ALX4.H12INVITRO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ALX4.H12INVITRO.1.SM.B
Gene (human)	ALX4 (GeneCards)
Gene synonyms (human)	KIAA1788
Gene (mouse)	Alx4
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	13
Consensus	nvvYTAATTRvnn
GC content	33.41%
Information content (bits; total / per base)	11.332 / 0.872
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	2350

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.978	0.963	0.962	0.942	0.906	0.881
Overall, 6 experiments	best	0.988	0.979	0.981	0.969	0.973	0.957
Methyl HT-SELEX, 1 experiments	median	0.937	0.896	0.917	0.872	0.885	0.838
Methyl HT-SELEX, 1 experiments	best	0.937	0.896	0.917	0.872	0.885	0.838
Non-Methyl HT-SELEX, 5 experiments	median	0.98	0.967	0.965	0.946	0.907	0.888
Non-Methyl HT-SELEX, 5 experiments	best	0.988	0.979	0.981	0.969	0.973	0.957

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: 3.1.3.1.3
HGNC	HGNC:450
MGI	MGI:108359
EntrezGene (human)	GeneID:60529 (SSTAR profile)
EntrezGene (mouse)	GeneID:11695 (SSTAR profile)
UniProt ID (human)	ALX4_HUMAN
UniProt ID (mouse)	ALX4_MOUSE
UniProt AC (human)	Q9H161 (TFClass)
UniProt AC (mouse)	O35137 (TFClass)
GRECO-DB-TF	yes

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

PCM	ALX4.H12INVITRO.1.SM.B.pcm
PWM	ALX4.H12INVITRO.1.SM.B.pwm
PFM	ALX4.H12INVITRO.1.SM.B.pfm
Alignment	ALX4.H12INVITRO.1.SM.B.words.tsv
Threshold to P-value map	ALX4.H12INVITRO.1.SM.B.thr
Motif in other formats
JASPAR format	ALX4.H12INVITRO.1.SM.B_jaspar_format.txt
MEME format	ALX4.H12INVITRO.1.SM.B_meme_format.meme
Transfac format	ALX4.H12INVITRO.1.SM.B_transfac_format.txt
Homer format	ALX4.H12INVITRO.1.SM.B_homer_format_0.001.txt ALX4.H12INVITRO.1.SM.B_homer_format_0.0005.txt ALX4.H12INVITRO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	784.0	392.0	552.0	622.0
02	755.75	884.75	470.75	238.75
03	537.0	682.0	994.0	137.0
04	11.0	1113.0	165.0	1061.0
05	0.0	2.0	0.0	2348.0
06	2350.0	0.0	0.0	0.0
07	2350.0	0.0	0.0	0.0
08	0.0	5.0	0.0	2345.0
09	6.0	219.0	131.0	1994.0
10	1519.0	71.0	731.0	29.0
11	453.0	772.0	825.0	300.0
12	385.0	611.0	701.0	653.0
13	531.25	463.25	422.25	933.25

PFM

	A	C	G	T
01	0.334	0.167	0.235	0.265
02	0.322	0.376	0.2	0.102
03	0.229	0.29	0.423	0.058
04	0.005	0.474	0.07	0.451
05	0.0	0.001	0.0	0.999
06	1.0	0.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.002	0.0	0.998
09	0.003	0.093	0.056	0.849
10	0.646	0.03	0.311	0.012
11	0.193	0.329	0.351	0.128
12	0.164	0.26	0.298	0.278
13	0.226	0.197	0.18	0.397

PWM

	A	C	G	T
01	0.288	-0.403	-0.062	0.057
02	0.251	0.408	-0.221	-0.896
03	-0.09	0.149	0.525	-1.445
04	-3.819	0.637	-1.262	0.59
05	-5.716	-5.008	-5.716	1.383
06	1.384	-5.716	-5.716	-5.716
07	1.384	-5.716	-5.716	-5.716
08	-5.716	-4.442	-5.716	1.382
09	-4.307	-0.981	-1.489	1.22
10	0.948	-2.09	0.218	-2.947
11	-0.259	0.272	0.339	-0.669
12	-0.421	0.039	0.176	0.105
13	-0.1	-0.237	-0.329	0.462

Standard thresholds

P-value	Threshold
0.001	4.029815
0.0005	5.53711
0.0001	7.80446