|ENSRNOG00000020783 ## ENSRNOG00000020783|protein_coding|Ntf5|Neurotrophin-5 precursor (NT-5) (Neutrophic factor 5) (Neurotrophin-4) (NT-4) (Neutrophic factor 4). [Source:UniProtKB/Swiss-Prot;Acc:P34131] ## {Repeats: dust 95885700 95885705 0 class=dust} |
block879869 [novel_lenNOK_gcHIGH_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 | 0.028 | no | no | 0.94/0.94 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 35 | -2 | 3arm_loop | 1 | nd | 0.22 | 2 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------GCGGGCG--------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T3S2 | |||
| -------------------------------------------------------------------AGCGGGCGCCGGCGGCGC----------------------------------- | 18 | 1 | |
| rat | cgcgtcggcgacacgcgcggccgggcggggaaacaaaggcgggatgtgtgcggccgagagtccggaaAGCGGGCGCCGGCGGCGCagcccccgctccccgcccattgttcgctgcgcgcg | ||
| ************************************************************************************************************************ | |||
| rat | (((((((((((.....((((..(((((((((.......(((((...(((((.((((...(((((.....)))))..)))).)))))...)))))))))))))).)))))))))).))))) | 0.470 -70.51 |
| rat | chromosome:1:126733472:126733591:-1 | intergenic ## {Repeats: GC_rich 19 35 -1 class=Low_complexity,GC_rich 1 35 -1 class=Low_complexity} ## {SimpF: -1 Eponine} |
block892488 [novel_lenNOK_gcHIGH_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 | 0.101 | no | no | 0.94/0.94 | 18/18/0.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 28 | -1 | 3arm | 1 | nd | 0.17 | 1 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------------------------------------CCGCCGG-------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T2S1 | |||
| ----------------------------------------------TCCGCCGGGGGCGGGGGC---------------------------- | 18 | 1 | |
| rat | gctggaagacatgcgcgatctgggcccggccgccgcctccggggagTCCGCCGGGGGCGGGGGCgggggctctgaccccgcggaggagccgg | ||
| ******************************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000031423 ENSRNOG00000019192 NP_001101008.1 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000026047 ENSRNOG00000019192 NP_001101008.1 | ||
| rat | .((((......((((...((.((((((.(((.((((((((((((...)).)))))))))).)))..)))))).))...))))......)))) | 0.990 -54.20 |
| rat | chromosome:1:158342262:158342353:-1 | Same_strand|Intronic_coding|ENSRNOT00000026047|ENSRNOG00000019192 ## Same_strand|Intronic_non-coding|ENSRNOT00000031423|ENSRNOG00000019192 ## ENSRNOG00000019192|protein_coding|NP_001101008.1|Rho guanine nucleotide exchange factor (GEF) 17 [Source:RefSeq_peptide;Acc:NP_001101008] ## {Repeats: GC_rich 1 49 -1 class=Low_complexity,dust 158342290 158342301 0 class=dust,GC_rich 7 25 -1 class=Low_complexity} |
| Back to summary page | other hairpins: | Page 1 | Jump 10 pages back | Previous page | Page 30866 | Next page | Jump 10 pages forward | Page 31204 |
©2008 InteRNA Genomics B.V.