CISBP-RNA Database: Catalog of Inferred Sequence Binding Preferences of RNA binding proteins
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PABPC3
(
Gasterosteus aculeatus
)
RRM
RBP Information
Pfam ID
Interpro ID
Gene ID
CISBP-RNA ID
Sequence source
PF00076 (RRM_1)
IPR000504
ENSGACG00000003572
T37412_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
No direct experiments
Motifs from related RBPs
Name/Motif ID
Species
Sequence Logo
IUPAC
Type/Study/Study ID
RBD
Identity
PABPC1
M349_0.6
Homo sapiens
ACDAAYM
SELEX
Cook et al.(2011)
950_7908267
0.946
PABPC1
M275_0.6
Homo sapiens
AAAAA
SELEX
Cook et al.(2011)
24_7908267
0.946
PABPC1
M146_0.6
Homo sapiens
ARAAAAM
RNAcompete
Ray et al.(2013)
RNCMPT00155
0.946
PABPC3
M144_0.6
Homo sapiens
RAAAACM
RNAcompete
Ray et al.(2013)
RNCMPT00153
0.889
PABPC4
M042_0.6
Homo sapiens
AAAAAAR
RNAcompete
Ray et al.(2013)
RNCMPT00043
0.842
For this family, RBPs with RBD identity >
0.7
will likely have a similar motif
RNA Binding Domains
Protein ID
Domain
From
To
Sequence
ENSGACP00000004681
RRM
13
83
LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGRPLR
ENSGACP00000004681
RRM
101
169
IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETHEAAERAIEKMNGMLLNDRKVF
ENSGACP00000004681
RRM
193
262
VYIKNFGEDMDDEKLREMFNKYGPALSIRVMTDESGKSKGFGFVSFERHEDAQKAVDDMNGKELNGRQVY
ENSGACP00000004681
RRM
296
364
LYVKNLDDGLDDERLRKEFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLY
ENSGACP00000004697
RRM
13
83
LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGRPLR
ENSGACP00000004697
RRM
101
169
IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETHEAAERAIEKMNGMLLNDRKVF
ENSGACP00000004697
RRM
193
262
VYIKNFGEDMDDEKLREMFNKYGPALSIRVMTDESGKSKGFGFVSFERHEDAQKAVDDMNGKELNGRQVY
ENSGACP00000004697
RRM
296
364
LYVKNLDDGLDDERLRKEFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLY
Links
Other
RRM
family RBPs
Other
Gasterosteus aculeatus
RBPs
170 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
185682
Helobdella robusta
185682
I
0.742
69344
Helobdella robusta
69344
I
0.721
AAA60936
Xenopus laevis
AAA60936
I
0.918
AAEL010318
Aedes aegypti
AAEL010318
I
0.753
AAH52100
Xenopus laevis
AAH52100
I
0.921
AAH71118
Xenopus laevis
AAH71118
I
0.832
AAH72110
Xenopus laevis
AAH72110
I
0.918
AAH73435
Xenopus laevis
AAH73435
I
0.882
AAH80020
Xenopus laevis
AAH80020
I
0.835
AAI08463
Xenopus laevis
AAI08463
I
0.918
AAK29408
Xenopus laevis
AAK29408
I
0.835
AGAP011092
Anopheles gambiae
AGAP011092
I
0.756
amel4_ncbi_hmm1364
Apis mellifera
amel4_ncbi_hmm1364
I
0.767
amel4_ncbi_hmm1700
Apis mellifera
amel4_ncbi_hmm1700
I
0.767
amel4_ncbi_hmm2036
Apis mellifera
amel4_ncbi_hmm2036
I
0.767
Ame_R001741
Ailuropoda melanoleuca
Ame_R001741
I
0.925
Ame_R005305
Ailuropoda melanoleuca
Ame_R005305
I
0.796
Ame_R019277
Ailuropoda melanoleuca
Ame_R019277
I
0.781
Aqu1.221418
Amphimedon queenslandica
Aqu1.221418
N
0.708
BDE_estExt_fgenesh1_pg.C_380037
Daphnia pulex
BDE_estExt_fgenesh1_pg.C_380037
I
0.732
BGIBMGA003469
Bombyx mori
BGIBMGA003469
I
0.763
CAA40721
Xenopus laevis
CAA40721
I
0.921
CPIJ007980
Culex quinquefasciatus
CPIJ007980
I
0.756
CpipJ_CPIJ007980
Culex pipiens
CpipJ_CPIJ007980
I
0.756
DGIL_AUG5s5076g2t1
Acyrtosiphon pisum
DGIL_AUG5s5076g2t1
I
0.739
DGIL_AUG5s9152g1t1
Acyrtosiphon pisum
DGIL_AUG5s9152g1t1
I
0.710
ENSACAG00000002544
Anolis carolinensis
ENSACAG00000002544
I
0.806
PABPC1L
Anolis carolinensis
ENSACAG00000011841
I
0.853
ENSACAG00000016470
Anolis carolinensis
ENSACAG00000016470
I
0.950
PABPC1L
Bos taurus
ENSBTAG00000016849
I
0.796
A4IFC3_BOVIN
Bos taurus
ENSBTAG00000017125
I
0.846
ENSCAFG00000000567
Canis familiaris
ENSCAFG00000000567
I
0.946
PABPC4
Canis familiaris
ENSCAFG00000003081
I
0.846
PABPC1L
Canis familiaris
ENSCAFG00000009573
I
0.792
ENSCING00000002796
Ciona intestinalis
ENSCING00000002796
I
0.749
A6MKJ4_CALJA
Callithrix jacchus
ENSCJAG00000002512
I
0.842
LOC100413032
Callithrix jacchus
ENSCJAG00000015833
I
0.946
PABPC1L
Callithrix jacchus
ENSCJAG00000017628
I
0.771
LOC100411130
Callithrix jacchus
ENSCJAG00000018953
I
0.921
PABPC4
Cavia porcellus
ENSCPOG00000009552
I
0.849
PABPC1L
Cavia porcellus
ENSCPOG00000013633
I
0.767
ENSCSAVG00000003102
Ciona savignyi
ENSCSAVG00000003102
I
0.714
ENSCSAVG00000004246
Ciona savignyi
ENSCSAVG00000004246
I
0.742
pabpc1l
Danio rerio
ENSDARG00000002597
I
0.821
pabpc1a
Danio rerio
ENSDARG00000017219
I
0.964
pabpc1b
Danio rerio
ENSDARG00000021140
I
0.921
pabpc4
Danio rerio
ENSDARG00000059259
I
0.853
LOC100054235
Equus caballus
ENSECAG00000009396
I
0.846
LOC100056021
Equus caballus
ENSECAG00000020699
I
0.824
LOC100070836
Equus caballus
ENSECAG00000022681
I
0.781
PABPC4
Erinaceus europaeus
ENSEEUG00000002962
I
0.846
PABPC1L
Erinaceus europaeus
ENSEEUG00000005978
I
0.774
PABPC1
Homo sapiens
ENSG00000070756
D
0.946
PABPC4
Homo sapiens
ENSG00000090621
D
0.842
PABPC1L
Homo sapiens
ENSG00000101104
I
0.781
PABPC3
Homo sapiens
ENSG00000151846
D
0.889
PABPC1L
Gasterosteus aculeatus
ENSGACG00000002792
I
0.846
ENSGACG00000003771
Gasterosteus aculeatus
ENSGACG00000003771
I
0.921
PABPC4
Gasterosteus aculeatus
ENSGACG00000007179
I
0.846
PABPC4
Gallus gallus
ENSGALG00000003800
I
0.867
PABPC1L
Gallus gallus
ENSGALG00000004123
I
0.857
PABPC4
Gorilla gorilla
ENSGGOG00000004002
I
0.842
PABPC1L
Gorilla gorilla
ENSGGOG00000004584
I
0.781
Q2VIP1_9PRIM
Gorilla gorilla
ENSGGOG00000006785
I
0.764
PABPC4
Loxodonta africana
ENSLAFG00000000151
I
0.846
PABPC1L
Loxodonta africana
ENSLAFG00000003553
I
0.792
ENSLAFG00000013994
Loxodonta africana
ENSLAFG00000013994
I
0.946
PABPC1L
Macropus eugenii
ENSMEUG00000007905
I
0.799
PABPC1L
Meleagris gallopavo
ENSMGAG00000003674
I
0.860
ENSMICG00000000431
Microcebus murinus
ENSMICG00000000431
I
0.846
PABPC1L
Microcebus murinus
ENSMICG00000000974
I
0.771
ENSMICG00000009121
Microcebus murinus
ENSMICG00000009121
I
0.781
ENSMICG00000016633
Microcebus murinus
ENSMICG00000016633
I
0.810
ENSMLUG00000012245
Myotis lucifugus
ENSMLUG00000012245
I
0.746
PABPC4
Macaca mulatta
ENSMMUG00000007497
I
0.846
PABPC1L
Macaca mulatta
ENSMMUG00000013209
I
0.785
PABPC1
Macaca mulatta
ENSMMUG00000017786
I
0.946
PABPC3
Macaca mulatta
ENSMMUG00000020835
I
0.900
XR_030308.1
Monodelphis domestica
ENSMODG00000006222
I
0.943
ENSMODG00000012040
Monodelphis domestica
ENSMODG00000012040
I
0.738
XM_001373066.1
Monodelphis domestica
ENSMODG00000013156
I
0.821
XM_001379460.1
Monodelphis domestica
ENSMODG00000015024
I
0.749
PABPC1L
Monodelphis domestica
ENSMODG00000016198
I
0.824
XM_001367383.1
Monodelphis domestica
ENSMODG00000017105
I
0.896
XM_001365232.1
Monodelphis domestica
ENSMODG00000017657
I
0.857
Pabpc4
Mus musculus
ENSMUSG00000011257
I
0.835
Pabpc1
Mus musculus
ENSMUSG00000022283
I
0.950
Pabpc6
Mus musculus
ENSMUSG00000046173
I
0.878
Pabpc2
Mus musculus
ENSMUSG00000051732
I
0.871
Pabpc1l
Mus musculus
ENSMUSG00000054582
I
0.738
Gm10110
Mus musculus
ENSMUSG00000062093
I
0.839
ENSOANG00000007307
Ornithorhynchus anatinus
ENSOANG00000007307
I
0.950
ENSOANG00000010001
Ornithorhynchus anatinus
ENSOANG00000010001
I
0.871
PABPC4
Oryctolagus cuniculus
ENSOCUG00000000562
I
0.842
PABPC1L
Oryctolagus cuniculus
ENSOCUG00000003005
I
0.796
ENSOCUG00000004354
Oryctolagus cuniculus
ENSOCUG00000004354
I
0.946
ENSOCUG00000023935
Oryctolagus cuniculus
ENSOCUG00000023935
I
0.946
PABPC4
Otolemur garnettii
ENSOGAG00000004067
I
0.720
ENSOPRG00000009667
Ochotona princeps
ENSOPRG00000009667
I
0.946
PABPC1L
Ochotona princeps
ENSOPRG00000011846
I
0.785
PABPC4
Ochotona princeps
ENSOPRG00000011984
I
0.839
PABPC3
Oryzias latipes
ENSORLG00000002691
I
0.975
ENSORLG00000003008
Oryzias latipes
ENSORLG00000003008
I
0.914
PABPC1L
Oryzias latipes
ENSORLG00000010322
I
0.799
PABPC4
Oryzias latipes
ENSORLG00000017479
I
0.853
PABPC4
Procavia capensis
ENSPCAG00000003341
I
0.760
ENSPPYG00000001506
Pongo pygmaeus
ENSPPYG00000001506
I
0.842
ENSPPYG00000005219
Pongo pygmaeus
ENSPPYG00000005219
I
0.903
ENSPPYG00000011042
Pongo pygmaeus
ENSPPYG00000011042
I
0.781
ENSPPYG00000018790
Pongo pygmaeus
ENSPPYG00000018790
I
0.946
PABPC4
Pan troglodytes
ENSPTRG00000000573
I
0.842
PABPC1L
Pan troglodytes
ENSPTRG00000013531
I
0.785
XR_023909.1
Pan troglodytes
ENSPTRG00000020475
I
0.943
Q2VIP2_PANTR
Pan troglodytes
ENSPTRG00000022593
I
0.900
PABPC1L
Pteropus vampyrus
ENSPVAG00000012663
I
0.792
ENSPVAG00000016640
Pteropus vampyrus
ENSPVAG00000016640
I
0.946
Pabpc1
Rattus norvegicus
ENSRNOG00000008639
I
0.950
Pabpc1l
Rattus norvegicus
ENSRNOG00000012750
I
0.738
Pabpc2
Rattus norvegicus
ENSRNOG00000014527
I
0.871
D4AC21_RAT
Rattus norvegicus
ENSRNOG00000015642
I
0.849
Pabpc3
Rattus norvegicus
ENSRNOG00000017367
I
0.885
D3ZEY8_RAT
Rattus norvegicus
ENSRNOG00000028592
I
0.828
PABPC4
Sus scrofa
ENSSSCG00000003660
I
0.846
ENSSSCG00000006063
Sus scrofa
ENSSSCG00000006063
I
0.946
PABPC1L
Sus scrofa
ENSSSCG00000007382
I
0.796
PABPC1L
Spermophilus tridecemlineatus
ENSSTOG00000003739
I
0.713
PABPC4
Spermophilus tridecemlineatus
ENSSTOG00000010416
I
0.717
PABPC4
Taeniopygia guttata
ENSTGUG00000001266
I
0.857
PABPC1L
Taeniopygia guttata
ENSTGUG00000005114
I
0.828
PABPC1
Taeniopygia guttata
ENSTGUG00000012067
I
0.950
ENSTNIG00000009153
Tetraodon nigroviridis
ENSTNIG00000009153
I
0.935
PABPC3
Tetraodon nigroviridis
ENSTNIG00000013307
I
0.947
PABPC4
Tetraodon nigroviridis
ENSTNIG00000016902
I
0.849
PABPC1L
Tetraodon nigroviridis
ENSTNIG00000017903
I
0.767
ENSTRUG00000003767
Takifugu rubripes
ENSTRUG00000003767
I
0.932
Q8QGJ7_FUGRU
Takifugu rubripes
ENSTRUG00000005907
I
0.853
PABPC1L
Takifugu rubripes
ENSTRUG00000011085
I
0.842
PABPC3
Takifugu rubripes
ENSTRUG00000011577
I
0.982
ENSTSYG00000004229
Tarsius syrichta
ENSTSYG00000004229
I
0.925
PABPC1L
Tarsius syrichta
ENSTSYG00000006645
I
0.774
ENSTTRG00000004689
Tursiops truncatus
ENSTTRG00000004689
I
0.946
PABPC1L
Tursiops truncatus
ENSTTRG00000007618
I
0.767
pabpc1
Xenopus tropicalis
ENSXETG00000006635
I
0.939
pabpc4
Xenopus tropicalis
ENSXETG00000010946
I
0.821
pabpc1l
Xenopus tropicalis
ENSXETG00000022831
I
0.814
estExt_Genewise1.C_1790010
Capitella teleta
estExt_Genewise1.C_1790010
I
0.760
estExt_Genewise1.C_sca_1150143
Lottia gigantea
estExt_Genewise1.C_sca_1150143
I
0.717
e_gw.313.40.1
Branchiostoma floridae
e_gw.313.40.1
I
0.742
e_gw1.115.135.1
Lottia gigantea
e_gw1.115.135.1
I
0.735
e_gw1.7.538.1
Trichoplax adhaerens
e_gw1.7.538.1
I
0.704
GH21052
Drosophila grimshawi
FBgn0128514
I
0.704
GI18654
Drosophila mojavensis
FBgn0141393
I
0.711
GJ21671
Drosophila virilis
FBgn0208790
I
0.704
GK19652
Drosophila willistoni
FBgn0221650
I
0.704
fgenesh1_pm.scaffold_278000002
Nematostella vectensis
fgenesh1_pm.scaffold_278000002
I
0.732
gw.1.65.1
Branchiostoma floridae
gw.1.65.1
I
0.742
ISCW014211
Ixodes scapularis
ISCW014211
I
0.761
nasonia_NCBI_hmm386743
Nasonia vitripennis
nasonia_NCBI_hmm386743
I
0.753
nasonia_NCBI_hmm390743
Nasonia vitripennis
nasonia_NCBI_hmm390743
I
0.753
nasonia_NCBI_hmm394743
Nasonia vitripennis
nasonia_NCBI_hmm394743
I
0.753
P20965
Xenopus laevis
P20965
I
0.921
PHUM617090
Pediculus humanus
PHUM617090
I
0.760
Q6GR16
Xenopus laevis
Q6GR16
I
0.832
Q6IP09
Xenopus laevis
Q6IP09
I
0.918
Q98SP8
Xenopus laevis
Q98SP8
I
0.835
XP_001177907.1
Strongylocentrotus purpuratus
XP_001177907.1
I
0.739
XP_002156904.1
Hydra magnipapillata
XP_002156904.1
I
0.732
XP_002156940.1
Hydra magnipapillata
XP_002156940.1
I
0.732
XP_801795.2
Strongylocentrotus purpuratus
XP_801795.2
I
0.739