| Detail-Interactions: | |
| RAID ID: | RPI00000673 |
|---|---|
| RNA/Protein Symbol 1: | CDKN1B mRNA(p27) |
| RNA/Protein Category 1: | mRNA |
| RNA/Protein Symbol 2: | CELF1(CUGBP1) |
| RNA/Protein Category 2: | Protein |
| Validated Method: | Biotin Pull-down Assay |
| Tissue: | breast cancer cell line(MCF-7) |
| PMID: | 21508681 |
| Detail description: | In this study, the RNA-associated protein CUGBP1 was shown to interact with the human p27 5`-untranslated region. |
| The Predicated Binding Sites between CDKN1B mRNA and CELF1 | |||||
| By miRanda | Structure | Match Score | Energy Score | CDKN1B mRNA Location | CELF1 Location |
| The Predicated Binding Sites between CDKN1B mRNA and CELF1 | ||||
| By RIsearch | Structure | CDKN1B mRNA Location | CELF1 Location | Score |
| The Predicated Binding Sites of CELF1 | |
| RBPBD | |
| RsiteDB | |
| BindN |
>sp|Q92879|CELF1_HUMAN CUGBP Elav-like family member 1 OS=Homo sapiens GN=CELF1 PE=1 SV=2 Sequence: MNGTLDHPDQPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKG Prediction: -----------------------++++-++--+---------------+-+++++++++- Confidence: 736264244475778928897274864264795788987987589475637578977674 Sequence: CCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCT Prediction: --------++------------------------++-+++++--------------++-+ Confidence: 356837236563449347646839748764483765276574335583386666826764 Sequence: ENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSP Prediction: ----+---------------+-----++---------+---+---+------+-+--++- Confidence: 236959754469476772776622335763648262383364367575336343534552 Sequence: MVVKFADTQKDKEQKRMAQQLQQQMQQISAASVWGNLAGLNTLGPQYLALYLQLLQQTAS Prediction: ---+---+++++++++--+----------------------+-----------------+ Confidence: 499464257868767634627334643725528364763726345438794968944347 Sequence: SGNLNTLSSLHPMGGLNAMQLQNLAALAAAASAAQNTPSGTNALTTSSSPLSVLTSSGSS Prediction: +++-++-------------------------+--+++++++++-+++++--+--++++++ Confidence: 856255522654566726539549877666572267868487526677634656668699 Sequence: PSSSSSNSVNPIASLGALQTLAGATAGLNVGSLAGMAALNGGLGSSGLSNGTGSTMEALT Prediction: ++++++++-+---+----------+---+--+------------+++-++++-++----- Confidence: 999988755437755458324545533456466654766232338752885726533552 Sequence: QAYSGIQQYAAAALPTLYNQNLLTQQSIGAAGSQKEGPEGANLFIYHLPQEFGDQDLLQM Prediction: --++-----------+-------------+++++++-+---------------------- Confidence: 375526333875673562633663443625458784243673979479956877899979 Sequence: FMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSK Prediction: --------+-+-------+-++-----------+---------------++-+-+-++++ Confidence: 999994775757577332446675558437336472446345277263458473828999 Sequence: NDSKPY Prediction: ++++-+ Confidence: 898825 *** 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|Q92879|CELF1_HUMAN CUGBP Elav-like family member 1 OS=Homo sapiens GN=CELF1 PE=1 SV=2 Sequence: MNGTLDHPDQPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKG Prediction: -+----------------+-++--+--------------------+--++++++++++++ Confidence: 253253334634656617374576459658994999688795427724738677455574 Sequence: CCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCT Prediction: +-+-+---------------------------+-+-------------+---++------ Confidence: 766757563798989756716534532141214333444334447583471345631394 Sequence: ENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSP Prediction: -----------------+--+-++-+++++-+-+--------------+----------- Confidence: 789969985757655286355344156848568766749887799576333143233334 Sequence: MVVKFADTQKDKEQKRMAQQLQQQMQQISAASVWGNLAGLNTLGPQYLALYLQLLQQTAS Prediction: ---+--++++++++++--++-++------------------------------------- Confidence: 637612445548557712543332423536536463566644666644884754745462 Sequence: SGNLNTLSSLHPMGGLNAMQLQNLAALAAAASAAQNTPSGTNALTTSSSPLSVLTSSGSS Prediction: ----------------+--+---------------------------------------- Confidence: 576654532223311444436436568775642434434445754643477577464445 Sequence: PSSSSSNSVNPIASLGALQTLAGATAGLNVGSLAGMAALNGGLGSSGLSNGTGSTMEALT Prediction: ------------------------------------------------------------ Confidence: 432232346536764588467777678547646677687576665366476253344675 Sequence: QAYSGIQQYAAAALPTLYNQNLLTQQSIGAAGSQKEGPEGANLFIYHLPQEFGDQDLLQM Prediction: ---------------------------------------------++------------- Confidence: 664464563697565232633745822654334224676772747347647966889899 Sequence: FMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSK Prediction: --------+-+----+++++++++-+-+---------------------+--+-++++++ Confidence: 978866554771421556646847567655659778898446276345252373755757 Sequence: NDSKPY Prediction: -+++++ Confidence: 258847 *** 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 |
>Q92879|CELF1 Sequence: MNGTLDHPDQPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKG Prediction: ----------------+----+-++-----------------------++++++++++++ Confidence: 011111212121121152414745821100101000200110010312656578778996 Sequence: CCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCT Prediction: +++-++-++----------+--+--+---++---++--+++++----------------- Confidence: 986175156321010322261252453348744487436766511310100001103200 Sequence: ENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSP Prediction: -----------------+--++++++++++++++--++------++--++-+++++++++ Confidence: 101010001001201245149988999898875833883343215521762656566787 Sequence: MVVKFADTQKDKEQKRMAQQLQQQMQQISAASVWGNLAGLNTLGPQYLALYLQLLQQTAS Prediction: ---+-+-+++++--++--++--+------------------------------------- Confidence: 422825466667218714562254123011000011000000000000000000000000 Sequence: SGNLNTLSSLHPMGGLNAMQLQNLAALAAAASAAQNTPSGTNALTTSSSPLSVLTSSGSS Prediction: ------------------------------------------------------------ Confidence: 000000000010000000000000000000000000000000000000000000000000 Sequence: PSSSSSNSVNPIASLGALQTLAGATAGLNVGSLAGMAALNGGLGSSGLSNGTGSTMEALT Prediction: ------------------------------------------------------------ Confidence: 000000000000000000000000000000010000000000000000000000000000 Sequence: QAYSGIQQYAAAALPTLYNQNLLTQQSIGAAGSQKEGPEGANLFIYHLPQEFGDQDLLQM Prediction: -----------------------------------------+-+---------------- Confidence: 000100100000000000000000000000002110022135161420000000000000 Sequence: FMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRSK Prediction: ---------------------+--------+----+---+-++++++++++++-+-++++ Confidence: 101113001020001202212622341432522315232846877888899774828959 Sequence: NDSKPY Prediction: ++++++- Confidence: 8799880 *** 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: DVLMTQTPLSLPVSLGDQASISCRSSQNIVHSNGYTYLEWYLQKPGQSPKLLIYTVSNRF Prediction: --------------+--+-+++-+-++++------+++++++++++++++++-+--+++- Confidence: 201013112100003124074937389553321004858997999699575804304990 Sequence: SGVPDRFSGSGSGTDFTLKISRVEAEDLGVYYCFRGSHVPTFGGGTKLEIKRADAAPTVS Prediction: +-++++++-++++++-------------------+------++--+-------------- Confidence: 525449572998997030000000000100000251200124521421202231100000 Sequence: IFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMS Prediction: ---+---------++------+++++--+-+-++++--------------+----+++++ Confidence: 000300000001176000001655641171404445211000000000003000045735 Sequence: STLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNE21269969733647514677979 Prediction: +----------+-++-+-+--++++--+-++--+++++++++++++++++++++++++++ Confidence: 510100100214357350403545401305702365444444444444444444444444 Sequence: 674191628998828564568895984457261295145896771214841888967476 Prediction: ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Confidence: 444444444444444444444444444444444444444444444444444444444444 Sequence: 363979234822174649612279527251963856557929685735992611385712 Prediction: ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Confidence: 444444444444444444444444444444444444444444444444444444444444 Sequence: 947551355877946939669666676398867134873887142178752732473933 Prediction: ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Confidence: 444444444444444444444444444444444444444444444444444444444444 Sequence: 5584686382744 Prediction: +++++++++++++ Confidence: 4444444444444 ***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.