fgenesh2_pg.scaffold_36000101 (Branchiostoma floridae)
RRM

RBP Information

Pfam ID Interpro ID Gene ID CISBP-RNA ID Sequence source
PF00076 (RRM_1) IPR000504 fgenesh2_pg.scaffold_36000101 T52258_0.6 JGI (2010-Jan-8)

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
sf3b4
M195_0.6 		Danio rerio CAAAAG RNAcompete
Ray et al.(2013)
RNCMPT00224 		0.951
Smp_067420
M201_0.6 		Schistosoma mansoni DWWUUUU RNAcompete
Ray et al.(2013)
RNCMPT00232 		0.895
sap-49
M261_0.6 		Caenorhabditis elegans CGUGUGAG SELEX
Cook et al.(2011)
145_9163526 		0.811
estExt_gwp_gw1.C_700168
M205_0.6 		Physcomitrella patens WUGGAG RNAcompete
Ray et al.(2013)
RNCMPT00237 		0.769
For this family, RBPs with RBD identity > 0.7 will likely have a similar motif

RNA Binding Domains

Protein ID Domain From To Sequence
fgenesh2_pg.scaffold_36000101 RRM 15 85
fgenesh2_pg.scaffold_36000101 RRM 102 173

Links

Other RRM family RBPs
Other Branchiostoma floridae RBPs

129 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
sf3b4 Danio rerio ENSDARG00000018574 D 0.965
sap-49 Caenorhabditis elegans C08B11.5 D 0.811
Smp_067420 Schistosoma mansoni Smp_067420 D 0.895
estExt_gwp_gw1.C_700168 Physcomitrella patens estExt_gwp_gw1.C_700168 D 0.769
SB01G020190 Sorghum bicolor Sb01g020190 I 0.783
SNAPOd2T00022637001 Oikopleura dioica SNAPOd2T00022637001 I 0.860
30183.m001303 Ricinus communis 30183.m001303 I 0.811
99199 Helobdella robusta 99199 I 0.853
Aqu1.212443 Amphimedon queenslandica Aqu1.212443 I 0.839
Aqu1.214461 Amphimedon queenslandica Aqu1.214461 I 0.839
cassava31033.valid.m1 Manihot esculenta cassava31033.valid.m1 I 0.783
Cucsa.251850 Cucumis sativus Cucsa.251850 I 0.790
e_gw1.1.857.1 Daphnia pulex e_gw1.1.857.1 I 0.888
e_gw1.3.432.1 Micromonas pusilla e_gw1.3.432.1 I 0.713
e_gw1.6.938.1 Trichoplax adhaerens e_gw1.6.938.1 I 0.874
e_gwEuk.5.259.1 Ostreococcus lucimarinus e_gwEuk.5.259.1 I 0.727
B9HEU6_POPTR Populus trichocarpa POPTR_0007s12570 I 0.797
PHUM263440 Pediculus humanus PHUM263440 I 0.881
LOC_Os10g31900 Oryza sativa LOC_Os10g31900 I 0.783
Spx Drosophila melanogaster FBgn0015818 I 0.874
GA17684-RA Drosophila pseudoobscura FBgn0077694 I 0.881
GF20385 Drosophila ananassae FBgn0097392 I 0.881
GG19577 Drosophila erecta FBgn0111779 I 0.881
GH17589 Drosophila grimshawi FBgn0125059 I 0.888
GI16317 Drosophila mojavensis FBgn0139065 I 0.888
GL21313 Drosophila persimilis FBgn0158906 I 0.881
GM12470 Drosophila sechellia FBgn0167407 I 0.874
GJ15655 Drosophila virilis FBgn0202845 I 0.888
GK19717 Drosophila willistoni FBgn0221715 I 0.881
GE16738 Drosophila yakuba FBgn0234234 I 0.881
XM_002886132.1 Arabidopsis lyrata fgenesh2_kg.3__3460__AT2G18510.1 I 0.748
GSVIVG00018991001 Vitis vinifera GSVIVG00018991001 I 0.776
ISCW010601 Ixodes scapularis ISCW010601 I 0.902
sf3b4 Xenopus tropicalis ENSXETG00000011038 I 0.965
estExtDG_fgenesh_newKGs_kg.C_520059 Emiliania huxleyi estExtDG_fgenesh_newKGs_kg.C_520059 I 0.713
estExt_Genemark1.C_60101 Coccomyxa C 169 estExt_Genemark1.C_60101 I 0.769
estExt_Genewise1.C_60440 Chlorella vulgaris estExt_Genewise1.C_60440 I 0.769
gw1.05.00.253.1 Ostreococcus tauri gw1.05.00.253.1 I 0.741
MDP0000131129 Malus x domestica MDP0000131129 I 0.790
MDP0000320945 Malus x domestica MDP0000320945 I 0.790
Minc01580 Meloidogyne incognita Minc01580 I 0.783
Minc02568 Meloidogyne incognita Minc02568 I 0.783
Minc12926 Meloidogyne incognita Minc12926 I 0.783
ppa007508m Prunus persica ppa007508m I 0.790
XP_001185838.1 Strongylocentrotus purpuratus XP_001185838.1 I 0.923
XP_002157695.1 Hydra magnipapillata XP_002157695.1 I 0.867
XP_784135.2 Strongylocentrotus purpuratus XP_784135.2 I 0.923
AAH45264 Xenopus laevis AAH45264 I 0.958
Ame_R019118 Ailuropoda melanoleuca Ame_R019118 I 0.965
Medtr3g087340 Medicago truncatula Medtr3g087340 I 0.783
GRMZM2G170699 Zea mays GRMZM2G170699 I 0.783
estExt_fgenesh1_pg.C_220114 Monosiga brevicollis estExt_fgenesh1_pg.C_220114 I 0.762
estExt_fgenesh2_pm.C_9540001 Branchiostoma floridae estExt_fgenesh2_pm.C_9540001 I 1.000
estExt_Genewise1.C_230076 Capitella teleta estExt_Genewise1.C_230076 I 0.881
estExt_Genewise1.C_sca_2060028 Lottia gigantea estExt_Genewise1.C_sca_2060028 I 0.909
estExt_Genewise1Plus.C_20198 Mucor circinelloides estExt_Genewise1Plus.C_20198 I 0.706
estExt_Genewise1Plus.C_330054 Phycomyces blakesleeanus estExt_Genewise1Plus.C_330054 I 0.734
estExt_gwp.C_590193 Nematostella vectensis estExt_gwp.C_590193 I 0.888
FER_chlre3.3.376.1.5 Chlamydomonas reinhardtii FER_chlre3.3.376.1.5 I 0.762
Glyma09g00310.1 Glycine max Glyma09g00310.1 I 0.783
Glyma12g36950.1 Glycine max Glyma12g36950.1 I 0.783
gw1.3.260.1 Chlorella NC64A gw1.3.260.1 I 0.720
gw1.5.900.1 Ostreococcus RCC809 gw1.5.900.1 I 0.741
GRMZM2G102639 Zea mays GRMZM2G102639 I 0.776
AAH77458 Xenopus laevis AAH77458 I 0.958
ENSVPAG00000008152 Vicugna pacos ENSVPAG00000008152 I 0.965
AMAG_03157 Allomyces macrogynus AMAG_03157 I 0.748
emb2444 Arabidopsis thaliana AT2G18510-TAIR-G I 0.755
BGIOSIBCE032328 Oryza indica BGIOSIBCE032328 I 0.783
BRADI3G27920 Brachypodium distachyon BRADI3G27920 I 0.783
CBG13349 Caenorhabditis briggsae CBG13349 I 0.804
CBN06124 Caenorhabditis brenneri CBN06124 I 0.811
CJA19238 Caenorhabditis japonica CJA19238 I 0.804
CPIJ014149 Culex quinquefasciatus CPIJ014149 I 0.895
CRE01639 Caenorhabditis remanei CRE01639 I 0.818
ENSACAG00000010019 Anolis carolinensis ENSACAG00000010019 I 0.965
Q3MHE6_BOVIN Bos taurus ENSBTAG00000012495 I 0.965
ENSBTAG00000012793 Bos taurus ENSBTAG00000012793 I 0.944
ENSBTAG00000026365 Bos taurus ENSBTAG00000026365 I 0.778
ENSCAFG00000005753 Canis familiaris ENSCAFG00000005753 I 0.888
AGAP001538 Anopheles gambiae AGAP001538 I 0.881
AAEL013795 Aedes aegypti AAEL013795 I 0.895
nasonia_NCBI_hmm192414 Nasonia vitripennis nasonia_NCBI_hmm192414 I 0.916
AMAG_10429 Allomyces macrogynus AMAG_10429 I 0.748
Bm1_43460 Brugia malayi Bm1_43460 I 0.811
CAOG_06059 Capsaspora owczarzaki CAOG_06059 I 0.720
CpipJ_CPIJ014149 Culex pipiens CpipJ_CPIJ014149 I 0.895
LOAG_01189 Loa loa LOAG_01189 I 0.818
PTSG_00878 Salpingoeca rosetta PTSG_00878 I 0.797
RO3G_10200 Rhizopus oryzae RO3G_10200 I 0.706
RO3G_15452 Rhizopus oryzae RO3G_15452 I 0.706
SPPG_04182 Spizellomyces punctatus SPPG_04182 I 0.797
WUBG_01785 Wuchereria bancrofti WUBG_01785 I 0.818
PK08238.1 Cannabis sativa PK08238.1 I 0.797
amel4_ncbi_hmm1889 Apis mellifera amel4_ncbi_hmm1889 I 0.902
DGIL_AUG5s13542g6t1 Acyrtosiphon pisum DGIL_AUG5s13542g6t1 I 0.853
ENSCAFG00000011617 Canis familiaris ENSCAFG00000011617 I 0.965
A6MKC5_CALJA Callithrix jacchus ENSCJAG00000000793 I 0.965
ENSCPOG00000008267 Cavia porcellus ENSCPOG00000008267 I 0.965
ENSOPRG00000010808 Ochotona princeps ENSOPRG00000010808 I 0.965
SF3B4 Oryzias latipes ENSORLG00000003062 I 0.965
ENSPCAG00000000392 Procavia capensis ENSPCAG00000000392 I 0.958
SF3B4 Pan troglodytes ENSPTRG00000001243 I 0.965
ENSPVAG00000014171 Pteropus vampyrus ENSPVAG00000014171 I 0.965
Sf3b4 Rattus norvegicus ENSRNOG00000021181 I 0.965
ENSSSCG00000006665 Sus scrofa ENSSSCG00000006665 I 0.965
ENSSTOG00000000684 Spermophilus tridecemlineatus ENSSTOG00000000684 I 0.706
ENSSTOG00000006570 Spermophilus tridecemlineatus ENSSTOG00000006570 I 0.931
SF3B4 Taeniopygia guttata ENSTGUG00000004470 I 0.965
SF3B4 Tetraodon nigroviridis ENSTNIG00000009156 I 0.965
SF3B4 Takifugu rubripes ENSTRUG00000004516 I 0.965
SF3B4 Tarsius syrichta ENSTSYG00000009295 I 0.965
SF3B4 Otolemur garnettii ENSOGAG00000006265 I 0.965
ENSOCUG00000004614 Oryctolagus cuniculus ENSOCUG00000004614 I 0.965
Sf3b4 Mus musculus ENSMUSG00000068856 I 0.965
LOC100054350 Equus caballus ENSECAG00000024737 I 0.965
ENSFCAG00000010106 Felis catus ENSFCAG00000010106 I 0.965
SF3B4 Homo sapiens ENSG00000143368 I 0.965
SF3B4 Gasterosteus aculeatus ENSGACG00000003819 I 0.965
SF3B4 Gallus gallus ENSGALG00000013352 I 0.965
SF3B4 Gorilla gorilla ENSGGOG00000004761 I 0.965
ENSLAFG00000008531 Loxodonta africana ENSLAFG00000008531 I 0.965
ENSMEUG00000003272 Macropus eugenii ENSMEUG00000003272 I 0.902
ENSMGAG00000000653 Meleagris gallopavo ENSMGAG00000000653 I 0.965
SF3B4 Microcebus murinus ENSMICG00000000296 I 0.965
ENSMLUG00000010789 Myotis lucifugus ENSMLUG00000010789 I 0.965
SF3B4 Macaca mulatta ENSMMUG00000007256 I 0.965
ENSMODG00000018767 Monodelphis domestica ENSMODG00000018767 I 0.965
ENSTTRG00000005217 Tursiops truncatus ENSTTRG00000005217 I 0.965