PAX4.H12INVIVO.1.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PAX4.H12INVIVO.1.S.D
Gene (human)	PAX4 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Pax4
Gene synonyms (mouse)	Pax-4
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	16
Consensus	nnYTAATTARYKMAWd
GC content	25.7%
Information content (bits; total / per base)	16.587 / 1.037
Data sources	HT-SELEX
Aligned words	667

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.684	0.652	0.605	0.592	0.555	0.557
Overall, 6 experiments	best	0.955	0.932	0.917	0.885	0.851	0.819
Methyl HT-SELEX, 1 experiments	median	0.955	0.932	0.917	0.885	0.851	0.819
Methyl HT-SELEX, 1 experiments	best	0.955	0.932	0.917	0.885	0.851	0.819
Non-Methyl HT-SELEX, 5 experiments	median	0.61	0.589	0.56	0.55	0.532	0.531
Non-Methyl HT-SELEX, 5 experiments	best	0.894	0.843	0.843	0.791	0.768	0.729

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Paired box factors {3.2} (TFClass)
TF family	PD+HD {3.2.1} (TFClass)
TF subfamily	PAX4-like {3.2.1.2} (TFClass)
TFClass ID	TFClass: 3.2.1.2.1
HGNC	HGNC:8618
MGI	MGI:97488
EntrezGene (human)
EntrezGene (mouse)	GeneID:18506 (SSTAR profile)
UniProt ID (human)	PAX4_HUMAN
UniProt ID (mouse)	PAX4_MOUSE
UniProt AC (human)	O43316 (TFClass)
UniProt AC (mouse)	P32115 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	5
Methyl-HT-SELEX	1

PCM	PAX4.H12INVIVO.1.S.D.pcm
PWM	PAX4.H12INVIVO.1.S.D.pwm
PFM	PAX4.H12INVIVO.1.S.D.pfm
Alignment	PAX4.H12INVIVO.1.S.D.words.tsv
Threshold to P-value map	PAX4.H12INVIVO.1.S.D.thr
Motif in other formats
JASPAR format	PAX4.H12INVIVO.1.S.D_jaspar_format.txt
MEME format	PAX4.H12INVIVO.1.S.D_meme_format.meme
Transfac format	PAX4.H12INVIVO.1.S.D_transfac_format.txt
Homer format	PAX4.H12INVIVO.1.S.D_homer_format_0.001.txt PAX4.H12INVIVO.1.S.D_homer_format_0.0005.txt PAX4.H12INVIVO.1.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	197.0	120.0	146.0	204.0
02	130.25	125.25	246.25	165.25
03	4.0	500.0	50.0	113.0
04	2.0	3.0	151.0	511.0
05	609.0	53.0	0.0	5.0
06	667.0	0.0	0.0	0.0
07	0.0	0.0	0.0	667.0
08	0.0	0.0	0.0	667.0
09	655.0	12.0	0.0	0.0
10	268.0	27.0	349.0	23.0
11	22.0	286.0	47.0	312.0
12	26.0	38.0	123.0	480.0
13	514.0	70.0	29.0	54.0
14	606.0	18.0	22.0	21.0
15	98.0	79.0	60.0	430.0
16	132.5	89.5	98.5	346.5

PFM

	A	C	G	T
01	0.295	0.18	0.219	0.306
02	0.195	0.188	0.369	0.248
03	0.006	0.75	0.075	0.169
04	0.003	0.004	0.226	0.766
05	0.913	0.079	0.0	0.007
06	1.0	0.0	0.0	0.0
07	0.0	0.0	0.0	1.0
08	0.0	0.0	0.0	1.0
09	0.982	0.018	0.0	0.0
10	0.402	0.04	0.523	0.034
11	0.033	0.429	0.07	0.468
12	0.039	0.057	0.184	0.72
13	0.771	0.105	0.043	0.081
14	0.909	0.027	0.033	0.031
15	0.147	0.118	0.09	0.645
16	0.199	0.134	0.148	0.519

PWM

	A	C	G	T
01	0.165	-0.325	-0.132	0.2
02	-0.244	-0.283	0.387	-0.009
03	-3.399	1.092	-1.182	-0.385
04	-3.838	-3.595	-0.098	1.113
05	1.288	-1.126	-4.64	-3.235
06	1.379	-4.64	-4.64	-4.64
07	-4.64	-4.64	-4.64	1.379
08	-4.64	-4.64	-4.64	1.379
09	1.361	-2.514	-4.64	-4.64
10	0.471	-1.772	0.734	-1.922
11	-1.964	0.535	-1.242	0.622
12	-1.807	-1.447	-0.301	1.051
13	1.119	-0.855	-1.704	-1.108
14	1.283	-2.149	-1.964	-2.007
15	-0.525	-0.736	-1.005	0.941
16	-0.227	-0.614	-0.52	0.726

Standard thresholds

P-value	Threshold
0.001	1.80956
0.0005	3.19536
0.0001	6.06846