| Detail-Interactions: | |
| RAID ID: | RPI00000002 |
|---|---|
| RNA/Protein Symbol 1: | RN7SL1(7SL RNA) |
| RNA/Protein Category 1: | lncRNA |
| RNA/Protein Symbol 2: | APOBEC3F |
| RNA/Protein Category 2: | Protein |
| Validated Method: | Immunoblotting, Immunoprecipitation, qRT-PCR |
| Tissue: | |
| PMID: | 18067920 |
| Detail description: | Interaction with 7SL RNA but not with HIV-1 genomic RNA or P bodies is required for APOBEC3F virion packaging. |
| The Predicated Binding Sites between RN7SL1 and APOBEC3F | |||||
| By miRanda | Structure | Match Score | Energy Score | RN7SL1 Location | APOBEC3F Location |
| The Predicated Binding Sites between RN7SL1 and APOBEC3F | ||||
| By RIsearch | Structure | RN7SL1 Location | APOBEC3F Location | Score |
| The Predicated Binding Sites of APOBEC3F | |
| RBPBD | |
| RsiteDB | |
| BindN |
>sp|Q8IUX4|ABC3F_HUMAN DNA dC->dU-editing enzyme APOBEC-3F OS=Homo sapiens GN=APOBEC3F PE=1 SV=3 Sequence: MKPHFRNTVERMYRDTFSYNFYNRPILSRRNTVWLCYEVKTKGPSRPRLDAKIFRGQVYS Prediction: -+---+----+--+----++---+---+++---------+++++++++---+--+-+-++ Confidence: 654366227374253252556345234566225497468679889958442564836556 Sequence: QPEHHAEMCFLSWFCGNQLPAYKCFQITWFVSWTPCPDCVAKLAEFLAEHPNVTLTISAA Prediction: +----------------------------------------------------+---+-- Confidence: 545459889998799854636328859569955667757893996899887375825455 Sequence: RLYYYWERDYRRALCRLSQAGARVKIMDDEEFAYCWENFVYSEGQPFMPWYKFDDNYAFL Prediction: +------+--++---+-++---+-+----------------------------------- Confidence: 772234563277425675632487587999989599978934473557666578764869 Sequence: HRTLKEILRNPMEAMYPHIFYFHFKNLRKAYGRNESWLCFTMEVVKHHSPVSWKRGVFRN Prediction: ----++--+------------------++++-+---------------+-----+---+- Confidence: 323854786676577486993978326885728342398979787274524232836472 Sequence: QVDPETHCHAERCFLSWFCDDILSPNTNYEVTWYTSWSPCPECAGEVAEFLARHSNVNLT Prediction: -----------+--------------+-+-----------------------+--+---- Confidence: 264453363775879679999972325253535233233655687899586964246463 Sequence: IFTARLYYFWDTDYQEGLRSLSQEGASVEIMGYKDFKYCWENFVYNDDEPFKPWKGLKYN Prediction: ----+-------------++-++---+---------+-----------------+--+-- Confidence: 762769549685732344753442455835563366539786994787545263645436 Sequence: FLFLDSKLQEILE Prediction: ------------- Confidence: 8879642956999 *** 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|Q8IUX4|ABC3F_HUMAN DNA dC->dU-editing enzyme APOBEC-3F OS=Homo sapiens GN=APOBEC3F PE=1 SV=3 Sequence: MKPHFRNTVERMYRDTFSYNFYNRPILSRRNTVWLCYEVKTKGPSRPRLDAKIFRGQVYS Prediction: ++++-++---+------------------+-----------++-++-+------+-+--- Confidence: 463637514153327444416226224124145176567324426424436165425313 Sequence: QPEHHAEMCFLSWFCGNQLPAYKCFQITWFVSWTPCPDCVAKLAEFLAEHPNVTLTISAA Prediction: ---------------------------------------------------+-+------ Confidence: 343437477797487863346649419332731242435867977776453665746165 Sequence: RLYYYWERDYRRALCRLSQAGARVKIMDDEEFAYCWENFVYSEGQPFMPWYKFDDNYAFL Prediction: +---------+-------+-+-+-+----------------------------------- Confidence: 653343635131364353513657442494535465555333372222423656642547 Sequence: HRTLKEILRNPMEAMYPHIFYFHFKNLRKAYGRNESWLCFTMEVVKHHSPVSWKRGVFRN Prediction: ----------------------+--+--+++-++--+--------+--+---------+- Confidence: 342821681455465694672757247154424431665556532513423234152442 Sequence: QVDPETHCHAERCFLSWFCDDILSPNTNYEVTWYTSWSPCPECAGEVAEFLARHSNVNLT Prediction: ------+--------------------------+--+---------------+--+---- Confidence: 144541532624779869999757643552724353324242576896744332257184 Sequence: IFTARLYYFWDTDYQEGLRSLSQEGASVEIMGYKDFKYCWENFVYNDDEPFKPWKGLKYN Prediction: ----+-----------------+------------------------------------- Confidence: 727748667775622215145543472825247253445545736457222351287565 Sequence: FLFLDSKLQEILE Prediction: ------------- Confidence: 6888853934795 *** 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 |
>Q8IUX4|APOBEC3F Sequence: MKPHFRNTVERMYRDTFSYNFYNRPILSRRNTVWLCYEVKTKGPSRPRLDAKIFRGQVYS Prediction: -+++-++------------+--+--+++++++++++++-+++++-++-+--+----+--- Confidence: 378928843431232022453463378789968875663886784672533622335124 Sequence: QPEHHAEMCFLSWFCGNQLPAYKCFQITWFVSWTPCPDCVAKLAEFLAEHPNVTLTISAA Prediction: +-++-----------------------+++++++++++-----------+++-+++++++ Confidence: 545533404101210042123312331558689998783013014134378839797758 Sequence: RLYYYWERDYRRALCRLSQAGARVKIMDDEEFAYCWENFVYSEGQPFMPWYKFDDNYAFL Prediction: ++++-++--+++--++-+--+---+--+-------------+------------------ Confidence: 955736544765435635316233623734311101124115424412322323241113 Sequence: HRTLKEILRNPMEAMYPHIFYFHFKNLRKAYGRNESWLCFTMEVVKHHSPVSWKRGVFRN Prediction: --+-------------+---+++-++--++++++++++----+-+++-++--+++----- Confidence: 226232210130221364146673674468799988863410535663563256632011 Sequence: QVDPETHCHAERCFLSWFCDDILSPNTNYEVTWYTSWSPCPECAGEVAEFLARHSNVNLT Prediction: -----++-------------------------++-+++++++-----------+++-+++ Confidence: 301347844441410110100101222111035847889867411300212437882969 Sequence: IFTARLYYFWDTDYQEGLRSLSQEGASVEIMGYKDFKYCWENFVYNDDEPFKPWKGLKYN Prediction: ++-++--+-----++---++-++-+---+--+-------------------++------+ Confidence: 764794472333365433564551623352364421110111411433444553432116 Sequence: FLFLDSKLQEILE Prediction: ------+-----+- Confidence: 22331171122150 *** 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: MKPHFRNTVERMYRDTFSYNFYNRPILSRRNTVWLCYEVKTKGPSRPRLDAKIFRGQVYS Prediction: --++-++---+------------------++++------++-+++++-------++++++ Confidence: 135615430140000010000300320219644322210531766543220210447465 Sequence: QPEHHAEMCFLSWFCGNQLPAYKCFQITWFVSWTPCPDCVAKLAEFLAEHPNVTLTISAA Prediction: ++----------------+---+--+------+-+-------------+-+--+------ Confidence: 953120000000000000421040170010203132020000001011414305000000 Sequence: RLYYYWERDYRRALCRLSQAGARVKIMDDEEFAYCWENFVYSEGQPFMPWYKFDDNYAFL Prediction: +----------+++++-++-+++-+----------------------------------- Confidence: 311100012004444637624440400000000000000002000000000000000000 Sequence: HRTLKEILRNPMEAMYPHIFYFHFKNLRKAYGRNESWLCFTMEVVKHHSPVSWKRGVFRN Prediction: --+---------------------+--+--+-+++++--+---+-++--++++++++-+- Confidence: 013000000200020000010010332330429546532300230543266353555032 Sequence: QVDPETHCHAERCFLSWFCDDILSPNTNYEVTWYTSWSPCPECAGEVAEFLARHSNVNLT Prediction: --++-+------------------+-+--+------+---------------+-+--+-- Confidence: 224434112000000000000022335004000000313202001000101141430500 Sequence: IFTARLYYFWDTDYQEGLRSLSQEGASVEIMGYKDFKYCWENFVYNDDEPFKPWKGLKYN Prediction: -----------------+---+------+------------------------+------ Confidence: 000031100001100223332630322040110000000000000000000003000000 Sequence: FLFLDSKLQEILE Prediction: ------------- Confidence: 0000002000002 ***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.