| Detail-Interactions: | |
| RAID ID: | RRI00000064 |
|---|---|
| RNA/Protein Symbol 1: | antisense N-myc RNA |
| RNA/Protein Category 1: | lncRNA |
| RNA/Protein Symbol 2: | MYCN mRNA(N-myc) |
| RNA/Protein Category 2: | mRNA |
| Validated Method: | Double RNase protection assay procedure |
| Tissue: | SCLC cell lines//Neuroblastoma cell line |
| PMID: | 1695323 |
| Detail description: | N-myc mRNA forms an RNA-RNA duplex with endogenous antisense transcripts. |
| The Predicated Binding Sites between antisense N-myc RNA and MYCN | |||||
| By miRanda | Structure | Match Score | Energy Score | antisense N-myc RNA Location | MYCN Location |
| The Predicated Binding Sites between antisense N-myc RNA and MYCN | ||||
| By RIsearch | Structure | antisense N-myc RNA Location | MYCN Location | Score |
| The Predicated Binding Sites of MYCN | |
| RBPBD | |
| RsiteDB | |
| BindN |
>sp|P04198|MYCN_HUMAN N-myc proto-oncogene protein OS=Homo sapiens GN=MYCN PE=1 SV=2 Sequence: MPSCSTSTMPGMICKNPDLEFDSLQPCFYPDEDDFYFGGPDSTPPGEDIWKKFELLPTPP Prediction: --+-++++------+--------------------------++----------------+ Confidence: 645367655424774556647849457738899895854435624425844697674244 Sequence: LSPSRGFAEHSSEPPSWVTEMLLENELWGSPAEEDAFGLGGLGGLTPNPVILQDCMWSGF Prediction: -+-++-----++--+------------------------------+-------------- Confidence: 362584232345245249469999989372385678777645334543499989996544 Sequence: SAREKLERAVSEKLQHGRGPPTAGSTAQSPGAGAASPAGRGHGGAAGAGRAGAALPAELA Prediction: --+-+--+----+-++-+-+++++++-+++-++--+++++-++-+-+--+---------- Confidence: 258247374423545439258855982875255328856927524252294235757688 Sequence: HPAAECVDPAVVFPFPVNKREPAPVPAAPASAPAAGPAVASGAGIAAPAGAPGVAPPRPG Prediction: ------------------++----------+---------+---------------++++ Confidence: 379878988999976452562332734525642444254464545542534232324988 Sequence: GRQTSGGDHKALSTSGEDTLSDSDDEDDEEEDEEEEIDVVTVEKRRSSSNTKAVTTFTIT Prediction: ++++++--++--+++---+-+-------------------+-++++++++++--++-+-+ Confidence: 898685225733677322554344555677798998979745568999889923555556 Sequence: VRPKNAALGPGRAQSSELILKRCLPIHQQHNYAAPSPYVESEDAPPQKKIKSEASPRPLK Prediction: -+-+----++++-++----------------+--++++------+++++-+++-+++--+ Confidence: 674625324559277225693488452343354455565224325457839782667257 Sequence: SVIPPKAKSLSPRNSDSEDSERRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKV Prediction: +---++-++++++++++++++++++++---+++++++++-------------+--+--+- Confidence: 546347389686976677888988457232558887485226282869648746474566 Sequence: VILKKATEYVHSLQAEEHQLLLEKEKLQARQQQLLKKIEHARTC Prediction: ----+--------------------+-+-+--+--------+-- Confidence: 77825624273272757769896445273732556227426724 *** Prediction: binding residues are labeled with '+' and in red; non-binding residues labeled with '-' and in green. *** Confidence: from level 0 (lowest) to level 9 (highest). |
| BindN+ |
>sp|P04198|MYCN_HUMAN N-myc proto-oncogene protein OS=Homo sapiens GN=MYCN PE=1 SV=2 Sequence: MPSCSTSTMPGMICKNPDLEFDSLQPCFYPDEDDFYFGGPDSTPPGEDIWKKFELLPTPP Prediction: ----+-+--++---+-------------------------------++-++--------+ Confidence: 642443425333434236467768278838897773888752123144256153443244 Sequence: LSPSRGFAEHSSEPPSWVTEMLLENELWGSPAEEDAFGLGGLGGLTPNPVILQDCMWSGF Prediction: -++++---------------------------------------------------+--- Confidence: 275573234445769538789999999889998798879999795584258823455233 Sequence: SAREKLERAVSEKLQHGRGPPTAGSTAQSPGAGAASPAGRGHGGAAGAGRAGAALPAELA Prediction: +-+----+----+----+------------------+-+--+------------------ Confidence: 435429343535443134343263336223412311435165123324223246699895 Sequence: HPAAECVDPAVVFPFPVNKREPAPVPAAPASAPAAGPAVASGAGIAAPAGAPGVAPPRPG Prediction: -------------------+---------------------------------------- Confidence: 788678725675776372451342343323353777678766569987998999999777 Sequence: GRQTSGGDHKALSTSGEDTLSDSDDEDDEEEDEEEEIDVVTVEKRRSSSNTKAVTTFTIT Prediction: ----------------------------------------+--+++++++++--+----- Confidence: 857869999999999999999999999999999999969744157647555661425142 Sequence: VRPKNAALGPGRAQSSELILKRCLPIHQQHNYAAPSPYVESEDAPPQKKIKSEASPRPLK Prediction: -+-+-----+++++++++---+--++-+++++-------------++++-++-------+ Confidence: 462335152589685553262654441465562415124223421536726333231134 Sequence: SVIPPKAKSLSPRNSDSEDSERRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKV Prediction: +++++++++++++++-+----+++-+++++++++++-+-----------------+--+- Confidence: 443656596485944241121596287343867875444557491899477623372253 Sequence: VILKKATEYVHSLQAEEHQLLLEKEKLQARQQQLLKKIEHARTC Prediction: ---++----------------------+-------------+-- Confidence: 25743637272362657336656563552336155258516415 *** Prediction: binding residues are labeled with '+' and in red; non-binding residues labeled with '-' and in green. *** Confidence: from level 0 (lowest) to level 9 (highest). |
| RNAbindR |
>P04198|MYCN Sequence: MPSCSTSTMPGMICKNPDLEFDSLQPCFYPDEDDFYFGGPDSTPPGEDIWKKFELLPTPP Prediction: ---+----------------------------------------+-+------------+ Confidence: 123511211122123101000000100000000000000121345262132001010335 Sequence: LSPSRGFAEHSSEPPSWVTEMLLENELWGSPAEEDAFGLGGLGGLTPNPVILQDCMWSGF Prediction: --++-------------------------------------------------------- Confidence: 345543210000000000000000000000000000000000001000000021102321 Sequence: SAREKLERAVSEKLQHGRGPPTAGSTAQSPGAGAASPAGRGHGGAAGAGRAGAALPAELA Prediction: ------------+----+-+----------------------------+--+-------+ Confidence: 201010110233512235153200101112112324422421121122732742344236 Sequence: HPAAECVDPAVVFPFPVNKREPAPVPAAPASAPAAGPAVASGAGIAAPAGAPGVAPPRPG Prediction: -------+++++++++-+------------------------------------------ Confidence: 301211157557767716330100000000000000000000000000000000000000 Sequence: GRQTSGGDHKALSTSGEDTLSDSDDEDDEEEDEEEEIDVVTVEKRRSSSNTKAVTTFTIT Prediction: -------------------------------------------+++-------------- Confidence: 000000000000000000000000000000000000010143457543332311132211 Sequence: VRPKNAALGPGRAQSSELILKRCLPIHQQHNYAAPSPYVESEDAPPQKKIKSEASPRPLK Prediction: --------------------+------+++++++++--------+-----------+--+ Confidence: 020000000102242121216423023657988785340012016122303110428216 Sequence: SVIPPKAKSLSPRNSDSEDSERRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKV Prediction: +--+++++++++++++++++++++++++++++++++-++++-+-+-------++-+--+- Confidence: 742769899799988877587998999757999996488664737311330165284464 Sequence: VILKKATEYVHSLQAEEHQLLLEKEKLQARQQQLLKKIEHARTC Prediction: -++++--+---------++------++++++++++++--+-+++- Confidence: 465782373132120136600123465569878658844848760 *** Prediction: binding residues are labeled with '+' and in red; non-binding residues labeled with '-' and in green. *** Confidence: from level 0 (lowest) to level 9 (highest). |
| Pprint |
Sequence: MPSCSTSTMPGMICKNPDLEFDSLQPCFYPDEDDFYFGGPDSTPPGEDIWKKFELLPTPP Prediction: -++---++--------------------------------+---+--------------- Confidence: 233213430023001121000000000000000000000030233131000000000011 Sequence: LSPSRGFAEHSSEPPSWVTEMLLENELWGSPAEEDAFGLGGLGGLTPNPVILQDCMWSGF Prediction: -+--+--------------------------------------------+------++++ Confidence: 352031200000000000000000000000000000000000011000130000125446 Sequence: SAREKLERAVSEKLQHGRGPPTAGSTAQSPGAGAASPAGRGHGGAAGAGRAGAALPAELA Prediction: +---------+++------------------------------+-++------------- Confidence: 322023031355522123221201110000000112120322242453212110001110 Sequence: HPAAECVDPAVVFPFPVNKREPAPVPAAPASAPAAGPAVASGAGIAAPAGAPGVAPPRPG Prediction: ---------------+--+++----+---------------------------------- Confidence: 000010000000132523783212231211000000000000000000000000000000 Sequence: GRQTSGGDHKALSTSGEDTLSDSDDEDDEEEDEEEEIDVVTVEKRRSSSNTKAVTTFTIT Prediction: ------------------------------------------++++++++++++------ Confidence: 010000010000000000000000000000000000000012578656556443221210 Sequence: VRPKNAALGPGRAQSSELILKRCLPIHQQHNYAAPSPYVESEDAPPQKKIKSEASPRPLK Prediction: ---------+++--+-++--++++++-+-+-+++++-+------+--++-+++-----++ Confidence: 020202011344334253124543453425244653340020023134715441223235 Sequence: SVIPPKAKSLSPRNSDSEDSERRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKV Prediction: -+++++++++++++++++++++++++++++++++---++----------------+--+- Confidence: 354889698789969645567689989757984502243011002000000010253242 Sequence: VILKKATEYVHSLQAEEHQLLLEKEKLQARQQQLLKKIEHARTC Prediction: +-----------+--+--+--------+++++++-++------+ Confidence: 42123011212141042252010102334864432441001224 ***Prediction: binding residues are labeled with '+' and in red; non-binding residues labeled with '-' and in green. ***Confidence: from level 0 (lowest) to level 9 (highest). |
The 'First Node' or 'Second Node' option represents the sub-network of interacting RNA/Protein with the first or second interaction node,
the 'Both the Nodes' option represents the sub-network of interacting RNA/Protein with both of interaction nodes.
The 'First Neighbour' represents the sub-network of direct interacting with the center node,
the 'Second Neighbour' represents the sub-network of direct or second step interacting with the center node.
Interaction sub-network based on the two nodes of this interaction may help the researchers represents all interacting partners immediately.
The Detail page: representing the detail information for RNA-RNA/RNA-Protein interaction;
The Binding page: representing the predicted binding sites and/or constants.
The Network page: representing the interaction sub-network of interacting RNA/Protein.