CIS-BP Database: Catalog of Inferred Sequence Binding Preferences

TF Information

Sakowv30025789m.g *(Saccoglossus kowalevskii)* Paired box
Pfam ID	Interpro ID	Gene ID	CIS-BP ID	Sequence source
PF00292 (PAX)	IPR001523	Sakowv30025789m.g	T312214_2.00	JGI:Metazome (2015-Oct-22)
Directly determined binding motifs
Name/Motif ID	Species	Forward	Reverse	Type/Study/Study ID	SR Score	DBD Identity
No direct experiments
Motifs from related TFs
Name/Motif ID	Species	Forward	Reverse	Type/Study/Study ID	SR Score	DBD Identity
Pax5B M01301_2.00	Gallus gallus	NSNDTNNNN	NNNNAHNSN	PBM Lambert et al.(2019) pTH9781	0.808	0.808
Poxn M03946_2.00	Drosophila melanogaster	DGCGTGACSGTCACGSY	RSCGTGACSGTCACGCH	SELEX Nitta et al.(2015) Poxn_1	0.717	0.717
PAX5 M03443_2.00	Homo sapiens	RNBYANYSAWSCGTRACN	NGTYACGSWTSRNTRVNY	SELEX Jolma et al.(2013) PAX5_1	0.808	0.808
Poxn M03947_2.00	Drosophila melanogaster	RSCGKGACSGTTMCGSW	WSCGKAACSGTCMCGSY	SELEX Nitta et al.(2015) Poxn_2	0.717	0.717
PAX5 M08160_2.00	Homo sapiens	RDGCGTGACCNN	NNGGTCACGCHY	ChIP-seq Mathelier et al.(2014) MA0014.3	0.808	0.808
Poxn M03948_2.00	Drosophila melanogaster	NCGTTCCGGAACGD	HCGTTCCGGAACGN	SELEX Nitta et al.(2015) Poxn_3	0.717	0.717
PAX5 M07995_2.00	Homo sapiens	BCAVYSRDSCRKRRC	GYYMYGSHYSRBTGV	ChIP-seq Gerstein et al.(2012) GM12878_PAX5C20_HudsonAlpha	0.808	0.808
Poxn M06437_2.00	Drosophila melanogaster	RSCGTGACG	CGTCACGSY	B1H Zhu et al.(2011) Poxn_SOLEXA_5_FBgn0003130	0.717	0.717
PAX5 M07996_2.00	Homo sapiens	BCASYSRDSCRTRAC	GTYAYGSHYSRSTGV	ChIP-seq Gerstein et al.(2012) GM12878_PAX5N19_HudsonAlpha	0.808	0.808
pax2b M02425_2.00	Danio rerio	HVNYSRNSCR	YGSNYSRNBD	PBM Weirauch et al.(2014) pTH8679	0.707	0.707
PAX5 M07997_2.00	Homo sapiens	CASYSRDSCRKRACN	NGTYMYGSHYSRSTG	ChIP-seq Gerstein et al.(2012) GM12891_PAX5C20_HudsonAlpha	0.808	0.808
PAX5 M07998_2.00	Homo sapiens	BCASYSRDSCGKRRC	GYYMCGSHYSRSTGV	ChIP-seq Gerstein et al.(2012) GM12892_PAX5C20_HudsonAlpha	0.808	0.808
pax2 M02428_2.00	Xenopus tropicalis	NNNRNBCRNN	NNYGVNYNNN	PBM Weirauch et al.(2014) pTH8556	0.707	0.707
PAX5 M08227_2.00	Homo sapiens	BCANYSRDGCGTRAM	KTYACGCHYSRNTGV	ChIP-seq Contrino et al.(2012) Mv108	0.808	0.808
PAX5 M08228_2.00	Homo sapiens	AGCGTGRCYG	CRGYCACGCT	ChIP-seq Contrino et al.(2012) Mv109	0.808	0.808
PAX5 M09341_2.00	Homo sapiens	SNVDGNKCARCVRAGCRDGAC	GTCHYGCTYBGYTGMNCHBNS	Misc Kulakovskiy et al.(2013) PAX5_HUMAN.H11MO.0.A	0.808	0.808
Pax5 M09342_2.00	Mus musculus	VDRNBCAVYVRDSCRKRRM	KYYMYGSHYBRBTGVNYHB	Misc Kulakovskiy et al.(2013) PAX5_MOUSE.H11MO.0.A	0.808	0.808
PAX5 M09622_2.00	Homo sapiens	BCASYSRDSCRTGRMN	NKYCAYGSHYSRSTGV	Misc Heinz et al.(2010) GM12878-PAX5_GSE32465_1	0.808	0.808
PAX5 M09623_2.00	Homo sapiens	BCABNVRSCGTGAC	GTCACGSYBNVTGV	Misc Heinz et al.(2010) GM12878-PAX5_GSE32465_2	0.808	0.808
PAX5 M11208_2.00	Homo sapiens	BCNNNRNKCANBGNWGNRKRGMSRSHNB	VNDSYSKCYMYNCWNCVNTGMNYNNNGV	Transfac Matys et al.(2006) V$PAX5_01	0.808	0.808
PAX5 M11209_2.00	Homo sapiens	VRHVDGDNDBBTNRAGCGKRACVRYNVH	DBNRYBGTYMCGCTYNAVVHNHCHBDYB	Transfac Matys et al.(2006) V$PAX5_02	0.808	0.808
PAX5 M11210_2.00	Homo sapiens	Transfac license required	Transfac license required	Transfac Matys et al.(2006) V$PAX5_06	0.808	0.808
PAX5 M11211_2.00	Homo sapiens	Transfac license required	Transfac license required	Transfac Matys et al.(2006) V$PAX5_07	0.808	0.808
PAX5 M11212_2.00	Homo sapiens	Transfac license required	Transfac license required	Transfac Matys et al.(2006) V$PAX5_Q6	0.808	0.808
PAX8 M05685_2.00	Homo sapiens	NRNBYRNYSRWGCGTGACSN	NSGTCACGCWYSRNYRVNYN	SELEX Yin et al.(2017) PAX8_FL_HT-SELEX	0.776	0.776
Pax8 M09624_2.00	Rattus norvegicus	BCAGBCADSCRKGVM	KBCMYGSHTGVCTGV	Misc Heinz et al.(2010) Thyroid-Pax8_GSE26938	0.776	0.776
PAX8 M11205_2.00	Homo sapiens	Transfac license required	Transfac license required	Transfac Matys et al.(2006) V$PAX8_01	0.776	0.776
PAX8 M11206_2.00	Homo sapiens	Transfac license required	Transfac license required	Transfac Matys et al.(2006) V$PAX8_B	0.776	0.776
PAX8 M05686_2.00	Homo sapiens	NRNBCRNTSAWSCGYGACNN	NNGTCRCGSWTSANYGVNYN	SELEX Yin et al.(2017) PAX8_FL_Methyl-HT-SELEX	0.776	0.776
sv M01302_2.00	Drosophila melanogaster	NNNSCRBRDM	KHYVYGSNNN	PBM Lambert et al.(2019) pTH9773	0.760	0.760
sv M03949_2.00	Drosophila melanogaster	NBCRNYSAWGCGTGACS	SGTCACGCWTSRNYGVN	SELEX Nitta et al.(2015) sv_1	0.760	0.760
sv M06438_2.00	Drosophila melanogaster	RNYSRDSCGTRACNN	NNGTYACGSHYSRNY	B1H Zhu et al.(2011) sv_SOLEXA_5_FBgn0005561	0.760	0.760
PAX1 M03442_2.00	Homo sapiens	DBCANTSAWGCGTGACS	SGTCACGCWTSANTGVH	SELEX Jolma et al.(2013) PAX1_1	0.744	0.744
PAX9 M03444_2.00	Homo sapiens	NKCANTSAWGCGTGACS	SGTCACGCWTSANTGMN	SELEX Jolma et al.(2013) PAX9_1	0.744	0.744
PAX1 M05687_2.00	Homo sapiens	BCRNTSRWGCGTGACSN	NSGTCACGCWYSANYGV	SELEX Yin et al.(2017) PAX1_eDBD_HT-SELEX	0.744	0.744
PAX9 M05689_2.00	Homo sapiens	BHRNYSRDSCGTRACSN	NSGTYACGSHYSRNYDV	SELEX Yin et al.(2017) PAX9_eDBD_HT-SELEX	0.744	0.744
PAX1 M11207_2.00	Homo sapiens	Transfac license required	Transfac license required	Transfac Matys et al.(2006) V$PAX1_B	0.744	0.744
pax9 M11204_2.00	Danio rerio	Transfac license required	Transfac license required	Transfac Matys et al.(2006) V$PAX9_B	0.744	0.744
PAX1 M05688_2.00	Homo sapiens	BCRNTSAWGCGTGACSN	NSGTCACGCWTSANYGV	SELEX Yin et al.(2017) PAX1_eDBD_Methyl-HT-SELEX	0.744	0.744
PAX9 M05690_2.00	Homo sapiens	BCRNTSAWSCGYGACNN	NNGTCRCGSWTSANYGV	SELEX Yin et al.(2017) PAX9_eDBD_Methyl-HT-SELEX	0.744	0.744
PAX7 M00346_2.00	Homo sapiens	NGTYAYGSHN	NDSCRTRACN	PBM Barrera et al.(2016) PAX7_REF	0.728	0.728
pax-2 M00706_2.00	Caenorhabditis elegans	RMSCRTRACS	SGTYAYGSKY	PBM Narasimhan et al.(2015) pTH10794	0.720	0.720
Poxm M03944_2.00	Drosophila melanogaster	CAVTCAWGCGTGACR	YGTCACGCWTGABTG	SELEX Nitta et al.(2015) Poxm_1	0.720	0.720
Poxm M03945_2.00	Drosophila melanogaster	NYSAWGCRTRACS	SGTYAYGCWTSRN	SELEX Nitta et al.(2015) Poxm_2	0.720	0.720
Poxm M06436_2.00	Drosophila melanogaster	NNNNNNMVNHNRNSCRTGA	TCAYGSNYNDNBKNNNNNN	B1H Zhu et al.(2011) Poxm_SOLEXA_5_FBgn0003129	0.720	0.720
PAX7 M00345_2.00	Homo sapiens	NSGTCACGSN	NSCGTGACSN	PBM Barrera et al.(2016) PAX7_P112L	0.720	0.720
egl-38 M02426_2.00	Caenorhabditis elegans	ACCGTGAYCAC	GTGRTCACGGT	PBM Weirauch et al.(2014) pTH8981	0.704	0.704
For this family, TFs with SR scores > 0.700* will likely have a similar motif*

DNA Binding Domains

Protein ID	Domain	From	To	Sequence
23945940_peptide	Paired box	130	254	GQAGVNQLGGVFVNGRPLPDFIRARIVELAHLGVRPCDISRQLLVSHGCVSKILTRYYETGSIRPGNIGGSKPKVATPLVVKKILQYKQENPSIFAWEIRDKLLQERVCDENTIPSVSSINRILR
23945941_peptide	Paired box	130	222	GQAGVNQLGGVFVNGRPLPDFIRARIVELAHLGVRPCDISRQLLVSHGCVSKILTRYYETGSIRPGNIGGSKPKDLIHSQLPPVLQTLPAPTP

Links
Other Paired box family TFs
Other *Saccoglossus kowalevskii* TFs

589 Related TFs

Name	Species	Gene ID	Motif Evidence	SR Score	Action
BGIOSGA012523	Oryza indica	BGIOSGA012523	N	0.000
BGIOSGA012525	Oryza indica	BGIOSGA012525	N	0.000
BGIOSGA034616	Oryza indica	BGIOSGA034616	N	0.000
BGIOSGA036760	Oryza indica	BGIOSGA036760	N	0.000
BRADI1G63910	Brachypodium distachyon	BRADI1G63910	N	0.000
BRADI2G22230	Brachypodium distachyon	BRADI2G22230	I	0.000
F775_02926	Aegilops tauschii	F775_02926	N	0.000
F775_31089	Aegilops tauschii	F775_31089	N	0.000
F775_31341	Aegilops tauschii	F775_31341	I	0.000
GRMZM2G030272	Zea mays	GRMZM2G030272	N	0.000
GRMZM2G099593	Zea mays	GRMZM2G099593	N	0.000
LPERR03G13630	Leersia perrieri	LPERR03G13630	N	0.000
LPERR11G00940	Leersia perrieri	LPERR11G00940	N	0.000
MLOC_57051	Hordeum vulgare	MLOC_57051	I	0.000
MLOC_57764	Hordeum vulgare	MLOC_57764	N	0.000
OB03G25300	Oryza brachyantha	OB03G25300	N	0.000
OB11G10730	Oryza brachyantha	OB11G10730	N	0.000
OBART03G15470	Oryza barthii	OBART03G15470	N	0.000
OBART11G01070	Oryza barthii	OBART11G01070	N	0.000
OBART12G00800	Oryza barthii	OBART12G00800	N	0.000
OGLUM03G15660	Oryza glumaepatula	OGLUM03G15660	N	0.000
OGLUM12G01250	Oryza glumaepatula	OGLUM12G01250	N	0.000
OGLUM12G01320	Oryza glumaepatula	OGLUM12G01320	N	0.000
OLONG_001744	Oryza longistaminata	OLONG_001744	N	0.000
OLONG_022888	Oryza longistaminata	OLONG_022888	N	0.000
OLONG_028722	Oryza longistaminata	OLONG_028722	N	0.000
OMERI11G01480	Oryza meridionalis	OMERI11G01480	N	0.000
OMERI12G00120	Oryza meridionalis	OMERI12G00120	N	0.000
ONIVA03G16490	Oryza nivara	ONIVA03G16490	N	0.000
ONIVA11G01010	Oryza nivara	ONIVA11G01010	N	0.000
ONIVA12G00800	Oryza nivara	ONIVA12G00800	N	0.000
OPUNC03G15030	Oryza punctata	OPUNC03G15030	N	0.000
OPUNC11G00930	Oryza punctata	OPUNC11G00930	N	0.000
OPUNC12G00950	Oryza punctata	OPUNC12G00950	N	0.000
ORGLA03G0148400	Oryza glaberrima	ORGLA03G0148400	N	0.000
ORGLA11G0201600	Oryza glaberrima	ORGLA11G0201600	N	0.000
ORGLA12G0007100	Oryza glaberrima	ORGLA12G0007100	N	0.000
ORUFI03G16080	Oryza rufipogon	ORUFI03G16080	N	0.000
ORUFI11G01010	Oryza rufipogon	ORUFI11G01010	N	0.000
ORUFI12G01140	Oryza rufipogon	ORUFI12G01140	N	0.000
OS03G0321700	Oryza sativa	OS03G0321700	N	0.000
Pavir.Ca00178	Panicum virgatum	Pavir.Ca00178	N	0.000
Pavir.Ga02545	Panicum virgatum	Pavir.Ga02545	N	0.000
Pavir.Hb02025	Panicum virgatum	Pavir.Hb02025	N	0.000
Pavir.Ib01500	Panicum virgatum	Pavir.Ib01500	N	0.000
Pavir.J07662	Panicum virgatum	Pavir.J07662	I	0.000
Pavir.J18239	Panicum virgatum	Pavir.J18239	I	0.000
Pavir.J35902	Panicum virgatum	Pavir.J35902	I	0.000
Pavir.J41073	Panicum virgatum	Pavir.J41073	I	0.000
Sb01g036870	Sorghum bicolor	Sb01g036870	N	0.000
Sb05g001170	Sorghum bicolor	Sb05g001170	N	0.000
Si010706m.g	Setaria italica	Si010706m.g	N	0.000
Si024816m.g	Setaria italica	Si024816m.g	I	0.000
Si026670m.g	Setaria italica	Si026670m.g	N	0.000
Si027769m.g	Setaria italica	Si027769m.g	N	0.000
Si027946m.g	Setaria italica	Si027946m.g	N	0.000
Si027998m.g	Setaria italica	Si027998m.g	N	0.000
Si028270m.g	Setaria italica	Si028270m.g	N	0.000
Si039519m.g	Setaria italica	Si039519m.g	N	0.000
Traes_1AL_309623B48	Triticum aestivum	Traes_1AL_309623B48	N	0.000
Traes_1AL_B24F28600	Triticum aestivum	Traes_1AL_B24F28600	I	0.000
Traes_1BL_46340D685	Triticum aestivum	Traes_1BL_46340D685	N	0.000
Traes_1BL_B4AFDB663	Triticum aestivum	Traes_1BL_B4AFDB663	I	0.000
Traes_1DL_DFE1721E0	Triticum aestivum	Traes_1DL_DFE1721E0	N	0.000
Traes_4AS_70DF607CC	Triticum aestivum	Traes_4AS_70DF607CC	N	0.000
Traes_4BL_A8C6FBEB6	Triticum aestivum	Traes_4BL_A8C6FBEB6	N	0.000
Traes_4DL_3140A8240	Triticum aestivum	Traes_4DL_3140A8240	N	0.000
TRIUR3_06231	Triticum urartu	TRIUR3_06231	N	0.000
TRIUR3_22129	Triticum urartu	TRIUR3_22129	N	0.000
TRIUR3_34396	Triticum urartu	TRIUR3_34396	I	0.000

Sakowv30025789m.g (Saccoglossus kowalevskii) Paired box

TF Information

Directly determined binding motifs

Motifs from related TFs

DNA Binding Domains

Links

589 Related TFs

Sakowv30025789m.g **(Saccoglossus kowalevskii)
Paired box**