RBPmap - Motifs Analysis and Prediction of RNA Binding Proteins

Version 1.0

RBPmap Results for job: Results example

Job status: Finished

General calculation parameters

Genome: Human (hg19)

Selected motifs: HNRNPA1(Hs/Mm):duagggw, HNRNPA1(Hs/Mm):guaguagu, HNRNPA1(Hs/Mm):rgnyag, HNRNPA2B1(Hs/Mm):duagggw, HNRNPA2B1(Hs/Mm):gguaguag, HNRNPA2B1(Hs/Mm):aggwuhgr, HNRNPC(Hs/Mm):huuuuuk, HNRNPF(Hs/Mm):gugkau, HNRNPF(Hs/Mm):gukgykg, HNRNPF(Hs/Mm):gggug, HNRNPH1(Hs/Mm):gargag, HNRNPK(Hs/Mm):ccawmcc, HNRNPL(Hs/Mm):amayama, HNRNPL(Hs/Mm):acacrav, HNRNPM(Hs/Mm):gguugguu, HNRNPU(Hs/Mm):uguauug

Stringency level: Medium

Conservation filter: On

Results for sequence: chr7:117176541-117176741:+

Genomic position: chr7:117176541-117176741 Strand: +

View binding sites predictions summary

Protein: HNRNPC(Hs/Mm)
Position	Genomic coordinate	Motif	Occurrence	Z-score	P-value
13	chr7:117176553	huuuuuk	uagauaauuugacuuguuuuuacuauuagauugauugauugauu	1.713	4.34e-02
14	chr7:117176554	huuuuuk	uagauaauuugacuuguuuuuacuauuagauugauugauugauug	1.705	4.41e-02
15	chr7:117176555	huuuuuk	uagauaauuugacuuguuuuuacuauuagauugauugauugauuga	1.705	4.41e-02
16	chr7:117176556	huuuuuk	uagauaauuugacuuguuuuuacuauuagauugauugauugauugau	1.822	3.42e-02
Protein: HNRNPM(Hs/Mm)
Position	Genomic coordinate	Motif	Occurrence	Z-score	P-value
29	chr7:117176569	gguugguu	auaauuugacuuguuuuuacuauuagauugauugauugauugauugauugauuuacag	3.500	2.33e-04
33	chr7:117176573	gguugguu	uuugacuuguuuuuacuauuagauugauugauugauugauugauugauuuacagagau	3.500	2.33e-04
37	chr7:117176577	gguugguu	acuuguuuuuacuauuagauugauugauugauugauugauugauuuacagagaucaga	3.500	2.33e-04
41	chr7:117176581	gguugguu	guuuuuacuauuagauugauugauugauugauugauugauuuacagagaucagagagc	3.437	2.94e-04
45	chr7:117176585	gguugguu	uuacuauuagauugauugauugauugauugauugauuuacagagaucagagagcuggg	3.437	2.94e-04
49	chr7:117176589	gguugguu	uauuagauugauugauugauugauugauugauuuacagagaucagagagcugggaaga	3.437	2.94e-04

Download predictions summary as text file

Genome Browser visualization:

Open the results in UCSC Genome Browser

Download custom tracks in BedGraph format

Results for sequence: chr6:161990246-161990559:-

Genomic position: chr6:161990246-161990559 Strand: -

View binding sites predictions summary

Protein: HNRNPA1(Hs/Mm)
Position	Genomic coordinate	Motif	Occurrence	Z-score	P-value
229	chr6:161990331	rgnyag	cugucaugaaagauagacgcuaaugagacaguuugggcuccccagggaggccgagu	2.648	4.05e-03
Protein: HNRNPA2B1(Hs/Mm)
Position	Genomic coordinate	Motif	Occurrence	Z-score	P-value
213	chr6:161990347	aggwuhgr	caaaggcugcaucagacugucaugaaagauagacgcuaaugagacaguuugggcuccc	2.509	6.05e-03
Protein: HNRNPC(Hs/Mm)
Position	Genomic coordinate	Motif	Occurrence	Z-score	P-value
81	chr6:161990479	huuuuuk	auauaaccacacagagugaaagugacguuuuugugauuaauucuucuuuccaacagc	1.899	2.88e-02
82	chr6:161990478	huuuuuk	uauaaccacacagagugaaagugacguuuuugugauuaauucuucuuuccaacagcu	2.070	1.92e-02
83	chr6:161990477	huuuuuk	auaaccacacagagugaaagugacguuuuugugauuaauucuucuuuccaacagcug	1.891	2.93e-02
95	chr6:161990465	huuuuuk	agugaaagugacguuuuugugauuaauucuucuuuccaacagcuggcugucccaacu	1.899	2.88e-02
98	chr6:161990462	huuuuuk	gaaagugacguuuuugugauuaauucuucuuuccaacagcuggcugucccaacuccu	1.899	2.88e-02
Protein: HNRNPF(Hs/Mm)
Position	Genomic coordinate	Motif	Occurrence	Z-score	P-value
161	chr6:161990399	gggug	aagagcuccaucacuucaggauucugggagaagagcaggugagugagcaucucaa	1.676	4.69e-02
172	chr6:161990388	gggug	cacuucaggauucugggagaagagcaggugagugagcaucucaaaggcugcauca	2.139	1.62e-02
176	chr6:161990384	gggug	ucaggauucugggagaagagcaggugagugagcaucucaaaggcugcaucagacu	2.009	2.23e-02
Protein: HNRNPH1(Hs/Mm)
Position	Genomic coordinate	Motif	Occurrence	Z-score	P-value
165	chr6:161990395	gargag	gcuccaucacuucaggauucugggagaagagcaggugagugagcaucucaaaggcu	2.626	4.32e-03
Protein: HNRNPK(Hs/Mm)
Position	Genomic coordinate	Motif	Occurrence	Z-score	P-value
121	chr6:161990439	ccawmcc	uucuucuuuccaacagcuggcugucccaacuccuugauuaaagagcuccaucacuuc	2.388	8.47e-03
Protein: HNRNPL(Hs/Mm)
Position	Genomic coordinate	Motif	Occurrence	Z-score	P-value
54	chr6:161990506	amayama	uugauagucauaacucuguguaagaacauauaaccacacagagugaaagugacguuu	3.107	9.45e-04
62	chr6:161990498	amayama	cauaacucuguguaagaacauauaaccacacagagugaaagugacguuuuugugauu	3.480	2.51e-04
64	chr6:161990496	amayama	uaacucuguguaagaacauauaaccacacagagugaaagugacguuuuugugauuaa	3.427	3.05e-04

Download predictions summary as text file

Genome Browser visualization:

Open the results in UCSC Genome Browser

Download custom tracks in BedGraph format

Note: the results will be kept on our server for one month.

If you use RBPmap please cite: Paz I, Kosti I, Ares M Jr, Cline M, Mandel-Gutfreund Y. (2014) RBPmap: a web server for mapping binding sites of RNA-binding proteins. Nucleic Acids Res., 2014. [PDF]

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