SP1.H14INVITRO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SP1.H14INVITRO.1.SM.B
Gene (human)	SP1 (GeneCards)
Gene synonyms (human)	TSFP1
Gene (mouse)	Sp1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	15
Consensus	RKGGGCGTGGCYWvn
GC content	68.87%
Information content (bits; total / per base)	19.107 / 1.274
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	7827
Previous names	SP1.H12INVITRO.1.SM.B

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Human	14 (91)	0.865	0.95	0.753	0.885	0.889	0.965	3.728	4.635	56.167	157.678
Mouse	10 (52)	0.888	0.954	0.793	0.898	0.878	0.95	3.921	4.537	52.459	135.796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	1.0	0.999	0.979	0.979	0.771	0.813
Overall, 3 experiments	best	1.0	0.999	0.988	0.986	0.787	0.827
Methyl HT-SELEX, 1 experiments	median	1.0	0.999	0.988	0.986	0.787	0.827
Methyl HT-SELEX, 1 experiments	best	1.0	0.999	0.988	0.986	0.787	0.827
Non-Methyl HT-SELEX, 2 experiments	median	0.995	0.992	0.966	0.961	0.76	0.8
Non-Methyl HT-SELEX, 2 experiments	best	1.0	0.999	0.979	0.979	0.771	0.813

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.2	0.431	0.033	0.015

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	Three-zinc finger Kruppel-related {2.3.1} (TFClass)
TF subfamily	Sp1-like {2.3.1.1} (TFClass)
TFClass ID	TFClass: 2.3.1.1.1
HGNC	HGNC:11205
MGI	MGI:98372
EntrezGene (human)	GeneID:6667 (SSTAR profile)
EntrezGene (mouse)	GeneID:20683 (SSTAR profile)
UniProt ID (human)	SP1_HUMAN
UniProt ID (mouse)	SP1_MOUSE
UniProt AC (human)	P08047 (TFClass)
UniProt AC (mouse)	O89090 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	14 human, 10 mouse
HT-SELEX	2
Methyl-HT-SELEX	1
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	SP1.H14INVITRO.1.SM.B.pcm
PWM	SP1.H14INVITRO.1.SM.B.pwm
PFM	SP1.H14INVITRO.1.SM.B.pfm
Threshold to P-value map	SP1.H14INVITRO.1.SM.B.thr
Motif in other formats
JASPAR format	SP1.H14INVITRO.1.SM.B_jaspar_format.txt
MEME format	SP1.H14INVITRO.1.SM.B_meme_format.meme
Transfac format	SP1.H14INVITRO.1.SM.B_transfac_format.txt
Homer format	SP1.H14INVITRO.1.SM.B_homer_format_0.001.txt SP1.H14INVITRO.1.SM.B_homer_format_0.0005.txt SP1.H14INVITRO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1788.0	562.0	4848.0	629.0
02	619.25	477.25	3071.25	3659.25
03	166.0	1.0	7658.0	2.0
04	1.0	1.0	7825.0	0.0
05	1.0	0.0	7826.0	0.0
06	30.0	7747.0	0.0	50.0
07	0.0	0.0	7826.0	1.0
08	0.0	0.0	958.0	6869.0
09	662.0	2.0	7161.0	2.0
10	21.0	9.0	7724.0	73.0
11	25.0	7076.0	18.0	708.0
12	83.0	3333.0	76.0	4335.0
13	2552.0	90.0	112.0	5073.0
14	3822.0	1357.0	1412.0	1236.0
15	1959.25	1424.25	2261.25	2182.25

PFM

	A	C	G	T
01	0.228	0.072	0.619	0.08
02	0.079	0.061	0.392	0.468
03	0.021	0.0	0.978	0.0
04	0.0	0.0	1.0	0.0
05	0.0	0.0	1.0	0.0
06	0.004	0.99	0.0	0.006
07	0.0	0.0	1.0	0.0
08	0.0	0.0	0.122	0.878
09	0.085	0.0	0.915	0.0
10	0.003	0.001	0.987	0.009
11	0.003	0.904	0.002	0.09
12	0.011	0.426	0.01	0.554
13	0.326	0.011	0.014	0.648
14	0.488	0.173	0.18	0.158
15	0.25	0.182	0.289	0.279

PWM

	A	C	G	T
01	-0.09	-1.245	0.907	-1.132
02	-1.148	-1.407	0.45	0.625
03	-2.455	-6.404	1.364	-6.135
04	-6.404	-6.404	1.385	-6.773
05	-6.404	-6.773	1.385	-6.773
06	-4.107	1.375	-6.773	-3.624
07	-6.773	-6.773	1.385	-6.404
08	-6.773	-6.773	-0.713	1.255
09	-1.082	-6.135	1.297	-6.135
10	-4.434	-5.161	1.372	-3.259
11	-4.275	1.285	-4.572	-1.015
12	-3.135	0.532	-3.22	0.795
13	0.265	-3.056	-2.842	0.952
14	0.669	-0.366	-0.326	-0.459
15	0.001	-0.317	0.144	0.109

Standard thresholds

P-value	Threshold
0.001	-2.85939
0.0005	-0.87749
0.0001	3.28766