other hairpins
novel_lenNOK_shortStem_5varHIGH (97 loci)
block1734025 [novel_lenNOK_shortStem_5varHIGH]
Hairpin parameters
| no | 0.838 | no | no | 0.60/0.63 | 19/20/0.50 | 1.5
| 2.0
| 2
| 0
| 2
| 0
| 1
| 3
| 3arm
| 1
| nd
| 0.21
| 1
| 2 | 2 | na | na |
| seed | ----------------------------------------------CGUGCGC------------- | 1 | novel |
| seed | -------------------------------------------CUGCGUG---------------- | 1 | novel |
| | | | T3S1 | T5S1 |
| | ---------------------------------------------GCGTGCGCGTGAGAACTAAG- | 20 | - | 1 |
| | ------------------------------------------ACTGCGTGCGCGTGAGAAC----- | 19 | 1 | - |
| rat | ctgggggtccttctgtgaatgaaacaggtctccaaaagaggaACTGCGTGCGCGTGAGAACTAAGc | |
| | ****************************************************************** | |
| rat | .....(((.(((.((((.(((.....(((.(((......)))))).))).)))).))).))).... | 0.650 -13.20 |
novel_mirtron_nonpairedHIGH (97 loci)
block6942 [novel_mirtron_nonpairedHIGH]
Hairpin parameters
| no | 0.582 | no | no | 0.45/0.45 | 20/20/1.00 | 0.0
| 0.0
| 1
| 0
| 1
| 0
| 15
| 25
| 3arm
| 1
| 2
| 0.35
| 3
| 1 | 1 | na | na |
| seed | --------------------------------------------------------------------------------------UCACUGA--------------------------- | 1 | novel |
| | | | T1S1 |
| | -------------------------------------------------------------------------------------CTCACTGAGTCTTTTCTCCT--------------- | 20 | 1 |
| rat | aaggcgtaggtgttgggaagcaaacctgagtcctcagcggggcagtgagggctctgaacctctttggccatctctctagtccctgCTCACTGAGTCTTTTCTCCTaggttctcgttcttg | |
| | ************************************************************************************************************************ | |
| | ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>> | ENSRNOT00000022670 ENSRNOG00000016774 RGD1305553_predicted |
| rat | ((((((.(((..((((((...((..((.(((....((((((((((.(((((((..((...))...))))..))).)).))))).))).))).))..))...))))))..)))))).))). | 0.760 -34.10 |
block7263 [novel_mirtron_nonpairedHIGH]
Hairpin parameters
| no | 0.477 | no | no | 0.52/0.55 | 20/21/1.00 | 0.5
| 0.0
| 2
| 0
| 2
| 0
| 22
| 4
| 5arm
| 1
| 3
| 0.43
| 3
| 2 | 2 | na | na |
| seed | ------------------------CCUCAAC---------------------------------------------------------------------------------- | 1 | novel |
| seed | -----------------------GCCUCAA----------------------------------------------------------------------------------- | 1 | novel |
| | | | T1S2 | T3S2 |
| | ----------------------AGCCTCAACACCTTCTGCTTG---------------------------------------------------------------------- | 21 | 1 | - |
| | -----------------------GCCTCAACACCTTCTGCTTG---------------------------------------------------------------------- | 20 | - | 1 |
| rat | tgctttcactgggcgtggccccAGCCTCAACACCTTCTGCTTGcaggcgacttgtgggccaggacctgatgctaccaacccatgctctcctgctcaatgacagtgacaagggc | |
| | ***************************************************************************************************************** | |
| | +++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000026139 ENSRNOG00000019174 NP_001099243.1 |
| rat | .(((((((((((((((((....(((.(((...(((...(((..((((...))))..))).)))...))).)))......)))))))..............))))))...)))) | 0.420 -33.13 |
| rat | chromosome:10:14991183:14991295:-1 | Same_strand|Intronic_coding|ENSRNOT00000026139|ENSRNOG00000019174 ## ENSRNOG00000019174|protein_coding|NP_001099243.1|CTF18, chromosome transmission fidelity factor 18 homolog [Source:RefSeq_peptide;Acc:NP_001099243] |
block28934 [novel_mirtron_nonpairedHIGH]
Hairpin parameters
| no | 0.179 | no | no | 0.55/0.55 | 20/20/1.00 | 0.0
| 0.0
| 1
| 0
| 1
| 0
| 16
| 9
| 5arm
| 1
| 4
| 0.35
| 3
| 1 | 1 | na | na |
| seed | -----------------CUGUGAA---------------------------------------------------------------------------- | 1 | novel |
| | | | T5S2 |
| | ----------------GCTGTGAATGGATAGCCCCA---------------------------------------------------------------- | 20 | 1 |
| rat | aggagagttgcctcctGCTGTGAATGGATAGCCCCAgtggaccagaggacctggtgctggcaggcaggccacacctgaggatggaatctgaagctactcc | |
| | **************************************************************************************************** | |
| | -------------------------------------------------------------------------------------------------------------- | ENSRNOT00000043448 ENSRNOG00000033101 LOC360570 |
| | -------------------------------------------------------------------------------------------------------------- | ENSRNOT00000056257 ENSRNOG00000033101 LOC360570 |
| | -------------------------------------------------------------------------------------------------------------- | ENSRNOT00000056256 ENSRNOG00000033101 LOC360570 |
| | >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000056252 ENSRNOG00000037228 |
| rat | .((((((((.((((((...(((..(((...((((((((..(((((.....))))))))))..)))...))))))...)))).)).......)))).)))) | 0.800 -35.90 |
| rat | chromosome:10:63827502:63827601:-1 | Opposite_strand|Intronic_coding|ENSRNOT00000043448|ENSRNOG00000033101 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000056254|ENSRNOG00000033101 ## Same_strand|Boundary_non-coding|ENSRNOT00000056252|ENSRNOG00000037228 ## ENSRNOG00000037228|pseudogene|| ## ENSRNOG00000033101|protein_coding|LOC360570|LOC360570 protein (Fragment). [Source:UniProtKB/TrEMBL;Acc:Q3B8R3] |
block43340 [novel_mirtron_nonpairedHIGH]
Hairpin parameters
| no | 0.233 | no | no | 0.48/0.48 | 23/23/1.00 | 0.0
| 0.0
| 1
| 0
| 1
| 0
| 11
| 0
| 3arm
| 1
| 2
| 0.35
| 3
| 1 | 1 | na | na |
| seed | ------------------------------------AGGGCUG-------------------------- | 1 | novel |
| | | | T2S2 |
| | -----------------------------------CAGGGCTGACTTGTGTTTCAGAA----------- | 23 | 1 |
| rat | ggggttccagtgggggaggcagcattcctgaccacCAGGGCTGACTTGTGTTTCAGAAttgacaactcc | |
| | ********************************************************************* | |
| | +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>> | ENSRNOT00000028496 ENSRNOG00000020994 RGD1306193 |
| | +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>> | ENSRNOT00000055181 ENSRNOG00000020994 RGD1306193 |
| rat | ((((((.((((..((((.((((((..((((.....))))..)).)).)).))))...))))..)))))) | 0.990 -21.90 |
| rat | chromosome:10:91513977:91514045:-1 | Same_strand|Boundary_coding|ENSRNOT00000055181|ENSRNOG00000020994 ## ENSRNOG00000020994|protein_coding|RGD1306193|Solute carrier family 25 member 39. [Source:UniProtKB/Swiss-Prot;Acc:Q4V8K4] |
block45512 [novel_mirtron_nonpairedHIGH]
Hairpin parameters
| no | 0.135 | no | no | 0.50/0.50 | 20/20/1.00 | 0.0
| 0.0
| 1
| 0
| 1
| 0
| 21
| 15
| 3arm
| 1
| 2
| 0.35
| 3
| 1 | 1 | na | na |
| seed | ------------------------------------------------------------------------------UGCACUG--------------------------------- | 1 | novel |
| | | | T3S1 |
| | -----------------------------------------------------------------------------TTGCACTGATGTCCACAGGA--------------------- | 20 | 1 |
| rat | ctagactaacccagggcaatgccttccacggtggactaggttggcacacaggaagaggctaagcctgattttgagccTTGCACTGATGTCCACAGGAagcccttgttccaagatctgg | |
| | ********************************************************************************************************************** | |
| | ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000015976 ENSRNOG00000011917 Cd79b |
| rat | ((((((((((..(((((......((((...((((((..(((.(((...(((((..((((...))))..))))).)))....)))...)))))).))))))))).)))...)).))))) | 0.930 -37.70 |
| rat | chromosome:10:95704713:95704830:-1 | Same_strand|Intronic_coding|ENSRNOT00000015976|ENSRNOG00000011917 ## ENSRNOG00000011917|protein_coding|Cd79b|CD79B antigen [Source:RefSeq_peptide;Acc:NP_598217] |
block71211 [novel_mirtron_nonpairedHIGH]
Hairpin parameters
| no | 0.078 | no | no | 0.73/0.76 | 20/22/1.00 | 1.0
| 0.0
| 3
| 0
| 2
| 0
| 12
| 5
| 3arm
| 1
| 0
| 0.32
| 3
| 3 | 2 | na | na |
| seed | -----------------------------------------------GCCCCCU-------------------------- | 1 | novel |
| seed | ------------------------------------------------CCCCCUC------------------------- | 1 | novel |
| seed | -------------------------------------------------CCCCUCA------------------------ | 1 | novel |
| | | | T4S1 | T5S1 |
| | -----------------------------------------------GCCCCCTCACCCCTGCTCCAG------------ | 21 | - | 1 |
| | ------------------------------------------------CCCCCTCACCCCTGCTCCAG------------ | 20 | 1 | - |
| | ----------------------------------------------TGCCCCCTCACCCCTGCTCCAG------------ | 22 | - | 1 |
| rat | ggaagggaagggaggggaggttagaggagcctcaagttaagactgaTGCCCCCTCACCCCTGCTCCAGaactcctgccct | |
| | ******************************************************************************** | |
| | ------------------------------------------------------------------------------------------ | ENSRNOT00000041563 ENSRNOG00000010370 NP_001102296.1 |
| | +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>> | ENSRNOT00000036496 ENSRNOG00000021809 Gpx3 |
| rat | ((..((((..((((.((.(((.((.((.((.((.(((....))))).)))).)).))).)).)))).....))))..)). | 1.000 -29.40 |
| rat | chromosome:10:40318370:40318449:1 | Opposite_strand|Boundary_non-coding|ENSRNOT00000048600|ENSRNOG00000010370 ## Opposite_strand|Intronic_coding|ENSRNOT00000041563|ENSRNOG00000010370 ## Same_strand|Intronic_coding|ENSRNOT00000036496|ENSRNOG00000021809 ## ENSRNOG00000021809|protein_coding|Gpx3|Glutathione peroxidase 3 precursor (EC 1.11.1.9) (GSHPx-3) (GPx-3) (Plasma glutathione peroxidase) (GSHPx-P). [Source:UniProtKB/Swiss-Prot;Acc:P23764] ## ENSRNOG00000010370|protein_coding|NP_001102296.1|TNFAIP3 interacting protein 1 [Source:RefSeq_peptide;Acc:NP_001102296] |
block88560 [novel_mirtron_nonpairedHIGH]
Hairpin parameters
| no | 0.025 | no | no | 0.55/0.58 | 19/21/0.80 | 0.0
| 0.6
| 5
| 0
| 4
| 0
| 21
| 2
| 3arm
| 1
| 0
| 0.32
| 3
| 5 | 4 | na | na |
| seed | -------------------------------------------------------UCCCCCU---------------------------------- | 5 | novel |
| | | | T1S1 | T2S2 | T5S1 | T5S2 |
| | ------------------------------------------------------TTCCCCCTCTTCCTTGCACAG--------------------- | 21 | 2 | - | 1 | - |
| | ------------------------------------------------------TTCCCCCTCTTCCTTGCAC----------------------- | 19 | - | 1 | - | - |
| | ------------------------------------------------------TTCCCCCTCTTCCTTGCACA---------------------- | 20 | - | - | - | 1 |
| rat | aggtcatcaccaacccaggtcattgctgggaagtcagggatggaactcggccccTTCCCCCTCTTCCTTGCACAGgatcacacaccttgactgcct | |
| | ************************************************************************************************ | |
| | ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000011500 ENSRNOG00000008635 Mks1 |
| rat | ((((..(((........((((..(((.((((((...((((.((.........)).))))...)))))).)))...))))........)))..)))) | 0.790 -29.59 |
| rat | chromosome:10:76157922:76158017:1 | Same_strand|Intronic_coding|ENSRNOT00000011500|ENSRNOG00000008635 ## ENSRNOG00000008635|protein_coding|Mks1|Meckel syndrome type 1 protein homolog. [Source:UniProtKB/Swiss-Prot;Acc:Q499Q5] |
block95075 [novel_mirtron_nonpairedHIGH]
Hairpin parameters
| no | 0.213 | no | no | 0.50/0.50 | 20/20/1.00 | 0.0
| 0.0
| 1
| 0
| 1
| 0
| 8
| 9
| 5arm
| 1
| 1
| 0.35
| 2
| 1 | 1 | na | na |
| seed | ---------UUCCCUU------------------------------------------------------------------------ | 1 | novel |
| | | | T3S1 |
| | --------TTTCCCTTTGTCTCTCCAGC------------------------------------------------------------ | 20 | 1 |
| rat | tcttctctTTTCCCTTTGTCTCTCCAGCccgtggtgtcccaggcagtgctgtgctgttatttgaggtggagctgatatcccgagagga | |
| | **************************************************************************************** | |
| | ++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000022029 ENSRNOG00000015941 LOC360627 |
| rat | (((((((...((.(((..((((..((((..(((.(((.....))).)))...))))......))))..)))..))......))))))) | 0.510 -24.70 |
| rat | chromosome:10:89365003:89365090:1 | Same_strand|Boundary_coding|ENSRNOT00000022029|ENSRNOG00000015941 ## ENSRNOG00000015941|protein_coding|LOC360627|similar to 65kDa FK506-binding protein (LOC360627), mRNA [Source:RefSeq_dna;Acc:NM_001014120] |
block141473 [novel_mirtron_nonpairedHIGH]
Hairpin parameters
| no | 0.139 | no | no | 0.27/0.27 | 22/22/1.00 | 0.0
| 0.0
| 1
| 0
| 1
| 0
| 18
| 5
| 3arm
| 1
| 0
| 0.36
| 2
| 1 | 1 | na | na |
| seed | ----------------------------------------------------CAUUCAA-------------------------------- | 1 | novel |
| | | | T2S2 |
| | ---------------------------------------------------TCATTCAATACTTTTTTTCCAG------------------ | 22 | 1 |
| rat | ctagaaatacaggtcaaaaggggaaagttatttgtgtctgtgttttcatatTCATTCAATACTTTTTTTCCAGtgatgaactacgtctagg | |
| | ******************************************************************************************* | |
| | ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>> | ENSRNOT00000035247 ENSRNOG00000025028 NP_001101797.1 |
| rat | (((((.......((((...((..((((.((((.(((..((((....))))..)))..))))..))))..))..))))........))))). | 0.990 -19.06 |
| rat | chromosome:11:86951953:86952043:-1 | Same_strand|Intronic_coding|ENSRNOT00000035247|ENSRNOG00000025028 ## ENSRNOG00000025028|protein_coding|NP_001101797.1|protein kinase, DNA activated, catalytic polypeptide [Source:RefSeq_peptide;Acc:NP_001101797] |
©2008 InteRNA Genomics B.V.