other hairpins
novel_lenNOK_shortStem_5varHIGH_randfoldOK_bulgeHIGH (5 loci)
block1983500 [novel_lenNOK_shortStem_5varHIGH_randfoldOK_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 | 0.53/0.64 | 19/22/0.50 | 3.0 | 1.5 | 2 | 0 | 1 | 0 | 0 | 31 | 5arm | 1 | nd | 0.23 | 4 | 2 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------UUGAUCC---------------------------------------------------------------------------------------------------- | 1 | novel |
| seed | -GUGGCCU---------------------------------------------------------------------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S2 | |||
| TGTGGCCTTGATCCCGCTGAGG-------------------------------------------------------------------------------------------- | 22 | 1 | |
| ------CTTGATCCCGCTGAGGTAA----------------------------------------------------------------------------------------- | 19 | 1 | |
| rat | TGTGGCCTTGATCCCGCTGAGGTAAgagcggggtctgggcttttttgtgtgttcccaaccgcggggactgaagtggggccgggacctggtgcggtggggcccaagtaggtcgcg | ||
| ****************************************************************************************************************** | |||
| rat | .(((((((((.((((((((........((.((((((.(((((..((....((((((......))))))...))..))))).)))))).)).))))))))..))...))))))). | 0.870 -53.90 |
| rat | chromosome:6:136753459:136753572:-1 | intergenic |
novel_loopOverlap_mirtron_bulgeHIGH (5 loci)
block679595 [novel_loopOverlap_mirtron_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 | 0.086 | no | no | 0.45/0.45 | 22/22/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 16 | -3 | 5arm_loop | 1 | 1 | 0.27 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -----------------UAAGAGU------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T2S1 | |||
| ----------------GTAAGAGTCACTCCTGTGAAGA---------------------------------- | 22 | 1 | |
| rat | cagtgcttgacgacagGTAAGAGTCACTCCTGTGAAGAtagagtcacatgacctggctttatacctcattga | ||
| ************************************************************************ | |||
| >>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000035634 ENSRNOG00000026026 NP_001102591.1 | ||
| rat | (((((.........((((((((((((.((.(((((........))))).))..))))))).)))))))))). | 0.840 -18.90 |
| rat | chromosome:17:88305037:88305108:1 | Same_strand|Boundary_coding|ENSRNOT00000035634|ENSRNOG00000026026 ## ENSRNOG00000026026|protein_coding|NP_001102591.1|similar to signal transducing adaptor - mouse (predicted) (RGD1564499_predicted), mRNA [Source:RefSeq_dna;Acc:NM_001109121] |
block1134978 [novel_loopOverlap_mirtron_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 | 0.499 | no | no | 0.68/0.68 | 22/22/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 26 | -2 | 3arm_loop | 1 | 1 | 0.27 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | ---------------------------------------------------------------UGAGUGA---------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| --------------------------------------------------------------GTGAGTGACTGGAGCCCAGGGC-------------------------- | 22 | 1 | |
| rat | gctgaagatgtgtccaagagaattgagccgagtgtttctctctggcagttttacctctccaaGTGAGTGACTGGAGCCCAGGGCactctgctctcacagcgttgtgcagt | ||
| ************************************************************************************************************** | |||
| >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000022055 ENSRNOG00000016122 Hmgcr | ||
| rat | ((((..(((((.............((((.(((((.....(((((((((((....(((.......))).)))))....))))))))))).)))).....)))))...)))) | 0.540 -31.77 |
| rat | chromosome:2:27136850:27136959:-1 | Same_strand|Boundary_coding|ENSRNOT00000022055|ENSRNOG00000016122 ## ENSRNOG00000016122|protein_coding|Hmgcr|3-hydroxy-3-methylglutaryl-coenzyme A reductase (EC 1.1.1.34) (HMG-CoA reductase). [Source:UniProtKB/Swiss-Prot;Acc:P51639] |
block1752588 [novel_loopOverlap_mirtron_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 | 0.477 | no | no | 0.35/0.35 | 23/23/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 30 | -1 | 3arm | 1 | 3 | 0.30 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------------------------------------------------------------CACUUUG--------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| -------------------------------------------------------------------CCACTTTGTTTTTTATAACCCTC------------------------------ | 23 | 1 | |
| rat | tttctcagcgaatgctctttgttggcctagaggtttagccacttagacaatattgacttgacctataCCACTTTGTTTTTTATAACCCTCtagagaccacggagctgggcagcaagaagg | ||
| ************************************************************************************************************************ | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000021834 ENSRNOG00000010313 Astn2 | ||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000034945 ENSRNOG00000010313 Astn2 | ||
| rat | (((((..((...(((((((((.(((.(((((((.(((.......((((((...((.............))..))))))....))).)))))))...))))))))...)))))).))))). | 0.750 -25.02 |
| rat | chromosome:5:82355218:82355337:-1 | Same_strand|Intronic_coding|ENSRNOT00000034945|ENSRNOG00000010313 ## ENSRNOG00000010313|protein_coding|Astn2|astrotactin 2 Gene [Source:MGI (curated);Acc:Astn2-001] |
block2530865 [novel_loopOverlap_mirtron_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 | 0.881 | no | no | 0.40/0.40 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 13 | -4 | 5arm_loop_3arm | 1 | 1 | 0.30 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | --------------CAUGUGA-------------------------------------------- | 1 | novel |
| len | cloning frequencies | ||
| T5S2 | |||
| -------------ACATGTGACTTGGTTTTCCA-------------------------------- | 20 | 1 | |
| rat | cttaatatactgaACATGTGACTTGGTTTTCCAgagcagcaagaaatatggcagcccctgtggag | ||
| ***************************************************************** | |||
| +++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000041176 ENSRNOG00000014851 Col4a4 | ||
| rat | .........(((..(((((..((((((((....))))..))))..))))).)))........... | 0.670 -9.60 |
| rat | chromosome:9:81888552:81888616:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000020184|ENSRNOG00000014851 ## Same_strand|Intronic_coding|ENSRNOT00000041176|ENSRNOG00000014851 ## ENSRNOG00000014851|protein_coding|Col4a4|procollagen, type IV, alpha 4 [Source:RefSeq_peptide;Acc:NP_001008333] |
block2660296 [novel_loopOverlap_mirtron_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 | 0.011 | no | no | 0.40/0.40 | 20/20/1.00 | 0.0 | 0.0 | 1 | 0 | 1 | 0 | 18 | -3 | 5arm_loop | 1 | 3 | 0.25 | 4 | 1 | 1 | na | na |
| reads | miRBase family seed | ||
| seed | -------------------AUAACAA------------------------------------------------------ | 1 | novel |
| len | cloning frequencies | ||
| T1S1 | |||
| ------------------CATAACAACCTCTGTGTTCT------------------------------------------ | 20 | 1 | |
| rat | actttagtagtcttataaCATAACAACCTCTGTGTTCTtagtctatgcagatggtagtatatgtctggatatacttcaga | ||
| ******************************************************************************** | |||
| ++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000061455 ENSRNOG00000039985 Ube2a | ||
| ++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000061454 ENSRNOG00000039985 Ube2a | ||
| rat | .((..((((((((....(((((((.((((((((((.........))))))).))).)).)))))..)))).))))..)). | 0.990 -19.70 |
| rat | chromosome:X:7983262:7983341:-1 | Same_strand|Intronic_coding|ENSRNOT00000061454|ENSRNOG00000039985 ## ENSRNOG00000039985|protein_coding|Ube2a|ubiquitin-conjugating enzyme E2A, RAD6 homolog [Source:RefSeq_peptide;Acc:NP_001013955] |
novel_multiarm_DicerNOK_Multihit_randfoldOK_nonpairedHIGH (5 loci)
sblock11678 [novel_multiarm_DicerNOK_Multihit_randfoldOK_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 | 0.001 | no | no | 0.37/0.62 | 19/24/0.75 | 0.0 0.0 0.0 0.0 | 0.0 0.0 0.0 0.0 | 1 1 1 1 | 0 0 0 0 | 1 1 1 1 | 0 0 0 0 | 0 23 24 15 | 26 1 0 8 | 5arm 5arm 3arm 3arm | 1 260 260 260 | nd nd nd nd | 0.37 0.38 0.39 0.46 | 3 2 2 4 | 4 | 3 | -1 | 1 |
| reads | miRBase family seed | ||||
| seed | ------------------------GCAUGUG------------------------------------------------------------------- | 1 | novel | ||
| seed | ----------------------------------------------------GUGUGUG--------------------------------------- | 1 | novel | ||
| seed | ------------------------------------------------------------GUGUGUG------------------------------- | 1 | novel | ||
| seed | -UGUUUGG------------------------------------------------------------------------------------------ | 1 | novel | ||
| len | cloning frequencies | ||||
| T1S1 | T2S2 | T5S1 | |||
| -----------------------------------------------------------TGTGTGTGTGTGCTCGCGCCTGTG--------------- | 24 | - | - | 1 | |
| -----------------------AGCATGTGTGTGTGTGTGTGT------------------------------------------------------ | 21 | - | 1 | - | |
| TTGTTTGGTGTATACAGGA------------------------------------------------------------------------------- | 19 | 1 | - | - | |
| ---------------------------------------------------TGTGTGTGTGTGTGTGTGTGCTC------------------------ | 23 | - | 1 | - | |
| rat | TTGTTTGGTGTATACAGGAagggAGCATGTGTGTGTGTGTGTGTgtgtgtgTGTGTGTGTGTGTGTGTGTGCTCGCGCCTGTGcgtgtgtgtattggg | ||||
| ************************************************************************************************** | |||||
| rat | ...((..(((((((((...((((((((((..((..((..((..((......))..))..))..))..)))))))...))).....)))))))))..)) | 0.430 -23.80 | |||
| rat | chromosome:8:57734431:57734528:-1 | intergenic ## {Repeats: trf 1 21 0 class=trf,dust 57734485 57734501 0 class=dust,(CA)n 50 66 -1 class=Simple_repeat,trf 28 44 0 class=trf,(CA)n 11 43 -1 class=Simple_repeat,(CA)n 2 66 -1 class=Simple_repeat,dust 57734446 57734478 0 class=dust} |
sblock3003 [novel_multiarm_DicerNOK_Multihit_randfoldOK_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 | 0.008 | no | no | 0.52/0.55 | 20/21/1.00 | 0.0 0.0 | 0.0 0.0 | 2 2 | 0 0 | 1 1 | 0 0 | 30 9 | 8 25 | 5arm 3arm | 455 455 | nd nd | 0.50 0.38 | 4 3 | 4 | 2 | 0 | -2 |
| reads | miRBase family seed | |||
| seed | ----------------------------------------------------------------------------------------GGGGUUG---------------------- | 2 | novel | |
| seed | -------------------------------AGCAGAC------------------------------------------------------------------------------- | 1 | novel | |
| seed | --------------------------------------------------------------------AGCAGAC------------------------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T4S1 | |||
| ---------------------------------------------------------------------------------------TGGGGTTGGTAACAATGGAGC--------- | 21 | 2 | - | |
| ------------------------------GAGCAGACTGCAGGAGATGA------------------------------------------------------------------- | 20 | - | 1 | |
| -------------------------------------------------------------------GAGCAGACTGCAGGAGATGA------------------------------ | 20 | - | 1 | |
| rat | ctgcaggagatgacagagttagtaataatgGAGCAGACTGCAGGAGATGAcagagttagtaataatgGAGCAGACTGCAGGAGATGATGGGGTTGGTAACAATGGAGCagactgcag | |||
| ********************************************************************************************************************* | ||||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000058274 ENSRNOG00000001764 RGD1309443_predicted | |||
| +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000029255 ENSRNOG00000001764 RGD1309443_predicted | |||
| rat | ((((((....((.((..((((.((((..((...((..((((((....((.....((((....))))....))..))))))....)).))..)))).))))..))...))..)))))) | 1.000 -31.50 | ||
| rat | chromosome:11:81730844:81730960:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000058276|ENSRNOG00000001764 ## Same_strand|Intronic_coding|ENSRNOT00000029255|ENSRNOG00000001764 ## ENSRNOG00000001764|protein_coding|RGD1309443_predicted| ## {Repeats: trf 256 276 0 class=trf,trf 182 202 0 class=trf,trf 145 165 0 class=trf,trf 108 128 0 class=trf,trf 124 145 0 class=trf,trf 293 313 0 class=trf,trf 34 54 0 class=trf,trf 400 420 0 class=trf,trf 326 346 0 class=trf,trf 363 383 0 class=trf,trf 71 91 0 class=trf,trf 219 239 0 class=trf} |
sblock3007 [novel_multiarm_DicerNOK_Multihit_randfoldOK_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 | 0.005 | no | no | 0.52/0.55 | 20/21/1.00 | 0.0 0.0 | 0.0 0.0 | 2 2 | 0 0 | 1 1 | 0 0 | 31 9 | 8 25 | 5arm 3arm | 455 455 | nd nd | 0.50 0.38 | 4 3 | 4 | 2 | 0 | -2 |
| reads | miRBase family seed | |||
| seed | -----------------------------------------------------------------------------------------GGGGUUG---------------------- | 2 | novel | |
| seed | --------------------------------AGCAGAC------------------------------------------------------------------------------- | 1 | novel | |
| seed | ---------------------------------------------------------------------AGCAGAC------------------------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T4S1 | |||
| ----------------------------------------------------------------------------------------TGGGGTTGGTAACAATGGAGC--------- | 21 | 2 | - | |
| --------------------------------------------------------------------GAGCAGACTGCAGGAGATGA------------------------------ | 20 | - | 1 | |
| -------------------------------GAGCAGACTGCAGGAGATGA------------------------------------------------------------------- | 20 | - | 1 | |
| rat | actgcaggagatgacagagttagtaataatgGAGCAGACTGCAGGAGATGAcaaagttagtaataataGAGCAGACTGCAGGAGATGATGGGGTTGGTAACAATGGAGCagactgcag | |||
| ********************************************************************************************************************** | ||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000058274 ENSRNOG00000001764 RGD1309443_predicted | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000029255 ENSRNOG00000001764 RGD1309443_predicted | |||
| rat | .((((((....((.((..((((.((((..((...((..((((((....((.....((((....))))....))..))))))....)).))..)))).))))..))...))..)))))) | 0.990 -30.90 | ||
| rat | chromosome:11:81733689:81733806:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000058276|ENSRNOG00000001764 ## Same_strand|Intronic_coding|ENSRNOT00000029255|ENSRNOG00000001764 ## ENSRNOG00000001764|protein_coding|RGD1309443_predicted| ## {Repeats: trf 2953 2973 0 class=trf,trf 3286 3306 0 class=trf,trf 3101 3121 0 class=trf,trf 3027 3047 0 class=trf,trf 3360 3380 0 class=trf,trf 3323 3343 0 class=trf,trf 3064 3084 0 class=trf,trf 2768 2788 0 class=trf,trf 2879 2899 0 class=trf,trf 2990 3010 0 class=trf,trf 2842 2862 0 class=trf,trf 3471 3491 0 class=trf,trf 3397 3417 0 class=trf,trf 2805 2825 0 class=trf,trf 3434 3454 0 class=trf,trf 3175 3195 0 class=trf,trf 3249 3269 0 class=trf,trf 3212 3232 0 class=trf,trf 2969 2990 0 class=trf,trf 3138 3158 0 class=trf,trf 2916 2936 0 class=trf} |
sblock3016 [novel_multiarm_DicerNOK_Multihit_randfoldOK_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 | 0.001 | no | no | 0.52/0.55 | 20/21/1.00 | 0.0 0.0 | 0.0 0.0 | 2 2 | 0 0 | 1 1 | 0 0 | 31 9 | 8 25 | 5arm 3arm | 455 455 | nd nd | 0.45 0.38 | 4 3 | 4 | 2 | 0 | -2 |
| reads | miRBase family seed | |||
| seed | -----------------------------------------------------------------------------------------GGGGUUG---------------------- | 2 | novel | |
| seed | --------------------------------AGCAGAC------------------------------------------------------------------------------- | 1 | novel | |
| seed | ---------------------------------------------------------------------AGCAGAC------------------------------------------ | 1 | novel | |
| len | cloning frequencies | |||
| T1S1 | T4S1 | |||
| ----------------------------------------------------------------------------------------TGGGGTTGGTAACAATGGAGC--------- | 21 | 2 | - | |
| --------------------------------------------------------------------GAGCAGACTGCAGGAGATGA------------------------------ | 20 | - | 1 | |
| -------------------------------GAGCAGACTGCAGGAGATGA------------------------------------------------------------------- | 20 | - | 1 | |
| rat | actgcaggagatgacggggttagtaacaatgGAGCAGACTGCAGGAGATGActgagttagtaataataGAGCAGACTGCAGGAGATGATGGGGTTGGTAACAATGGAGCagactgcag | |||
| ********************************************************************************************************************** | ||||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000058274 ENSRNOG00000001764 RGD1309443_predicted | |||
| ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ | ENSRNOT00000029255 ENSRNOG00000001764 RGD1309443_predicted | |||
| rat | .((((((....((.((..((((.((((..((...((..((((((....((.((..((((....))))..))))..))))))....)).))..)))).))))..))...))..)))))) | 1.000 -34.80 | ||
| rat | chromosome:11:81737315:81737432:-1 | Same_strand|Boundary_non-coding|ENSRNOT00000058276|ENSRNOG00000001764 ## Same_strand|Intronic_coding|ENSRNOT00000029255|ENSRNOG00000001764 ## ENSRNOG00000001764|protein_coding|RGD1309443_predicted| ## {Repeats: trf 6616 6636 0 class=trf,trf 6595 6616 0 class=trf,trf 6579 6599 0 class=trf,trf 6542 6562 0 class=trf,trf 6653 6673 0 class=trf} |
| Back to summary page | other hairpins: | Page 1 | Jump 10 pages back | Previous page | Page 31086 | Next page | Jump 10 pages forward | Page 31204 |
©2008 InteRNA Genomics B.V.