SP4.H12INVIVO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SP4.H12INVIVO.1.S.B
Gene (human)	SP4 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Sp4
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	12
Consensus	nddGGGCGTGdn
GC content	68.15%
Information content (bits; total / per base)	11.718 / 0.976
Data sources	HT-SELEX
Aligned words	1508

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	2 (12)	0.74	0.824	0.603	0.706	0.754	0.831	2.412	2.907	20.211	59.229

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.583	0.576	0.546	0.543	0.525	0.526
Non-Methyl HT-SELEX, 2 experiments	best	0.589	0.585	0.548	0.547	0.526	0.529

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: 2.3.1.1.4
HGNC	HGNC:11209
MGI	MGI:107595
EntrezGene (human)	GeneID:6671 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	SP4_HUMAN
UniProt ID (mouse)	SP4_MOUSE
UniProt AC (human)	Q02446 (TFClass)
UniProt AC (mouse)	Q62445 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 0 mouse
HT-SELEX	2
Methyl-HT-SELEX	0

PCM	SP4.H12INVIVO.1.S.B.pcm
PWM	SP4.H12INVIVO.1.S.B.pwm
PFM	SP4.H12INVIVO.1.S.B.pfm
Alignment	SP4.H12INVIVO.1.S.B.words.tsv
Threshold to P-value map	SP4.H12INVIVO.1.S.B.thr
Motif in other formats
JASPAR format	SP4.H12INVIVO.1.S.B_jaspar_format.txt
MEME format	SP4.H12INVIVO.1.S.B_meme_format.meme
Transfac format	SP4.H12INVIVO.1.S.B_transfac_format.txt
Homer format	SP4.H12INVIVO.1.S.B_homer_format_0.001.txt SP4.H12INVIVO.1.S.B_homer_format_0.0005.txt SP4.H12INVIVO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	429.0	248.0	454.0	377.0
02	431.75	153.75	704.75	217.75
03	274.0	55.0	463.0	716.0
04	150.0	15.0	1263.0	80.0
05	19.0	106.0	1359.0	24.0
06	1.0	0.0	1504.0	3.0
07	28.0	1480.0	0.0	0.0
08	21.0	0.0	1487.0	0.0
09	63.0	3.0	138.0	1304.0
10	154.0	10.0	1238.0	106.0
11	340.75	69.75	808.75	288.75
12	306.5	411.5	361.5	428.5

PFM

	A	C	G	T
01	0.284	0.164	0.301	0.25
02	0.286	0.102	0.467	0.144
03	0.182	0.036	0.307	0.475
04	0.099	0.01	0.838	0.053
05	0.013	0.07	0.901	0.016
06	0.001	0.0	0.997	0.002
07	0.019	0.981	0.0	0.0
08	0.014	0.0	0.986	0.0
09	0.042	0.002	0.092	0.865
10	0.102	0.007	0.821	0.07
11	0.226	0.046	0.536	0.191
12	0.203	0.273	0.24	0.284

PWM

	A	C	G	T
01	0.129	-0.416	0.185	0.0
02	0.135	-0.89	0.623	-0.545
03	-0.317	-1.897	0.205	0.639
04	-0.914	-3.114	1.206	-1.532
05	-2.901	-1.257	1.279	-2.686
06	-4.897	-5.333	1.38	-4.362
07	-2.542	1.364	-5.333	-5.333
08	-2.809	-5.333	1.369	-5.333
09	-1.765	-4.362	-0.997	1.238
10	-0.888	-3.466	1.186	-1.257
11	-0.101	-1.666	0.761	-0.265
12	-0.206	0.087	-0.042	0.127

Standard thresholds

P-value	Threshold
0.001	4.17006
0.0005	5.24631
0.0001	7.375815