PRRX2.H12INVITRO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PRRX2.H12INVITRO.1.S.B
Gene (human)	PRRX2 (GeneCards)
Gene synonyms (human)	PMX2, PRX2
Gene (mouse)	Prrx2
Gene synonyms (mouse)	Prx2, S8
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	15
Consensus	nvbTAATTARhKdRn
GC content	26.86%
Information content (bits; total / per base)	14.458 / 0.964
Data sources	HT-SELEX
Aligned words	1648

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.93	0.889	0.877	0.843	0.751	0.743
Overall, 8 experiments	best	0.994	0.99	0.992	0.987	0.985	0.977
Methyl HT-SELEX, 2 experiments	median	0.955	0.926	0.928	0.9	0.883	0.861
Methyl HT-SELEX, 2 experiments	best	0.994	0.99	0.992	0.987	0.985	0.977
Non-Methyl HT-SELEX, 6 experiments	median	0.93	0.889	0.844	0.825	0.69	0.708
Non-Methyl HT-SELEX, 6 experiments	best	0.97	0.946	0.962	0.935	0.946	0.916

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.868	0.766	0.834	0.584

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	Paired-related HD {3.1.3} (TFClass)
TF subfamily	PRRX {3.1.3.21} (TFClass)
TFClass ID	TFClass: 3.1.3.21.2
HGNC	HGNC:21338
MGI	MGI:98218
EntrezGene (human)	GeneID:51450 (SSTAR profile)
EntrezGene (mouse)	GeneID:20204 (SSTAR profile)
UniProt ID (human)	PRRX2_HUMAN
UniProt ID (mouse)	PRRX2_MOUSE
UniProt AC (human)	Q99811 (TFClass)
UniProt AC (mouse)	Q06348 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	6
Methyl-HT-SELEX	2

PCM	PRRX2.H12INVITRO.1.S.B.pcm
PWM	PRRX2.H12INVITRO.1.S.B.pwm
PFM	PRRX2.H12INVITRO.1.S.B.pfm
Alignment	PRRX2.H12INVITRO.1.S.B.words.tsv
Threshold to P-value map	PRRX2.H12INVITRO.1.S.B.thr
Motif in other formats
JASPAR format	PRRX2.H12INVITRO.1.S.B_jaspar_format.txt
MEME format	PRRX2.H12INVITRO.1.S.B_meme_format.meme
Transfac format	PRRX2.H12INVITRO.1.S.B_transfac_format.txt
Homer format	PRRX2.H12INVITRO.1.S.B_homer_format_0.001.txt PRRX2.H12INVITRO.1.S.B_homer_format_0.0005.txt PRRX2.H12INVITRO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	303.5	536.5	360.5	447.5
02	301.5	483.5	612.5	250.5
03	77.0	839.0	320.0	412.0
04	3.0	57.0	1.0	1587.0
05	1647.0	0.0	1.0	0.0
06	1648.0	0.0	0.0	0.0
07	0.0	0.0	0.0	1648.0
08	0.0	0.0	1.0	1647.0
09	1458.0	1.0	187.0	2.0
10	704.0	34.0	909.0	1.0
11	691.0	211.0	171.0	575.0
12	23.0	229.0	233.0	1163.0
13	381.0	174.0	276.0	817.0
14	1149.75	138.75	186.75	172.75
15	532.5	266.5	410.5	438.5

PFM

	A	C	G	T
01	0.184	0.326	0.219	0.272
02	0.183	0.293	0.372	0.152
03	0.047	0.509	0.194	0.25
04	0.002	0.035	0.001	0.963
05	0.999	0.0	0.001	0.0
06	1.0	0.0	0.0	0.0
07	0.0	0.0	0.0	1.0
08	0.0	0.0	0.001	0.999
09	0.885	0.001	0.113	0.001
10	0.427	0.021	0.552	0.001
11	0.419	0.128	0.104	0.349
12	0.014	0.139	0.141	0.706
13	0.231	0.106	0.167	0.496
14	0.698	0.084	0.113	0.105
15	0.323	0.162	0.249	0.266

PWM

	A	C	G	T
01	-0.304	0.263	-0.133	0.082
02	-0.311	0.159	0.395	-0.495
03	-1.658	0.709	-0.251	0.0
04	-4.446	-1.95	-4.978	1.345
05	1.382	-5.409	-4.978	-5.409
06	1.383	-5.409	-5.409	-5.409
07	-5.409	-5.409	-5.409	1.383
08	-5.409	-5.409	-4.978	1.382
09	1.261	-4.978	-0.785	-4.677
10	0.534	-2.446	0.789	-4.978
11	0.515	-0.665	-0.873	0.332
12	-2.813	-0.584	-0.567	1.035
13	-0.078	-0.856	-0.398	0.682
14	1.023	-1.08	-0.786	-0.863
15	0.256	-0.433	-0.004	0.062

Standard thresholds

P-value	Threshold
0.001	2.00606
0.0005	3.42151
0.0001	6.76631