CIS-BP Database: Catalog of Inferred Sequence Binding Preferences

TF Information

RFX1 *(Homo sapiens)* RFX
Pfam ID	Interpro ID	Gene ID	CIS-BP ID	Sequence source	Animal TF db
PF02257 (RFX_DNA_binding)	IPR003150	ENSG00000132005	T318249_2.00	Ensembl (2018-Dec-8)	Link out
Directly determined binding motifs
Name/Motif ID	Species	Forward	Reverse	Type/Study/Study ID	SR Score	DBD Identity
RFX1 M05723_2.00	Homo sapiens	BGTTRYCATGRYAACV	BGTTRYCATGRYAACV	SELEX Yin et al.(2017) RFX1_eDBD_HT-SELEX	(Direct)	(Direct)
RFX1 M05724_2.00	Homo sapiens	BGTWRYCATGRYWACV	BGTWRYCATGRYWACV	SELEX Yin et al.(2017) RFX1_eDBD_Methyl-HT-SELEX	(Direct)	(Direct)
RFX1 M09363_2.00	Homo sapiens	BBBSSNGTTGCCADGGNRMCVV	BBGKYNCCHTGGCAACNSSVVV	Misc Kulakovskiy et al.(2013) RFX1_HUMAN.H11MO.0.B	(Direct)	(Direct)
RFX1 M11245_2.00	Homo sapiens	Transfac license required	Transfac license required	Transfac Matys et al.(2006) V$EFC_Q6	(Direct)	(Direct)
RFX1 M11246_2.00	Homo sapiens	HNGTTRCYWVGYDMYNN	NNRKHRCBWRGYAACND	Transfac Matys et al.(2006) V$RFX1_01	(Direct)	(Direct)
RFX1 M11247_2.00	Homo sapiens	HNGTTRCYWBVGYDMYNN	NNRKHRCBVWRGYAACND	Transfac Matys et al.(2006) V$RFX1_02	(Direct)	(Direct)
RFX1 M11248_2.00	Homo sapiens	Transfac license required	Transfac license required	Transfac Matys et al.(2006) V$RFX1_Q6	(Direct)	(Direct)
Motifs from related TFs
Name/Motif ID	Species	Forward	Reverse	Type/Study/Study ID	SR Score	DBD Identity
RFX1 M02447_2.00	Anolis carolinensis	GTHRCYANGN	NCNTRGYDAC	PBM Weirauch et al.(2014) pTH9223	0.781	1.000
RFX1 M02451_2.00	Tetraodon nigroviridis	GTHDYYANGN	NCNTRRHDAC	PBM Weirauch et al.(2014) pTH9385	0.781	1.000
Rfx1 M08162_2.00	Mus musculus	GTTGCYADGGNRAC	GTYNCCHTRGCAAC	ChIP-seq Mathelier et al.(2014) MA0509.1	0.781	1.000
Rfx1 M09367_2.00	Mus musculus	BBBSSNGTTGCCADGGNRMCVV	BBGKYNCCHTGGCAACNSSVVV	Misc Kulakovskiy et al.(2013) RFX1_MOUSE.H11MO.0.A	0.781	1.000
G4VLF2_SCHMA M02452_2.00	Schistosoma mansoni	GTTGCTAD	HTAGCAAC	PBM Weirauch et al.(2014) pTH8587	0.775	0.861
Rfx3 M00188_2.00	Mus musculus	SNTRRHDACN	NGTHDYYANS	PBM Badis et al.(2009) Rfx3_3961	0.775	0.886
Rfx3 M03463_2.00	Mus musculus	SGTTRCCATGGYAACS	SGTTRCCATGGYAACS	SELEX Jolma et al.(2013) Rfx3_1	0.775	0.886
Rfx3 M09368_2.00	Mus musculus	BBGTTGCCATGGNRAC	GTYNCCATGGCAACVV	Misc Kulakovskiy et al.(2013) RFX3_MOUSE.H11MO.0.C	0.775	0.886
Sjc_0102030 M02455_2.00	Schistosoma japonicum	GTTRCYANG	CNTRGYAAC	PBM Weirauch et al.(2014) pTH9285	0.773	0.848
RFX2 M02449_2.00	Homo sapiens	BGTHRYYADG	CHTRRYDACV	PBM Weirauch et al.(2014) pTH9194	0.772	0.886
RFX2 M02450_2.00	Ornithorhynchus anatinus	NGTHRYYANV	BNTRRYDACN	PBM Weirauch et al.(2014) pTH9269	0.772	0.886
GB41876 M02453_2.00	Apis mellifera	GTHDCYANVN	NBNTRGHDAC	PBM Weirauch et al.(2014) pTH9226	0.771	0.835
XP_002157607.1 M02456_2.00	Hydra magnipapillata	GTHDYYDNVN	NBNHRRHDAC	PBM Weirauch et al.(2014) pTH9199	0.770	0.797
Rfx M03959_2.00	Drosophila melanogaster	NGTHRCYATRGYDACN	NGTHRCYATRGYDACN	SELEX Nitta et al.(2015) Rfx_1	0.762	0.810
Rfx M03960_2.00	Drosophila melanogaster	GTTGCTARGCAAC	GTTGCYTAGCAAC	SELEX Nitta et al.(2015) Rfx_2	0.762	0.810
Rfx M03961_2.00	Drosophila melanogaster	BGTWRCCATGGYWACV	BGTWRCCATGGYWACV	SELEX Nitta et al.(2015) Rfx_3	0.762	0.810
Rfx M03962_2.00	Drosophila melanogaster	GTTRCYAWTRGYAAC	GTTRCYAWTRGYAAC	SELEX Nitta et al.(2015) Rfx_4	0.762	0.810
Rfx M03963_2.00	Drosophila melanogaster	GTTGCTARGCAAC	GTTGCYTAGCAAC	SELEX Nitta et al.(2015) Rfx_5	0.762	0.810
RFX3 M03452_2.00	Homo sapiens	NGTTRCCATGGHAACV	BGTTDCCATGGYAACN	SELEX Jolma et al.(2013) RFX3_1	0.762	0.835
RFX3 M03453_2.00	Homo sapiens	BGTTGCTARGCAACS	SGTTGCYTAGCAACV	SELEX Jolma et al.(2013) RFX3_2	0.762	0.835
RFX3 M02750_2.00	Homo sapiens	GTTRYYATGG	CCATRRYAAC	SELEX Jolma et al.(2010) RFX3_dimer	0.762	0.835
RFX3 M05715_2.00	Homo sapiens	NGTTRYYATRRYAACN	NGTTRYYATRRYAACN	SELEX Yin et al.(2017) RFX3_eDBD_HT-SELEX_1	0.762	0.835
RFX3 M05716_2.00	Homo sapiens	BGTTGCTARGCAACS	SGTTGCYTAGCAACV	SELEX Yin et al.(2017) RFX3_eDBD_HT-SELEX_2	0.762	0.835
RFX3 M09361_2.00	Homo sapiens	BGTTRCCATGGYRN	NYRCCATGGYAACV	Misc Kulakovskiy et al.(2013) RFX3_HUMAN.H11MO.0.B	0.762	0.835
RFX3 M09627_2.00	Homo sapiens	BNGTTGCCATGGCAAC	GTTGCCATGGCAACNV	Misc Heinz et al.(2010) K562-RFX3_SRA012198	0.762	0.835
RFX3 M05717_2.00	Homo sapiens	BGTTRYYATRRYAACV	BGTTRYYATRRYAACV	SELEX Yin et al.(2017) RFX3_eDBD_Methyl-HT-SELEX_1	0.762	0.835
RFX3 M05718_2.00	Homo sapiens	BGTTGCTARGCAACV	BGTTGCYTAGCAACV	SELEX Yin et al.(2017) RFX3_eDBD_Methyl-HT-SELEX_2	0.762	0.835
Rfx2 M03461_2.00	Mus musculus	BGTTRCCATGGYAACV	BGTTRCCATGGYAACV	SELEX Jolma et al.(2013) Rfx2_1	0.761	0.848
Rfx2 M03462_2.00	Mus musculus	SGTTGCTARGCAACV	BGTTGCYTAGCAACS	SELEX Jolma et al.(2013) Rfx2_2	0.761	0.848
Rfx2 M05888_2.00	Mus musculus	NGTTRCYATGGHDAY	RTHDCCATRGYAACN	SMiLE-seq Isakova et al.(2017) RFX2	0.761	0.848
Rfx2 M09366_2.00	Mus musculus	NBYBGTYNCCMTGGCAACNSSS	SSSNGTTGCCAKGGNRACVRVN	Misc Kulakovskiy et al.(2013) RFX2_MOUSE.H11MO.0.A	0.761	0.848
RFX2 M03454_2.00	Homo sapiens	BGTTRCCATGGYAACV	BGTTRCCATGGYAACV	SELEX Jolma et al.(2013) RFX2_1	0.759	0.835
RFX2 M03455_2.00	Homo sapiens	SGTTGCTARGCAACS	SGTTGCYTAGCAACS	SELEX Jolma et al.(2013) RFX2_2	0.759	0.835
RFX2 M05719_2.00	Homo sapiens	NGTWDYYATRRHWACN	NGTWDYYATRRHWACN	SELEX Yin et al.(2017) RFX2_eDBD_HT-SELEX	0.759	0.835
RFX2 M09362_2.00	Homo sapiens	YNGTTGCCATGGVRACVV	BBGTYBCCATGGCAACNR	Misc Kulakovskiy et al.(2013) RFX2_HUMAN.H11MO.0.A	0.759	0.835
RFX2 M09628_2.00	Homo sapiens	BGTTKCCATGGMAAC	GTTKCCATGGMAACV	Misc Heinz et al.(2010) LoVo-RFX2_GSE49402	0.759	0.835
RFX2 M05720_2.00	Homo sapiens	BGTTRCCATGRYAACV	BGTTRYCATGGYAACV	SELEX Yin et al.(2017) RFX2_eDBD_Methyl-HT-SELEX	0.759	0.835
PHUM046580 M02454_2.00	Pediculus humanus	NGTHDCYANV	BNTRGHDACN	PBM Weirauch et al.(2014) pTH9278	0.757	0.848
daf-19 M00709_2.00	Caenorhabditis elegans	SGTTRCTADG	CHTAGYAACS	PBM Narasimhan et al.(2015) pTH10021	0.743	0.709
RFX4 M02448_2.00	Cavia porcellus	GTHDYYNNGN	NCNNRRHDAC	PBM Weirauch et al.(2014) pTH9249	0.712	0.646
Rfx4 M00186_2.00	Mus musculus	GTHDYYNNSN	NSNNRRHDAC	PBM Badis et al.(2009) Rfx4_3761	0.712	0.646
RFX4 M03456_2.00	Homo sapiens	NGTWRYCATRGHWACN	NGTWDCYATGRYWACN	SELEX Jolma et al.(2013) RFX4_1	0.712	0.646
RFX4 M03457_2.00	Homo sapiens	NGTTGCYRRGCAACS	SGTTGCYYRGCAACN	SELEX Jolma et al.(2013) RFX4_2	0.712	0.646
RFX4 M05721_2.00	Homo sapiens	BGTWRYCATGRYWACV	BGTWRYCATGRYWACV	SELEX Yin et al.(2017) RFX4_eDBD_HT-SELEX	0.712	0.646
RFX4 M05722_2.00	Homo sapiens	BGTWRYCATGRYWACV	BGTWRYCATGRYWACV	SELEX Yin et al.(2017) RFX4_eDBD_Methyl-HT-SELEX	0.712	0.646
Rfx6 M09365_2.00	Mus musculus	BDGTWKCYNDG	CHNRGMAACHV	Misc Kulakovskiy et al.(2013) RFX6_MOUSE.H11MO.0.C	0.691	0.620
RFX1 M00066_2.00	Saccharomyces cerevisiae	NSGTTGCYAN	NTRGCAACSN	PBM Badis et al.(2008) RFX1_4537	0.652	0.418
RFX1 M07494_2.00	Saccharomyces cerevisiae	BGTTRCYA	TRGYAACV	PBM, CSA and or DIP-chip Mathelier et al.(2014) MA0365.1	0.652	0.418
RFX1 M08600_2.00	Saccharomyces cerevisiae	CGTYRBYAYRGYWACM	KGTWRCYRTRVYRACG	Misc DeBoer et al.(2011) YLR176C_1478	0.652	0.418
RFX1 M08601_2.00	Saccharomyces cerevisiae	BGTTRCYA	TRGYAACV	Misc DeBoer et al.(2011) YLR176C_496	0.652	0.418
RFX1 M11251_2.00	Saccharomyces cerevisiae	Transfac license required	Transfac license required	Transfac Matys et al.(2006) F$RFX1_02	0.652	0.418
For this family, TFs with SR scores > 0.650* will likely have a similar motif*

DNA Binding Domains

Protein ID	Domain	From	To	Sequence
ENSP00000254325	RFX	435	513	SPATVQWLLDNYETAEGVSLPRSTLYCHYLLHCQEQKLEPVNAASFGKLIRSVFMGLRTRRLGTRGNSKYHYYGLRIKA

Links
Other RFX family TFs
Other *Homo sapiens* TFs

729 Related TFs

Name	Species	Gene ID	Motif Evidence	SR Score	Action
AALB003225	Anopheles albimanus	AALB003225	N
AARA006109	Anopheles arabiensis	AARA006109	N
AATE009040	Anopheles atroparvus	AATE009040	N
ACHR007377	Anopheles christyi	ACHR007377	N
ACOM038290	Anopheles coluzzii	ACOM038290	N
ACUA025224	Anopheles culicifacies	ACUA025224	N
ADAC004659	Anopheles darlingi	ADAC004659	N
ADIR009258	Anopheles dirus	ADIR009258	N
AEPI000432	Anopheles epiroticus	AEPI000432	N
AFAF009884	Anopheles farauti	AFAF009884	N
AFUN008496	Anopheles funestus	AFUN008496	N
AGAP004854	Anopheles gambiae	AGAP004854	N
AMAM014474	Anopheles maculatus	AMAM014474	N
AMEC004492	Anopheles melas	AMEC004492	N
AMEM014063	Anopheles merus	AMEM014063	N
AMIN011637	Anopheles minimus	AMIN011637	N
AQUA000338	Anopheles quadriannulatus	AQUA000338	N
arid1aa	Tetraodon nigroviridis	ENSTNIG00000009659	N
arid1ab	Takifugu rubripes	ENSTRUG00000012325	N
arid1ab	Gasterosteus aculeatus	ENSGACG00000007627	N
arid1ab	Danio rerio	ENSDARG00000101891	N
ASTEI05939	Anopheles stephensi	ASTEI05939	N
BGIBMGA004558	Bombyx mori	BGIBMGA004558	N
BGLB000541	Biomphalaria glabrata	BGLB000541	I
CaO19.10013	Candida albicans	CaO19.10013	I
CaO19.2476	Candida albicans	CaO19.2476	I
CD36_05420	Candida dubliniensis	CD36_05420	I
CGI_10006980	Crassostrea gigas	CGI_10006980	I
CLEC002198	Cimex lectularius	CLEC002198	N
CLEC007074	Cimex lectularius	CLEC007074	N
CLEC007177	Cimex lectularius	CLEC007177	N
CORT_0B08690	Candida orthopsilosis	CORT_0B08690	I
CPAG_04992	Candida parapsilosis	CPAG_04992	I
CTRG_04819	Candida tropicalis	CTRG_04819	I
DEHA2D02310g	Debaryomyces hansenii	DEHA2D02310g	I
ENSAMXG00000013606	Astyanax mexicanus	ENSAMXG00000013606	N
ENSAMXG00000018241	Astyanax mexicanus	ENSAMXG00000018241	N
ENSCHOG00000011802	Choloepus hoffmanni	ENSCHOG00000011802	N
ENSGACG00000006735	Gasterosteus aculeatus	ENSGACG00000006735	N
ENSGMOG00000001024	Gadus morhua	ENSGMOG00000001024	N
ENSGMOG00000012045	Gadus morhua	ENSGMOG00000012045	N
ENSLOCG00000003798	Lepisosteus oculatus	ENSLOCG00000003798	N
ENSONIG00000007618	Oreochromis niloticus	ENSONIG00000007618	N
ENSONIG00000008068	Oreochromis niloticus	ENSONIG00000008068	N
ENSPFOG00000002208	Poecilia formosa	ENSPFOG00000002208	N
ENSPFOG00000007276	Poecilia formosa	ENSPFOG00000007276	N
ENSPFOG00000015517	Poecilia formosa	ENSPFOG00000015517	N
ENSPMAG00000003030	Petromyzon marinus	ENSPMAG00000003030	N
ENSPVAG00000010595	Pteropus vampyrus	ENSPVAG00000010595	N
ENSSHAG00000000588	Sarcophilus harrisii	ENSSHAG00000000588	N
ENSSSCG00000028486	Sus scrofa	ENSSSCG00000028486	N
ENSTNIG00000017481	Tetraodon nigroviridis	ENSTNIG00000017481	N
ENSTSYG00000011521	Tarsius syrichta	ENSTSYG00000011521	N
ENSXMAG00000009940	Xiphophorus maculatus	ENSXMAG00000009940	N
ENSXMAG00000010716	Xiphophorus maculatus	ENSXMAG00000010716	N
estExt_gwp_genewisePlus_human.C_chr_1.10215	Pichia stipitis	estExt_gwp_genewisePlus_human.C_chr_1.10215	I
G210_1683	Candida maltosa	G210_1683	I
Gfo_R011571	Geospiza fortis	Gfo_R011571	N
GNLVRS01_PISO0I02516g	Millerozyma farinosa	GNLVRS01_PISO0I02516g	I
GNLVRS01_PISO0J04299g	Millerozyma farinosa	GNLVRS01_PISO0J04299g	I
HMEL015554	Heliconius melpomene	HMEL015554	N
KGM_20601	Danaus plexippus	KGM_20601	N
L892_g25633	Steinernema scapterisci	L892_g25633	N
LotgiG131492	Lottia gigantea	LotgiG131492	I
MCINX012993	Melitaea cinxia	MCINX012993	N
ML16136a	Mnemiopsis leidyi	ML16136a	N
Ocbimv22032810m.g	Octopus bimaculoides	Ocbimv22032810m.g	I
PICST_85882	Scheffersomyces stipitis	PICST_85882	I
RPRC014399	Rhodnius prolixus	RPRC014399	N
Sakowv30029063m.g	Saccoglossus kowalevskii	Sakowv30029063m.g	N
SPAPADRAFT_131982	Spathaspora passalidarum	SPAPADRAFT_131982	I
SPPG_05401	Spizellomyces punctatus	SPPG_05401	N
XP_002934686	Xenopus tropicalis	XP_002934686	N

RFX1 (Homo sapiens) RFX

TF Information

Directly determined binding motifs

Motifs from related TFs

DNA Binding Domains

Links

729 Related TFs

RFX1 **(Homo sapiens)
RFX**