ALX3.H12RSNP.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ALX3.H12RSNP.1.S.B
Gene (human)	ALX3 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Alx3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	20
Consensus	nnvbTAATTARWTWAvbnnn
GC content	29.22%
Information content (bits; total / per base)	17.66 / 0.883
Data sources	HT-SELEX
Aligned words	306

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.954	0.921	0.938	0.901	0.887	0.855
Overall, 8 experiments	best	0.985	0.973	0.976	0.961	0.943	0.925
Methyl HT-SELEX, 2 experiments	median	0.943	0.903	0.922	0.88	0.878	0.836
Methyl HT-SELEX, 2 experiments	best	0.954	0.921	0.936	0.899	0.893	0.855
Non-Methyl HT-SELEX, 6 experiments	median	0.961	0.933	0.943	0.911	0.893	0.861
Non-Methyl HT-SELEX, 6 experiments	best	0.985	0.973	0.976	0.961	0.943	0.925

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.982	0.149	0.972	0.659
batch 2	0.794	0.59	0.804	0.589

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	ALX {3.1.3.1} (TFClass)
TFClass ID	TFClass: 3.1.3.1.2
HGNC	HGNC:449
MGI	MGI:1277097
EntrezGene (human)	GeneID:257 (SSTAR profile)
EntrezGene (mouse)	GeneID:11694 (SSTAR profile)
UniProt ID (human)	ALX3_HUMAN
UniProt ID (mouse)	ALX3_MOUSE
UniProt AC (human)	O95076 (TFClass)
UniProt AC (mouse)	O70137 (TFClass)
GRECO-DB-TF	yes

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

PCM	ALX3.H12RSNP.1.S.B.pcm
PWM	ALX3.H12RSNP.1.S.B.pwm
PFM	ALX3.H12RSNP.1.S.B.pfm
Alignment	ALX3.H12RSNP.1.S.B.words.tsv
Threshold to P-value map	ALX3.H12RSNP.1.S.B.thr
Motif in other formats
JASPAR format	ALX3.H12RSNP.1.S.B_jaspar_format.txt
MEME format	ALX3.H12RSNP.1.S.B_meme_format.meme
Transfac format	ALX3.H12RSNP.1.S.B_transfac_format.txt
Homer format	ALX3.H12RSNP.1.S.B_homer_format_0.001.txt ALX3.H12RSNP.1.S.B_homer_format_0.0005.txt ALX3.H12RSNP.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	63.75	88.75	98.75	54.75
02	89.25	91.25	83.25	42.25
03	84.0	79.0	108.0	35.0
04	15.0	138.0	42.0	111.0
05	1.0	2.0	0.0	303.0
06	306.0	0.0	0.0	0.0
07	306.0	0.0	0.0	0.0
08	0.0	0.0	0.0	306.0
09	0.0	0.0	0.0	306.0
10	287.0	2.0	13.0	4.0
11	144.0	5.0	157.0	0.0
12	201.0	26.0	11.0	68.0
13	5.0	20.0	10.0	271.0
14	45.0	20.0	15.0	226.0
15	286.0	1.0	9.0	10.0
16	132.0	47.0	81.0	46.0
17	34.0	83.0	57.0	132.0
18	53.0	78.0	78.0	97.0
19	81.25	77.25	95.25	52.25
20	72.25	87.25	84.25	62.25

PFM

	A	C	G	T
01	0.208	0.29	0.323	0.179
02	0.292	0.298	0.272	0.138
03	0.275	0.258	0.353	0.114
04	0.049	0.451	0.137	0.363
05	0.003	0.007	0.0	0.99
06	1.0	0.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.0	0.0	1.0
10	0.938	0.007	0.042	0.013
11	0.471	0.016	0.513	0.0
12	0.657	0.085	0.036	0.222
13	0.016	0.065	0.033	0.886
14	0.147	0.065	0.049	0.739
15	0.935	0.003	0.029	0.033
16	0.431	0.154	0.265	0.15
17	0.111	0.271	0.186	0.431
18	0.173	0.255	0.255	0.317
19	0.266	0.252	0.311	0.171
20	0.236	0.285	0.275	0.203

PWM

	A	C	G	T
01	-0.179	0.146	0.251	-0.327
02	0.152	0.173	0.083	-0.579
03	0.092	0.032	0.339	-0.76
04	-1.557	0.582	-0.585	0.367
05	-3.468	-3.123	-3.998	1.363
06	1.372	-3.998	-3.998	-3.998
07	1.372	-3.998	-3.998	-3.998
08	-3.998	-3.998	-3.998	1.372
09	-3.998	-3.998	-3.998	1.372
10	1.309	-3.123	-1.686	-2.664
11	0.624	-2.495	0.709	-3.998
12	0.955	-1.044	-1.836	-0.115
13	-2.495	-1.291	-1.92	1.252
14	-0.518	-1.291	-1.557	1.071
15	1.305	-3.468	-2.011	-1.92
16	0.538	-0.476	0.056	-0.497
17	-0.788	0.08	-0.288	0.538
18	-0.359	0.019	0.019	0.234
19	0.059	0.01	0.216	-0.373
20	-0.056	0.129	0.095	-0.202

Standard thresholds

P-value	Threshold
0.001	1.47636
0.0005	2.85436
0.0001	5.75096