MKX.H13RSNP.0.PSGIB.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MKX.H13RSNP.0.PSGIB.D
Gene (human)	MKX (GeneCards)
Gene synonyms (human)	C10orf48, IRXL1
Gene (mouse)	Mkx
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	8
Consensus	nbRTGTWn
GC content	37.1%
Information content (bits; total / per base)	7.395 / 0.924
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + SMiLe-Seq + PBM
Aligned words	503
Previous names

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	Centrality, median	Centrality, best
Overall	2 (4)	0.632	0.651	0.438	0.46	0.575	0.579	14.49	14.854

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 5 experiments	median	0.907	0.867	0.855	0.809	0.763	0.734
overall, 5 experiments	best	0.977	0.962	0.962	0.942	0.928	0.903
Lysate, 2 experiments	median	0.939	0.911	0.899	0.863	0.823	0.795
Lysate, 2 experiments	best	0.971	0.954	0.942	0.917	0.883	0.856
IVT, 2 experiments	median	0.595	0.558	0.573	0.546	0.553	0.535
IVT, 2 experiments	best	0.611	0.568	0.586	0.555	0.563	0.542
GFPIVT, 1 experiments	median	0.977	0.962	0.962	0.942	0.928	0.903
GFPIVT, 1 experiments	best	0.977	0.962	0.962	0.942	0.928	0.903

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
Lysate, 2 experiments	median	202.151	0.597	0.898	0.743
Lysate, 2 experiments	best	216.699	0.603	0.911	0.764

SMiLE-Seq benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 1 experiments	median	0.579	0.548	0.553	0.535	0.538	0.526
Overall, 1 experiments	best	0.579	0.548	0.553	0.535	0.538	0.526

PBM benchmarking		auROC, QNZS	auPR, QNZS	auROC, SD	auPR, SD
Overall, 3 experiments	median	0.553	0.004	0.666	0.02
Overall, 3 experiments	best	0.553	0.004	0.717	0.025

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	TALE-type HD {3.1.4} (TFClass)
TF subfamily	MKX {3.1.4.3} (TFClass)
TFClass ID	TFClass: 3.1.4.3.1
HGNC	HGNC:23729
MGI	MGI:2687286
EntrezGene (human)	GeneID:283078 (SSTAR profile)
EntrezGene (mouse)	GeneID:210719 (SSTAR profile)
UniProt ID (human)	MKX_HUMAN
UniProt ID (mouse)	MKX_MOUSE
UniProt AC (human)	Q8IYA7 (TFClass)
UniProt AC (mouse)	Q8BIA3 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 0 mouse
HT-SELEX	5 overall: 2 Lysate, 2 IVT, 1 GFPIVT
Genomic HT-SELEX	2 overall: 2 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	1
PBM	3

PCM	MKX.H13RSNP.0.PSGIB.D.pcm
PWM	MKX.H13RSNP.0.PSGIB.D.pwm
PFM	MKX.H13RSNP.0.PSGIB.D.pfm
Threshold to P-value map	MKX.H13RSNP.0.PSGIB.D.thr
Motif in other formats
JASPAR format	MKX.H13RSNP.0.PSGIB.D_jaspar_format.txt
MEME format	MKX.H13RSNP.0.PSGIB.D_meme_format.meme
Transfac format	MKX.H13RSNP.0.PSGIB.D_transfac_format.txt
Homer format	MKX.H13RSNP.0.PSGIB.D_homer_format_0.001.txt MKX.H13RSNP.0.PSGIB.D_homer_format_0.0005.txt MKX.H13RSNP.0.PSGIB.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	166.0	113.0	111.0	113.0
02	53.0	277.0	59.0	114.0
03	297.0	34.0	99.0	73.0
04	0.0	0.0	0.0	503.0
05	0.0	0.0	503.0	0.0
06	0.0	0.0	24.0	479.0
07	310.0	16.0	0.0	177.0
08	140.0	137.0	120.0	106.0

PFM

	A	C	G	T
01	0.33	0.225	0.221	0.225
02	0.105	0.551	0.117	0.227
03	0.59	0.068	0.197	0.145
04	0.0	0.0	0.0	1.0
05	0.0	0.0	1.0	0.0
06	0.0	0.0	0.048	0.952
07	0.616	0.032	0.0	0.352
08	0.278	0.272	0.239	0.211

PWM

	A	C	G	T
01	0.275	-0.106	-0.123	-0.106
02	-0.847	0.783	-0.743	-0.097
03	0.852	-1.276	-0.236	-0.535
04	-4.405	-4.405	-4.405	1.377
05	-4.405	-4.405	1.377	-4.405
06	-4.405	-4.405	-1.606	1.328
07	0.895	-1.981	-4.405	0.338
08	0.106	0.085	-0.046	-0.169

Standard thresholds

P-value	Threshold
0.001	5.39262
0.0005	5.88682
0.0001	6.595325