| Detail-Interactions: | |
| RAID ID: | RPI00000411 |
|---|---|
| RNA/Protein Symbol 1: | TINCR |
| RNA/Protein Category 1: | lncRNA |
| RNA/Protein Symbol 2: | STAU1 |
| RNA/Protein Category 2: | Protein |
| Validated Method: | Immunofluorescence, Northern blot, Pull-down assay, |
| Tissue: | |
| PMID: | 23201690 |
| Detail description: | A high-throughput screen to analyse TINCR binding capacity to approximately 9,400 human recombinant proteins revealed direct binding of TINCR RNA to the staufen1 (STAU1) protein. |
| The Predicated Binding Sites between TINCR and STAU1 | |||||
| By miRanda | Structure | Match Score | Energy Score | TINCR Location | STAU1 Location |
| The Predicated Binding Sites between TINCR and STAU1 | ||||
| By RIsearch | Structure | TINCR Location | STAU1 Location | Score |
| The Predicated Binding Sites of STAU1 | |
| RBPBD | |
| RsiteDB | |
| BindN |
>sp|O95793|STAU1_HUMAN Double-stranded RNA-binding protein Staufen homolog 1 OS=Homo sapiens GN=STAU1 PE=1 SV=2 Sequence: MSQVQVQVQNPSAALSGSQILNKNQSLLSQPLMSIPSTTSSLPSENAGRPIQNSALPSAS Prediction: -----------+---+-++------+----------+++++--+++--+--+-----+-+ Confidence: 732837273246423546644125255623586262657883267542815512452737 Sequence: ITSTSAAAESITPTVELNALCMKLGKKPMYKPVDPYSRMQSTYNYNMRGGAYPPRYFYPF Prediction: -++++-----------------+--++--++----+++-++++++--+---+--+----- Confidence: 356553332161329575776665488136535425572776656139221722727259 Sequence: PVPPLLYQVELSVGGQQFNGKGKTRQAAKHDAAAKALRILQNEPLPERLEVNGRESEEEN Prediction: ---------------++-++++++++--+--------+-------------+-+------ Confidence: 896699469783633552769798992273444517777746655562734638213431 Sequence: LNKSEISQVFEIALKRNLPVNFEVARESGPPHMKNFVTKVSVGEFVGEGEGKSKKISKKN Prediction: --+----------------------+-------+---------------++++++++++- Confidence: 625438249967783235484776864231225536531948758965465989967752 Sequence: AAIAVLEELKKLPPLPAVERVKPRIKKKTKPIVKPQTSPEYGQGINPISRLAQIQQAKKE Prediction: -------------------+-++++++++++--+--+++-+--------+----++-++- Confidence: 456999879227446467365759589868623731666353254237276625672872 Sequence: KEPEYTLLTERGLPRRREFVMQVKVGNHTAEGTGTNKKVAKRNAAENMLEILGFKVPQAQ Prediction: +---------++--+++-----------+-++++++++--++---------------+-+ Confidence: 723534584476117664447492641254658686991288145479989988283546 Sequence: PTKPALKSEEKTPIKKPGDGRKVTFFEPGSGDENGTSNKEDEFRMPYLSHQQLPAGILPM Prediction: -+++--++--+++-++++++++---------++++++++--------------------- Confidence: 268523852176638975557672454531357877756124717628345464788878 Sequence: VPEVAQAVGVSQGHHTKDFTRAAPNPAKATVTAMIARELLYGGTSPTAETILKNNISSGH Prediction: ----------++-+-++---+---++-+--------+------++++--+------++-- Confidence: 988993784657252663418441753851613699578715267676255723256732 Sequence: VPHGPLTRPSEQLDYLSRVQGFQVEYKDFPKNNKNEFVSLINCSSQPPLISHGIGKDVES Prediction: -------+---------+----+------++--+---------------------+---- Confidence: 521424182232552736824357431236811614584783511222672277654742 Sequence: CHDMAALNILKLLSELDQQSTEMPRTGNGPMSVCGRC Prediction: --------------------++-+++-+---+---+- Confidence: 7587899698299347522266259526123654576 *** 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|O95793|STAU1_HUMAN Double-stranded RNA-binding protein Staufen homolog 1 OS=Homo sapiens GN=STAU1 PE=1 SV=2 Sequence: MSQVQVQVQNPSAALSGSQILNKNQSLLSQPLMSIPSTTSSLPSENAGRPIQNSALPSAS Prediction: ------------------+--++++------------------+-+--++-++------- Confidence: 553939485695678622532843524764889788855226141712651532234221 Sequence: ITSTSAAAESITPTVELNALCMKLGKKPMYKPVDPYSRMQSTYNYNMRGGAYPPRYFYPF Prediction: --+-------------------+--+----------++-++------+---+--+----- Confidence: 424335665263877795854442442245375662532431222154412444327577 Sequence: PVPPLLYQVELSVGGQQFNGKGKTRQAAKHDAAAKALRILQNEPLPERLEVNGRESEEEN Prediction: --------------------+-++++--+-----+------------------------- Confidence: 251344429495768633624166972251344639817747945873668586778864 Sequence: LNKSEISQVFEIALKRNLPVNFEVARESGPPHMKNFVTKVSVGEFVGEGEGKSKKISKKN Prediction: --+----------------------------+-----------------+-++++--+-- Confidence: 633357369456642143278899979743438348996969868777332447541423 Sequence: AAIAVLEELKKLPPLPAVERVKPRIKKKTKPIVKPQTSPEYGQGINPISRLAQIQQAKKE Prediction: ----------------------------------------------------------+- Confidence: 878999899699899879878574745475576463346778656445148455426134 Sequence: KEPEYTLLTERGLPRRREFVMQVKVGNHTAEGTGTNKKVAKRNAAENMLEILGFKVPQAQ Prediction: -------------++-+--------------++++++++++++----------------- Confidence: 136849997841247235439491842514258798993488365279999987766494 Sequence: PTKPALKSEEKTPIKKPGDGRKVTFFEPGSGDENGTSNKEDEFRMPYLSHQQLPAGILPM Prediction: -------------------------------------+-----------+---------- Confidence: 453256346567886545664484888886768551131435525214232587679856 Sequence: VPEVAQAVGVSQGHHTKDFTRAAPNPAKATVTAMIARELLYGGTSPTAETILKNNISSGH Prediction: ------------------------++-+-+----------------+----------+-- Confidence: 767654856742334425733332431523435589486738634547313823343353 Sequence: VPHGPLTRPSEQLDYLSRVQGFQVEYKDFPKNNKNEFVSLINCSSQPPLISHGIGKDVES Prediction: ----+--++--------------------------------------------------- Confidence: 842532244332787988979928542467222215787995932447664111212525 Sequence: CHDMAALNILKLLSELDQQSTEMPRTGNGPMSVCGRC Prediction: -----------------------++++++--+---+- Confidence: 5264772397389587673222235455712642462 *** 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 |
>O95793|STAU1 Sequence: MSQVQVQVQNPSAALSGSQILNKNQSLLSQPLMSIPSTTSSLPSENAGRPIQNSALPSAS Prediction: --+-+-------------+-+++++-----------------+----------+-+++++ Confidence: 225181110331211433747568612312101000100331543432231347356655 Sequence: ITSTSAAAESITPTVELNALCMKLGKKPMYKPVDPYSRMQSTYNYNMRGGAYPPRYFYPF Prediction: --------++-+++-----+--++------------------------------------ Confidence: 141123326747754224261475123100100010100000100001021202212041 Sequence: PVPPLLYQVELSVGGQQFNGKGKTRQAAKHDAAAKALRILQNEPLPERLEVNGRESEEEN Prediction: ----+--+-------+-++++++++++++++++-+------------------------- Confidence: 313452251312022535689999999999998471120011000000000000000000 Sequence: LNKSEISQVFEIALKRNLPVNFEVARESGPPHMKNFVTKVSVGEFVGEGEGKSKKISKKN Prediction: --++----------+----------------+-+-------------+-+++++++++++ Confidence: 015511320241148424311140031334163531002000121145378999978998 Sequence: AAIAVLEELKKLPPLPAVERVKPRIKKKTKPIVKPQTSPEYGQGINPISRLAQIQQAKKE Prediction: ++-------------------------------------------++------------- Confidence: 654400000010000100000001000000000001000000111664241111102221 Sequence: KEPEYTLLTERGLPRRREFVMQVKVGNHTAEGTGTNKKVAKRNAAENMLEILGFKVPQAQ Prediction: -----------+++++++++------++-+++++++++++++++---------------- Confidence: 111001000045669996752314125547878999999999774340000000000001 Sequence: PTKPALKSEEKTPIKKPGDGRKVTFFEPGSGDENGTSNKEDEFRMPYLSHQQLPAGILPM Prediction: ------------------------------------------------------------ Confidence: 000000000000000100000000000100000000001100120011011000001000 Sequence: VPEVAQAVGVSQGHHTKDFTRAAPNPAKATVTAMIARELLYGGTSPTAETILKNNISSGH Prediction: ------------------------------------------------------------ Confidence: 000001000014211141132134421232011100100000110200110020100111 Sequence: VPHGPLTRPSEQLDYLSRVQGFQVEYKDFPKNNKNEFVSLINCSSQPPLISHGIGKDVES Prediction: -------------------------------++++----------------+--+----- Confidence: 000010020000000000000000101111266574211121213222212642544231 Sequence: CHDMAALNILKLLSELDQQSTEMPRTGNGPMSVCGRC Prediction: ---+---+-----------------------+---++- Confidence: 12253236111000000000000011123135243860 *** 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: MSQVQVQVQNPSAALSGSQILNKNQSLLSQPLMSIPSTTSSLPSENAGRPIQNSALPSAS Prediction: ----+------------------------------------------++---+------- Confidence: 223131100212010100000010000000000000000100002134430242000010 Sequence: ITSTSAAAESITPTVELNALCMKLGKKPMYKPVDPYSRMQSTYNYNMRGGAYPPRYFYPF Prediction: -----------------------------------------++-----------+----- Confidence: 000000000000000002110032012102300231000214321201112212400000 Sequence: PVPPLLYQVELSVGGQQFNGKGKTRQAAKHDAAAKALRILQNEPLPERLEVNGRESEEEN Prediction: -------------+++++-+++++++++++++---------------------------- Confidence: 313011200103245743246594665365642121120000001010010103021011 Sequence: LNKSEISQVFEIALKRNLPVNFEVARESGPPHMKNFVTKVSVGEFVGEGEGKSKKISKKN Prediction: ------------------++------+-+----++---+----------+++++++++++ Confidence: 132000000021011203672030024033222551004012000102356769953787 Sequence: AAIAVLEELKKLPPLPAVERVKPRIKKKTKPIVKPQTSPEYGQGINPISRLAQIQQAKKE Prediction: +-+-----------------------++-+---+-++++++++--+++++-------++- Confidence: 523001000100002310010213134424210324445456721536451120012632 Sequence: KEPEYTLLTERGLPRRREFVMQVKVGNHTAEGTGTNKKVAKRNAAENMLEILGFKVPQAQ Prediction: -----------++-++++-----+--++-++++++++++-++++---------------- Confidence: 220000000134425454331104024533877697986286352100000000101322 Sequence: PTKPALKSEEKTPIKKPGDGRKVTFFEPGSGDENGTSNKEDEFRMPYLSHQQLPAGILPM Prediction: --+-------+---+++---++-----+++++-++--+---------------------- Confidence: 114110201030315543215522201533552751131001130230000100201000 Sequence: VPEVAQAVGVSQGHHTKDFTRAAPNPAKATVTAMIARELLYGGTSPTAETILKNNISSGH Prediction: ----------+--++++++++---+-++-----------------------------+++ Confidence: 000001001232254555333103333310000000000000123100000000121464 Sequence: VPHGPLTRPSEQLDYLSRVQGFQVEYKDFPKNNKNEFVSLINCSSQPPLISHGIGKDVES Prediction: ++-+++-+------------------------+----------++--------+-+-+-- Confidence: 533453140021200000000000211233335121001000043211100026241311 Sequence: CHDMAALNILKLLSELDQQSTEMPRTGNGPMSVCGRC Prediction: ---------------------+-++-++++-++--+- Confidence: 0212000000100000000023345344542442032 ***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.