CISBP-RNA Database: Catalog of Inferred Sequence Binding Preferences of RNA binding proteins
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Rbp9
(
Drosophila melanogaster
)
RRM
RBP Information
Pfam ID
Interpro ID
Gene ID
CISBP-RNA ID
Sequence source
PF00076 (RRM_1)
IPR000504
FBgn0010263
T43004_0.6
Ensembl (2011-Oct-26)
Link out
Directly determined binding motifs
Name/Motif ID
Species
Sequence Logo
IUPAC
Type/Study/Study ID
RBD
Identity
Rbp9
M124_0.6
Drosophila melanogaster
UUDDGUU
RNAcompete
Ray et al.(2013)
RNCMPT00132
(Direct)
Motifs from related RBPs
Name/Motif ID
Species
Sequence Logo
IUPAC
Type/Study/Study ID
RBD
Identity
ELAVL4
M315_0.6
Homo sapiens
Sequence logo not available
UUUUUUUUUWAAA
RIP-chip
Cook et al.(2011)
619_19846595.2
0.750
ELAVL4
M314_0.6
Homo sapiens
Sequence logo not available
KUUUGUUUKKUUU
RIP-chip
Cook et al.(2011)
619_19846595.1
0.750
ELAVL4
M313_0.6
Homo sapiens
Sequence logo not available
CYCUCCYUCYCYC
RIP-chip
Cook et al.(2011)
619_19846595
0.750
ELAVL2
M330_0.6
Homo sapiens
RWUUUAUUUWR
SELEX
Cook et al.(2011)
784_7972035
0.741
ELAVL2
M329_0.6
Homo sapiens
RWUUUAUUUWR
SELEX
Cook et al.(2011)
783_7972035
0.741
ELAVL2
M328_0.6
Homo sapiens
MUYCUUUWUWUUY
SELEX
Cook et al.(2011)
782_8497264
0.741
ELAVL1
M127_0.6
Homo sapiens
UUKRUUU
RNAcompete
Ray et al.(2013)
RNCMPT00136
0.701
ELAVL1
M327_0.6
Homo sapiens
Sequence logo not available
KKNWWDNNNUKNNUUNUNNH
RIP-chip
Cook et al.(2011)
714_14981256
0.701
ELAVL1
M112_0.6
Homo sapiens
UUURKUU
RNAcompete
Ray et al.(2013)
RNCMPT00117
0.701
ELAVL1
M232_0.6
Homo sapiens
UUUUUUK
RNAcompete
Ray et al.(2013)
RNCMPT00274
0.701
ELAVL1
M108_0.6
Homo sapiens
UUWGUUU
RNAcompete
Ray et al.(2013)
RNCMPT00112
0.701
ELAVL1
M031_0.6
Homo sapiens
UUDUUUU
RNAcompete
Ray et al.(2013)
RNCMPT00032
0.701
For this family, RBPs with RBD identity >
0.7
will likely have a similar motif
Experimental Constructs
Motif ID
Domain
From
To
Sequence
M124_0.6
RRM
51
121
LIVNYLPQTMSQDEIRSLFVSFGEVESCKLIRDKVTGQSLGYGFVNYVKQEDAEKAINALNGLRLQNKTIK
M124_0.6
RRM
137
210
LYVSGLPKNMTQSDLESLFSPYGKIITSRILCDNITDEHAAGLSKGVGFIRFDQRFEADRAIKELNGTTPKNST
M124_0.6
RRM
302
372
IFVYNLAPDTEENVLWQLFGPFGAVQSVKVIRDLQSNKCKGFGFVTMTNYEEAVLAIQSLNGYTLGNRVLQ
RNA Binding Domains
Protein ID
Domain
From
To
Sequence
FBpp0077322
RRM
112
182
LIVNYLPQTMSQDEIRSLFVSFGEVESCKLIRDKVTGQSLGYGFVNYVKQEDAEKAINALNGLRLQNKTIK
FBpp0077322
RRM
198
271
LYVSGLPKNMTQSDLESLFSPYGKIITSRILCDNITDEHAAGLSKGVGFIRFDQRFEADRAIKELNGTTPKNST
FBpp0077322
RRM
363
433
IFVYNLAPDTEENVLWQLFGPFGAVQSVKVIRDLQSNKCKGFGFVTMTNYEEAVLAIQSLNGYTLGNRVLQ
FBpp0077323
RRM
112
182
LIVNYLPQTMSQDEIRSLFVSFGEVESCKLIRDKVTGQSLGYGFVNYVKQEDAEKAINALNGLRLQNKTIK
FBpp0077323
RRM
198
266
LYVSGLPKNMTQSDLESLFSPYGKIITSRILCDNITGLSKGVGFIRFDQRFEADRAIKELNGTTPKNST
FBpp0077323
RRM
358
428
IFVYNLAPDTEENVLWQLFGPFGAVQSVKVIRDLQSNKCKGFGFVTMTNYEEAVLAIQSLNGYTLGNRVLQ
FBpp0077324
RRM
112
182
LIVNYLPQTMSQDEIRSLFVSFGEVESCKLIRDKVTGQSLGYGFVNYVKQEDAEKAINALNGLRLQNKTIK
FBpp0077324
RRM
198
271
LYVSGLPKNMTQSDLESLFSPYGKIITSRILCDNITDEHAAGLSKGVGFIRFDQRFEADRAIKELNGTTPKNST
FBpp0077324
RRM
363
433
IFVYNLAPDTEENVLWQLFGPFGAVQSVKVIRDLQSNKCKGFGFVTMTNYEEAVLAIQSLNGYTLGNRVLQ
FBpp0077325
RRM
112
182
LIVNYLPQTMSQDEIRSLFVSFGEVESCKLIRDKVTGQSLGYGFVNYVKQEDAEKAINALNGLRLQNKTIK
FBpp0077325
RRM
198
266
LYVSGLPKNMTQSDLESLFSPYGKIITSRILCDNITGLSKGVGFIRFDQRFEADRAIKELNGTTPKNST
FBpp0077325
RRM
358
428
IFVYNLAPDTEENVLWQLFGPFGAVQSVKVIRDLQSNKCKGFGFVTMTNYEEAVLAIQSLNGYTLGNRVLQ
FBpp0099898
RRM
112
182
LIVNYLPQTMSQDEIRSLFVSFGEVESCKLIRDKVTGQSLGYGFVNYVKQEDAEKAINALNGLRLQNKTIK
FBpp0099898
RRM
198
266
LYVSGLPKNMTQSDLESLFSPYGKIITSRILCDNITGLSKGVGFIRFDQRFEADRAIKELNGTTPKNST
FBpp0099898
RRM
358
428
IFVYNLAPDTEENVLWQLFGPFGAVQSVKVIRDLQSNKCKGFGFVTMTNYEEAVLAIQSLNGYTLGNRVLQ
FBpp0288676
RRM
112
182
LIVNYLPQTMSQDEIRSLFVSFGEVESCKLIRDKVTGQSLGYGFVNYVKQEDAEKAINALNGLRLQNKTIK
FBpp0288676
RRM
198
266
LYVSGLPKNMTQSDLESLFSPYGKIITSRILCDNITGLSKGVGFIRFDQRFEADRAIKELNGTTPKNST
FBpp0288676
RRM
358
428
IFVYNLAPDTEENVLWQLFGPFGAVQSVKVIRDLQSNKCKGFGFVTMTNYEEAVLAIQSLNGYTLGNRVLQ
FBpp0288677
RRM
112
182
LIVNYLPQTMSQDEIRSLFVSFGEVESCKLIRDKVTGQSLGYGFVNYVKQEDAEKAINALNGLRLQNKTIK
FBpp0288677
RRM
198
271
LYVSGLPKNMTQSDLESLFSPYGKIITSRILCDNITDEHAAGLSKGVGFIRFDQRFEADRAIKELNGTTPKNST
FBpp0288677
RRM
363
433
IFVYNLAPDTEENVLWQLFGPFGAVQSVKVIRDLQSNKCKGFGFVTMTNYEEAVLAIQSLNGYTLGNRVLQ
Links
Other
RRM
family RBPs
Other
Drosophila melanogaster
RBPs
158 Related RBPs
Due to potential differences in protein isoforms or tested constructs, some RBPs without inferred motifs might appear in this list.
Name
Species
Gene ID
Motif Evidence
RBD
Identity
Action
185541
Helobdella robusta
185541
I
0.720
187316
Helobdella robusta
187316
N
0.725
AAA96942
Xenopus laevis
AAA96942
I
0.701
AAA96943
Xenopus laevis
AAA96943
I
0.737
AAA96944
Xenopus laevis
AAA96944
I
0.709
AAA96945
Xenopus laevis
AAA96945
I
0.745
AAEL008164
Aedes aegypti
AAEL008164
N
0.700
AAH94189
Xenopus laevis
AAH94189
I
0.741
AAH99348
Xenopus laevis
AAH99348
I
0.745
AAI69769
Xenopus laevis
AAI69769
I
0.709
AAI70539
Xenopus laevis
AAI70539
I
0.741
AGAP000965
Anopheles gambiae
AGAP000965
I
0.848
AGAP001883
Anopheles gambiae
AGAP001883
N
0.705
amel4_ncbi_hmm5219
Apis mellifera
amel4_ncbi_hmm5219
I
0.896
Ame_R004766
Ailuropoda melanoleuca
Ame_R004766
I
0.741
Ame_R009570
Ailuropoda melanoleuca
Ame_R009570
I
0.717
Ame_R009760
Ailuropoda melanoleuca
Ame_R009760
I
0.750
Ame_R010167
Ailuropoda melanoleuca
Ame_R010167
I
0.701
CAA59430
Xenopus laevis
CAA59430
I
0.732
CBF67567
Xenopus laevis
CBF67567
I
0.745
CBU92440
Xenopus laevis
CBU92440
I
0.745
CPIJ000395
Culex quinquefasciatus
CPIJ000395
I
0.839
CPIJ016143
Culex quinquefasciatus
CPIJ016143
I
0.849
CpipJ_CPIJ000395
Culex pipiens
CpipJ_CPIJ000395
I
0.839
CpipJ_CPIJ016143
Culex pipiens
CpipJ_CPIJ016143
I
0.849
ELAVL4
Anolis carolinensis
ENSACAG00000004527
I
0.750
ELAVL3
Anolis carolinensis
ENSACAG00000016958
I
0.709
ELAVL2
Anolis carolinensis
ENSACAG00000017521
I
0.741
Q3ZCE2_BOVIN
Bos taurus
ENSBTAG00000000613
I
0.706
ELAVL3
Bos taurus
ENSBTAG00000014412
I
0.717
A2VDK5_BOVIN
Bos taurus
ENSBTAG00000021046
I
0.750
ELAVL2
Canis familiaris
ENSCAFG00000001688
I
0.741
ELAVL4
Canis familiaris
ENSCAFG00000003927
I
0.750
ELAVL3
Canis familiaris
ENSCAFG00000017350
I
0.717
ENSCAFG00000018353
Canis familiaris
ENSCAFG00000018353
I
0.701
ELAVL4
Choloepus hoffmanni
ENSCHOG00000002464
I
0.750
ELAVL2
Callithrix jacchus
ENSCJAG00000008064
I
0.741
ELAVL4
Callithrix jacchus
ENSCJAG00000013725
I
0.750
ENSCPOG00000002044
Cavia porcellus
ENSCPOG00000002044
I
0.750
ELAVL2
Cavia porcellus
ENSCPOG00000010472
I
0.741
ENSCSAVG00000003440
Ciona savignyi
ENSCSAVG00000003440
I
0.726
elavl3
Danio rerio
ENSDARG00000014420
I
0.726
elavl2
Danio rerio
ENSDARG00000040732
I
0.745
elavl4
Danio rerio
ENSDARG00000045639
I
0.743
ELAVL4
Dasypus novemcinctus
ENSDNOG00000002932
I
0.750
Elavl3
Dipodomys ordii
ENSDORG00000002538
I
0.717
Elavl2
Dipodomys ordii
ENSDORG00000010437
I
0.741
Elavl4
Dipodomys ordii
ENSDORG00000012729
I
0.750
ELAVL2
Equus caballus
ENSECAG00000020142
I
0.741
LOC100051268
Equus caballus
ENSECAG00000022284
I
0.750
ELAVL4
Erinaceus europaeus
ENSEEUG00000008766
I
0.750
ELAVL2
Echinops telfairi
ENSETEG00000006134
I
0.741
ELAVL1
Felis catus
ENSFCAG00000014947
I
0.701
ELAVL1
Homo sapiens
ENSG00000066044
D
0.701
ELAVL2
Homo sapiens
ENSG00000107105
D
0.741
ELAVL4
Homo sapiens
ENSG00000162374
D
0.750
ELAVL3
Homo sapiens
ENSG00000196361
I
0.717
ELAVL4
Gasterosteus aculeatus
ENSGACG00000011152
I
0.745
ELAVL3
Gasterosteus aculeatus
ENSGACG00000013839
I
0.726
ELAVL2
Gasterosteus aculeatus
ENSGACG00000019484
I
0.741
Q9PW24_CHICK
Gallus gallus
ENSGALG00000000726
I
0.701
Q9PW22_CHICK
Gallus gallus
ENSGALG00000010533
I
0.750
ELAVL2
Gallus gallus
ENSGALG00000015799
I
0.741
ELAVL4
Gorilla gorilla
ENSGGOG00000000634
I
0.750
ELAVL2
Gorilla gorilla
ENSGGOG00000003678
I
0.741
ELAVL1
Gorilla gorilla
ENSGGOG00000006100
I
0.701
ELAVL3
Gorilla gorilla
ENSGGOG00000008635
I
0.717
ELAVL4
Loxodonta africana
ENSLAFG00000001087
I
0.750
ELAVL1
Loxodonta africana
ENSLAFG00000004219
I
0.701
ELAVL3
Loxodonta africana
ENSLAFG00000005013
I
0.717
ELAVL2
Loxodonta africana
ENSLAFG00000009938
I
0.741
ELAVL4
Macropus eugenii
ENSMEUG00000007145
I
0.750
ELAVL3
Macropus eugenii
ENSMEUG00000016706
I
0.709
ELAVL1
Meleagris gallopavo
ENSMGAG00000001015
I
0.701
ELAVL4
Meleagris gallopavo
ENSMGAG00000010928
I
0.746
ELAVL4
Microcebus murinus
ENSMICG00000003286
I
0.750
ELAVL1
Microcebus murinus
ENSMICG00000009699
I
0.701
ELAVL4
Myotis lucifugus
ENSMLUG00000006226
I
0.750
ELAVL1
Myotis lucifugus
ENSMLUG00000008101
I
0.706
ELAVL2
Myotis lucifugus
ENSMLUG00000014210
I
0.736
ELAVL1
Macaca mulatta
ENSMMUG00000006544
I
0.701
LOC708195
Macaca mulatta
ENSMMUG00000010038
I
0.741
ELAVL4
Macaca mulatta
ENSMMUG00000021933
I
0.750
ELAVL4
Monodelphis domestica
ENSMODG00000001300
I
0.750
LOC100015949
Monodelphis domestica
ENSMODG00000003936
I
0.741
ELAVL1
Monodelphis domestica
ENSMODG00000005041
I
0.701
Elavl3
Mus musculus
ENSMUSG00000003410
I
0.717
Elavl2
Mus musculus
ENSMUSG00000008489
I
0.741
Elavl4
Mus musculus
ENSMUSG00000028546
I
0.750
ELAVL2
Oryctolagus cuniculus
ENSOCUG00000005891
I
0.741
D7R608_RABIT
Oryctolagus cuniculus
ENSOCUG00000015871
I
0.701
ELAVL4
Oryctolagus cuniculus
ENSOCUG00000016262
I
0.750
ELAVL3
Otolemur garnettii
ENSOGAG00000007072
I
0.717
ELAVL1
Otolemur garnettii
ENSOGAG00000012877
I
0.701
ELAVL4
Otolemur garnettii
ENSOGAG00000016990
I
0.750
ELAVL1
Ochotona princeps
ENSOPRG00000009691
I
0.701
ELAVL2
Ochotona princeps
ENSOPRG00000012874
I
0.741
ELAVL4
Ochotona princeps
ENSOPRG00000015300
I
0.750
ELAVL2
Oryzias latipes
ENSORLG00000004217
I
0.745
ELAVL3
Oryzias latipes
ENSORLG00000005379
I
0.720
ELAVL4
Oryzias latipes
ENSORLG00000017130
I
0.745
ELAVL4
Procavia capensis
ENSPCAG00000008215
I
0.750
ENSPPYG00000001367
Pongo pygmaeus
ENSPPYG00000001367
I
0.750
ENSPPYG00000009496
Pongo pygmaeus
ENSPPYG00000009496
I
0.701
ENSPPYG00000019166
Pongo pygmaeus
ENSPPYG00000019166
I
0.741
ELAVL4
Pan troglodytes
ENSPTRG00000000723
I
0.750
ELAVL1
Pan troglodytes
ENSPTRG00000010413
I
0.701
ELAVL2
Pan troglodytes
ENSPTRG00000020830
I
0.741
ELAVL2
Pteropus vampyrus
ENSPVAG00000002688
I
0.741
ELAVL3
Pteropus vampyrus
ENSPVAG00000014893
I
0.717
Elavl2
Rattus norvegicus
ENSRNOG00000006853
I
0.741
Elavl3
Rattus norvegicus
ENSRNOG00000013752
I
0.717
Elavl4
Rattus norvegicus
ENSRNOG00000023601
I
0.750
ELAVL2
Sorex araneus
ENSSARG00000005702
I
0.741
ELAVL4
Sorex araneus
ENSSARG00000010733
I
0.750
ELAVL2
Sus scrofa
ENSSSCG00000005130
I
0.741
ELAVL3
Sus scrofa
ENSSSCG00000013617
I
0.717
ELAVL1
Taeniopygia guttata
ENSTGUG00000000118
I
0.701
ELAVL2
Taeniopygia guttata
ENSTGUG00000001349
I
0.726
ELAVL4
Taeniopygia guttata
ENSTGUG00000008597
I
0.750
ELAVL2
Tetraodon nigroviridis
ENSTNIG00000011312
I
0.741
ELAVL4
Tetraodon nigroviridis
ENSTNIG00000015485
I
0.745
ELAVL3
Tetraodon nigroviridis
ENSTNIG00000018572
I
0.716
ELAVL4
Takifugu rubripes
ENSTRUG00000000523
I
0.745
ELAVL2
Takifugu rubripes
ENSTRUG00000007867
I
0.749
ELAVL3
Takifugu rubripes
ENSTRUG00000010719
I
0.726
ELAVL4
Tarsius syrichta
ENSTSYG00000004130
I
0.750
ELAVL1
Tarsius syrichta
ENSTSYG00000008248
I
0.701
ELAVL2
Tarsius syrichta
ENSTSYG00000013066
I
0.708
ELAVL3
Tursiops truncatus
ENSTTRG00000001789
I
0.717
ELAVL2
Tursiops truncatus
ENSTTRG00000011656
I
0.741
ELAVL2
Vicugna pacos
ENSVPAG00000005109
I
0.741
ELAVL4
Vicugna pacos
ENSVPAG00000011606
I
0.750
elavl4
Xenopus tropicalis
ENSXETG00000008680
I
0.745
elavl3
Xenopus tropicalis
ENSXETG00000016741
I
0.706
estExt_Genewise1Plus.C_1660036
Capitella teleta
estExt_Genewise1Plus.C_1660036
I
0.783
GF14992
Drosophila ananassae
FBgn0092017
I
0.991
GG12756
Drosophila erecta
FBgn0105043
N
0.712
GG24901
Drosophila erecta
FBgn0117030
I
0.995
GH13638
Drosophila grimshawi
FBgn0121114
I
0.991
GI11879
Drosophila mojavensis
FBgn0134637
I
0.995
GL26299
Drosophila persimilis
FBgn0163881
I
0.995
GM18380
Drosophila sechellia
FBgn0173287
I
0.995
GM19036
Drosophila sechellia
FBgn0173939
N
0.712
GD16475
Drosophila simulans
FBgn0188089
N
0.712
GJ13991
Drosophila virilis
FBgn0201209
I
0.995
GK14865
Drosophila willistoni
FBgn0216870
I
0.991
GE18193
Drosophila yakuba
FBgn0235624
I
0.995
GA28809-RA
Drosophila pseudoobscura
FBgn0250168
I
0.991
fgenesh1_pg.C_scaffold_8000205
Daphnia pulex
fgenesh1_pg.C_scaffold_8000205
I
0.802
fgenesh2_pg.C_sca_14000012
Lottia gigantea
fgenesh2_pg.C_sca_14000012
I
0.806
fgenesh2_pg.scaffold_219000066
Branchiostoma floridae
fgenesh2_pg.scaffold_219000066
I
0.792
ISCW010302
Ixodes scapularis
ISCW010302
N
0.711
LOAG_11702
Loa loa
LOAG_11702
N
0.701
nasonia_NCBI_hmm330804
Nasonia vitripennis
nasonia_NCBI_hmm330804
I
0.905
Q91584
Xenopus laevis
Q91584
I
0.709
Q91903
Xenopus laevis
Q91903
I
0.737