ALX3.H12INVITRO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ALX3.H12INVITRO.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	nnvbTAATTARvKYRnnnnn
GC content	33.87%
Information content (bits; total / per base)	14.876 / 0.744
Data sources	HT-SELEX
Aligned words	1508

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.961	0.933	0.947	0.915	0.896	0.866
Overall, 8 experiments	best	0.985	0.973	0.978	0.963	0.949	0.931
Methyl HT-SELEX, 2 experiments	median	0.951	0.916	0.932	0.894	0.89	0.851
Methyl HT-SELEX, 2 experiments	best	0.961	0.933	0.945	0.913	0.904	0.87
Non-Methyl HT-SELEX, 6 experiments	median	0.965	0.94	0.949	0.92	0.902	0.872
Non-Methyl HT-SELEX, 6 experiments	best	0.985	0.973	0.978	0.963	0.949	0.931

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.988	0.348	0.958	0.521
batch 2	0.791	0.614	0.786	0.567

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.H12INVITRO.1.S.B.pcm
PWM	ALX3.H12INVITRO.1.S.B.pwm
PFM	ALX3.H12INVITRO.1.S.B.pfm
Alignment	ALX3.H12INVITRO.1.S.B.words.tsv
Threshold to P-value map	ALX3.H12INVITRO.1.S.B.thr
Motif in other formats
JASPAR format	ALX3.H12INVITRO.1.S.B_jaspar_format.txt
MEME format	ALX3.H12INVITRO.1.S.B_meme_format.meme
Transfac format	ALX3.H12INVITRO.1.S.B_transfac_format.txt
Homer format	ALX3.H12INVITRO.1.S.B_homer_format_0.001.txt ALX3.H12INVITRO.1.S.B_homer_format_0.0005.txt ALX3.H12INVITRO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	351.5	445.5	433.5	277.5
02	380.25	505.25	391.25	231.25
03	313.0	417.0	561.0	217.0
04	133.0	624.0	240.0	511.0
05	18.0	43.0	11.0	1436.0
06	1502.0	0.0	6.0	0.0
07	1508.0	0.0	0.0	0.0
08	0.0	0.0	0.0	1508.0
09	0.0	9.0	0.0	1499.0
10	1286.0	25.0	168.0	29.0
11	710.0	90.0	703.0	5.0
12	883.0	220.0	229.0	176.0
13	60.0	107.0	129.0	1212.0
14	157.0	178.0	91.0	1082.0
15	1116.0	131.0	152.0	109.0
16	467.0	316.0	430.0	295.0
17	270.0	437.0	375.0	426.0
18	280.0	416.0	465.0	347.0
19	287.25	469.25	478.25	273.25
20	277.0	470.0	448.0	313.0

PFM

	A	C	G	T
01	0.233	0.295	0.287	0.184
02	0.252	0.335	0.259	0.153
03	0.208	0.277	0.372	0.144
04	0.088	0.414	0.159	0.339
05	0.012	0.029	0.007	0.952
06	0.996	0.0	0.004	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.006	0.0	0.994
10	0.853	0.017	0.111	0.019
11	0.471	0.06	0.466	0.003
12	0.586	0.146	0.152	0.117
13	0.04	0.071	0.086	0.804
14	0.104	0.118	0.06	0.718
15	0.74	0.087	0.101	0.072
16	0.31	0.21	0.285	0.196
17	0.179	0.29	0.249	0.282
18	0.186	0.276	0.308	0.23
19	0.19	0.311	0.317	0.181
20	0.184	0.312	0.297	0.208

PWM

	A	C	G	T
01	-0.07	0.166	0.139	-0.305
02	0.009	0.292	0.037	-0.486
03	-0.185	0.1	0.396	-0.549
04	-1.033	0.502	-0.449	0.303
05	-2.95	-2.134	-3.385	1.334
06	1.379	-5.333	-3.879	-5.333
07	1.383	-5.333	-5.333	-5.333
08	-5.333	-5.333	-5.333	1.383
09	-5.333	-3.555	-5.333	1.377
10	1.224	-2.648	-0.802	-2.509
11	0.631	-1.417	0.621	-4.016
12	0.848	-0.535	-0.495	-0.756
13	-1.813	-1.247	-1.063	1.164
14	-0.869	-0.745	-1.406	1.051
15	1.082	-1.048	-0.901	-1.229
16	0.213	-0.176	0.131	-0.244
17	-0.332	0.147	-0.005	0.122
18	-0.296	0.098	0.209	-0.083
19	-0.27	0.218	0.237	-0.32
20	-0.306	0.22	0.172	-0.185

Standard thresholds

P-value	Threshold
0.001	2.44491
0.0005	3.81891
0.0001	6.63271