| Detail-Interactions: | |
| RAID ID: | RPI00000644 |
|---|---|
| RNA/Protein Symbol 1: | APOB mRNA(apo-B) |
| RNA/Protein Category 1: | mRNA |
| RNA/Protein Symbol 2: | A1CF(ACF) |
| RNA/Protein Category 2: | Protein |
| Validated Method: | UV Cross-linking Assay, RNP Immunoprecipitation |
| Tissue: | |
| PMID: | 10669759 |
| Detail description: | By UV cross-linking and immunoprecipitation, we show that ACF binds to apo-B mRNA in vitro and in vivo. |
| The Predicated Binding Sites between APOB mRNA and A1CF | |||||
| By miRanda | Structure | Match Score | Energy Score | APOB mRNA Location | A1CF Location |
| The Predicated Binding Sites between APOB mRNA and A1CF | ||||
| By RIsearch | Structure | APOB mRNA Location | A1CF Location | Score |
| The Predicated Binding Sites of A1CF | |
| RBPBD | RRMx3 |
| RsiteDB | |
| BindN |
>sp|Q9NQ94|A1CF_HUMAN APOBEC1 complementation factor OS=Homo sapiens GN=A1CF PE=1 SV=1 Sequence: MESNHKSGDGLSGTQKEAALRALVQRTGYSLVQENGQRKYGGPPPGWDAAPPERGCEIFI Prediction: ---+++++++++-+-++---+----++-++---++++++++++----------+------ Confidence: 632556755548262664577547375465372575687855622425633547664878 Sequence: GKLPRDLFEDELIPLCEKIGKIYEMRMMMDFNGNNRGYAFVTFSNKVEAKNAIKQLNNYE Prediction: -+--+---------------+------------+++-+-------+---+---+------ Confidence: 547676989999989973884737939997633458465383643653562556273332 Sequence: IRNGRLLGVCASVDNCRLFVGGIPKTKKREEILSEMKKVTEGVVDVIVYPSAADKTKNRG Prediction: -+--+------+----+------+++++++--------------------+--++++++- Confidence: 672676728775743759676345989675365467228349998989375335979584 Sequence: FAFVEYESHRAAAMARRKLLPGRIQLWGHGIAVDWAEPEVEVDEDTMSSVKILYVRNLML Prediction: ---------+--+--+++--+-+------------------------------------- Confidence: 554863423652525765335578363759989659778979878352272483925747 Sequence: STSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTL Prediction: --------------+-----+-++-+---------+-------+---------------- Confidence: 223644876783285333537555757498936244676769756626277363474737 Sequence: AKPVDKDSYVRYTRGTGGRGTMLQGEYTYSLGQVYDPTTTYLGAPVFYAPQTYAAIPSLH Prediction: -++--+--+-+++++++++-+--+--+----------+-++-----------+------- Confidence: 864446326566485865826255444223563625442566655972843346564273 Sequence: FPATKGHLSNRAIIRAPSVREIYMNVPVGAAGVRGLGGRGYLAYTGLGRGYQVKGDKRED Prediction: ---++-+-+-+---+----+-------------+++--+-+--++---+-+++++++++- Confidence: 434672725266558332874938596852436944238373664333927649557853 Sequence: KLYDILPGMELTPMNPVTLKPQGIKLAPQILEEICQKNNWGQPVYQLHSAIGQDQRQLFL Prediction: +----------------+-+-+--+---------------------------+--+---- Confidence: 584899889683473365662446677469988974232232582493255355363857 Sequence: YKITIPALASQNPAIHPFTPPKLSAFVDEAKTYAAEYTLQTLGIPTDGGDGTMATAAAAA Prediction: ---------+--------+--+--------+++-------+----+--------+----- Confidence: 639383565533446366444582759547545453337254562533223236654555 Sequence: TAFPGYAVPNATAPVSAAQLKQAVTLGQDLAAYTTYEVYPTFAVTARGDGYGTF Prediction: +----------+---+----++----------------------+-+-+++--- Confidence: 655562663366525635276577277465663322473736655492456426 *** 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|Q9NQ94|A1CF_HUMAN APOBEC1 complementation factor OS=Homo sapiens GN=A1CF PE=1 SV=1 Sequence: MESNHKSGDGLSGTQKEAALRALVQRTGYSLVQENGQRKYGGPPPGWDAAPPERGCEIFI Prediction: --------------++---------------------+++----------------+-+- Confidence: 335355477452235416694998977957885513264414553312433441445636 Sequence: GKLPRDLFEDELIPLCEKIGKIYEMRMMMDFNGNNRGYAFVTFSNKVEAKNAIKQLNNYE Prediction: ++--+--------------------+--+-++++++-+-+-+------------------ Confidence: 556747966999899957987741962443453667177594877498865884362432 Sequence: IRNGRLLGVCASVDNCRLFVGGIPKTKKREEILSEMKKVTEGVVDVIVYPSAADKTKNRG Prediction: ----+------------------------------------------------+++++++ Confidence: 323254625341656726253155218369999999778767888756231223667795 Sequence: FAFVEYESHRAAAMARRKLLPGRIQLWGHGIAVDWAEPEVEVDEDTMSSVKILYVRNLML Prediction: +-+-+----------------------------+-+-------------------+---- Confidence: 745755664798879644545635542424524513245535664155584571751765 Sequence: STSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTL Prediction: --------------------+-++-+++-+-+------------------------+-+- Confidence: 796879988996874574657346285765847542687878736738355332465561 Sequence: AKPVDKDSYVRYTRGTGGRGTMLQGEYTYSLGQVYDPTTTYLGAPVFYAPQTYAAIPSLH Prediction: -+----+++-++-+-++-+-+-----+-------------+------------------+ Confidence: 242221563354261432614233415412344322312142452531311222243114 Sequence: FPATKGHLSNRAIIRAPSVREIYMNVPVGAAGVRGLGGRGYLAYTGLGRGYQVKGDKRED Prediction: ---++-+---+---+-+--++-----+-+----++++++-++-+----+--++++-+++- Confidence: 212342312132424231154122263332223755667155244225311336516532 Sequence: KLYDILPGMELTPMNPVTLKPQGIKLAPQILEEICQKNNWGQPVYQLHSAIGQDQRQLFL Prediction: -------------------+--------------------------------+--+---- Confidence: 266586434152554633531268388767978994532365692585646243144679 Sequence: YKITIPALASQNPAIHPFTPPKLSAFVDEAKTYAAEYTLQTLGIPTDGGDGTMATAAAAA Prediction: ------------------------------------------------------------ Confidence: 949486688688868564363273748758334425248356595432333235235377 Sequence: TAFPGYAVPNATAPVSAAQLKQAVTLGQDLAAYTTYEVYPTFAVTARGDGYGTF Prediction: ---------------+--+---------------------------+--+++-- Confidence: 474693796572545322461279387479687874783745572872137322 *** 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 |
>Q9NQ94|A1CF Sequence: MESNHKSGDGLSGTQKEAALRALVQRTGYSLVQENGQRKYGGPPPGWDAAPPERGCEIFI Prediction: --------------------------++-+----+++++++++++++--++--++-+-+- Confidence: 121301103412312421211110146535123476989888855552166437526351 Sequence: GKLPRDLFEDELIPLCEKIGKIYEMRMMMDFNGNNRGYAFVTFSNKVEAKNAIKQLNNYE Prediction: ++--++-----------------+-+--+++++++++++++++++++---------+++- Confidence: 784486020110030021014125251376769789888958666653144314415773 Sequence: IRNGRLLGVCASVDNCRLFVGGIPKTKKREEILSEMKKVTEGVVDVIVYPSAADKTKNRG Prediction: -+++++-+-++++++++++-++++++-++--------------------------+++++ Confidence: 485888354576758797528867973650100000010002001011213214365776 Sequence: FAFVEYESHRAAAMARRKLLPGRIQLWGHGIAVDWAEPEVEVDEDTMSSVKILYVRNLML Prediction: +------+++---+++++--+++-+--+--------+----------------------- Confidence: 632034257524255776347750731544141322532220111210122113013011 Sequence: STSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTL Prediction: --------------------+-++++++++++++++----------------------+- Confidence: 101100010001202132245258788886575567432010030210110131112062 Sequence: AKPVDKDSYVRYTRGTGGRGTMLQGEYTYSLGQVYDPTTTYLGAPVFYAPQTYAAIPSLH Prediction: -+-----------+++-++---------+---+--++++++--------+--++------ Confidence: 274314210011265646624221133253137135667661334224354367423312 Sequence: FPATKGHLSNRAIIRAPSVREIYMNVPVGAAGVRGLGGRGYLAYTGLGRGYQVKGDKRED Prediction: ----------------------+++++++++++++++++++-+++++-+++-+++--+-- Confidence: 000110321122012341232455677778988998888884667864777455534632 Sequence: KLYDILPGMELTPMNPVTLKPQGIKLAPQILEEICQKNNWGQPVYQLHSAIGQDQRQLFL Prediction: -------------------+-++------------------------------------- Confidence: 304201212101101021254572442101000001023012302201201010120000 Sequence: YKITIPALASQNPAIHPFTPPKLSAFVDEAKTYAAEYTLQTLGIPTDGGDGTMATAAAAA Prediction: ------------+----------------------------------------------- Confidence: 020100221242511301121111010111431200000010000000000001000000 Sequence: TAFPGYAVPNATAPVSAAQLKQAVTLGQDLAAYTTYEVYPTFAVTARGDGYGTF Prediction: -----------------------------------------------+--++--- Confidence: 1002021114203100141022112003300210121042321231453375240 *** 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: MESNHKSGDGLSGTQKEAALRALVQRTGYSLVQENGQRKYGGPPPGWDAAPPERGCEIFI Prediction: ----++++++++---------------------+++++++++++++++++++++--+++- Confidence: 322355565463321000000000131310231487689869998455337453117490 Sequence: GKLPRDLFEDELIPLCEKIGKIYEMRMMMDFNGNNRGYAFVTFSNKVEAKNAIKQLNNYE Prediction: ++++++-----------------+-+++++++++++++-+++---------------+-- Confidence: 999394000000000000000034269699999999990959000000010001000310 Sequence: IRNGRLLGVCASVDNCRLFVGGIPKTKKREEILSEMKKVTEGVVDVIVYPSAADKTKNRG Prediction: ---++++++++++++++++++++-+---------------------+-++++++++++++ Confidence: 023796866999999596998991700100000000000000002243789999999999 Sequence: FAFVEYESHRAAAMARRKLLPGRIQLWGHGIAVDWAEPEVEVDEDTMSSVKILYVRNLML Prediction: +-+++--------------------+-++++++++++++++++-++++++-+++-+++-+ Confidence: 909590200000000011000313152455785999999899716457542737297809 Sequence: STSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTL Prediction: +----------------+--+-+++++++++++----------------+---+--+-+- Confidence: 400000000000000116304378597949495222000000000000340014004051 Sequence: AKPVDKDSYVRYTRGTGGRGTMLQGEYTYSLGQVYDPTTTYLGAPVFYAPQTYAAIPSLH Prediction: +++++++++++++++++++++-----+-++----------------------------+- Confidence: 389959998998686657734102214263122000220210000000010000000143 Sequence: FPATKGHLSNRAIIRAPSVREIYMNVPVGAAGVRGLGGRGYLAYTGLGRGYQVKGDKRED Prediction: --+++++--+++-----+----------++++-++-+++++++-+-+++++++++++--- Confidence: 224765433453032016221000003355563743568563414254846779876122 Sequence: KLYDILPGMELTPMNPVTLKPQGIKLAPQILEEICQKNNWGQPVYQLHSAIGQDQRQLFL Prediction: -+-----------------------------------+-+-+------------------ Confidence: 330121110010000000000000000000022001133525132101122020020011 Sequence: YKITIPALASQNPAIHPFTPPKLSAFVDEAKTYAAEYTLQTLGIPTDGGDGTMATAAAAA Prediction: ----------------------------------------------+-++---------- Confidence: 030110000000000000000101000000000001000000011131443310000000 Sequence: TAFPGYAVPNATAPVSAAQLKQAVTLGQDLAAYTTYEVYPTFAVTARGDGYGTF Prediction: ------------------------------------------------+-++++ Confidence: 000000000000000000201000000000000000001000000021435453 ***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.