MIXL1.H13RSNP.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MIXL1.H13RSNP.1.S.B
Gene (human)	MIXL1 (GeneCards)
Gene synonyms (human)	MIXL
Gene (mouse)	Mixl1
Gene synonyms (mouse)	Mix, Mml
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	12
Consensus	nnTAATTARbbn
GC content	26.21%
Information content (bits; total / per base)	11.701 / 0.975
Data sources	HT-SELEX
Aligned words	8611
Previous names	MIXL1.H12RSNP.1.S.B

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.975	0.954	0.961	0.938	0.916	0.894
Overall, 4 experiments	best	0.992	0.983	0.987	0.978	0.972	0.96
Methyl HT-SELEX, 1 experiments	median	0.982	0.966	0.978	0.961	0.965	0.946
Methyl HT-SELEX, 1 experiments	best	0.982	0.966	0.978	0.961	0.965	0.946
Non-Methyl HT-SELEX, 3 experiments	median	0.967	0.943	0.944	0.916	0.866	0.843
Non-Methyl HT-SELEX, 3 experiments	best	0.992	0.983	0.987	0.978	0.972	0.96

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.864	0.128	0.831	0.55
batch 2	0.7	0.39	0.661	0.505

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	MIX {3.1.3.14} (TFClass)
TFClass ID	TFClass: 3.1.3.14.1
HGNC	HGNC:13363
MGI	MGI:1351322
EntrezGene (human)	GeneID:83881 (SSTAR profile)
EntrezGene (mouse)	GeneID:27217 (SSTAR profile)
UniProt ID (human)	MIXL1_HUMAN
UniProt ID (mouse)	MIXL1_MOUSE
UniProt AC (human)	Q9H2W2 (TFClass)
UniProt AC (mouse)	Q9WUI0 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	MIXL1.H13RSNP.1.S.B.pcm
PWM	MIXL1.H13RSNP.1.S.B.pwm
PFM	MIXL1.H13RSNP.1.S.B.pfm
Threshold to P-value map	MIXL1.H13RSNP.1.S.B.thr
Motif in other formats
JASPAR format	MIXL1.H13RSNP.1.S.B_jaspar_format.txt
MEME format	MIXL1.H13RSNP.1.S.B_meme_format.meme
Transfac format	MIXL1.H13RSNP.1.S.B_transfac_format.txt
Homer format	MIXL1.H13RSNP.1.S.B_homer_format_0.001.txt MIXL1.H13RSNP.1.S.B_homer_format_0.0005.txt MIXL1.H13RSNP.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2267.75	1929.75	1763.75	2649.75
02	1420.0	1904.0	2182.0	3105.0
03	190.0	1559.0	154.0	6708.0
04	7973.0	65.0	570.0	3.0
05	8611.0	0.0	0.0	0.0
06	0.0	0.0	0.0	8611.0
07	0.0	0.0	0.0	8611.0
08	8611.0	0.0	0.0	0.0
09	3483.0	412.0	4692.0	24.0
10	1260.0	2934.0	1427.0	2990.0
11	1209.5	1730.5	2221.5	3449.5
12	2341.25	1880.25	1655.25	2734.25

PFM

	A	C	G	T
01	0.263	0.224	0.205	0.308
02	0.165	0.221	0.253	0.361
03	0.022	0.181	0.018	0.779
04	0.926	0.008	0.066	0.0
05	1.0	0.0	0.0	0.0
06	0.0	0.0	0.0	1.0
07	0.0	0.0	0.0	1.0
08	1.0	0.0	0.0	0.0
09	0.404	0.048	0.545	0.003
10	0.146	0.341	0.166	0.347
11	0.14	0.201	0.258	0.401
12	0.272	0.218	0.192	0.318

PWM

	A	C	G	T
01	0.052	-0.109	-0.199	0.208
02	-0.416	-0.123	0.013	0.366
03	-2.417	-0.322	-2.624	1.136
04	1.309	-3.467	-1.326	-6.014
05	1.386	-6.858	-6.858	-6.858
06	-6.858	-6.858	-6.858	1.386
07	-6.858	-6.858	-6.858	1.386
08	1.386	-6.858	-6.858	-6.858
09	0.481	-1.649	0.779	-4.407
10	-0.535	0.309	-0.411	0.328
11	-0.576	-0.218	0.031	0.471
12	0.084	-0.135	-0.262	0.239

Standard thresholds

P-value	Threshold
0.001	3.40232
0.0005	5.135795
0.0001	7.93482