IRX3.H12INVIVO.1.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRX3.H12INVIVO.1.S.D
Gene (human)	IRX3 (GeneCards)
Gene synonyms (human)	IRXB1
Gene (mouse)	Irx3
Gene synonyms (mouse)	Irxb1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	8
Consensus	nSRTGTWn
GC content	38.85%
Information content (bits; total / per base)	7.538 / 0.942
Data sources	HT-SELEX
Aligned words	9776

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.76	0.697	0.691	0.647	0.627	0.604
Overall, 4 experiments	best	0.893	0.849	0.846	0.796	0.752	0.723
Methyl HT-SELEX, 1 experiments	median	0.747	0.682	0.692	0.642	0.637	0.606
Methyl HT-SELEX, 1 experiments	best	0.747	0.682	0.692	0.642	0.637	0.606
Non-Methyl HT-SELEX, 3 experiments	median	0.772	0.712	0.689	0.652	0.617	0.603
Non-Methyl HT-SELEX, 3 experiments	best	0.893	0.849	0.846	0.796	0.752	0.723

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	IRX {3.1.4.1} (TFClass)
TFClass ID	TFClass: 3.1.4.1.3
HGNC	HGNC:14360
MGI	MGI:1197522
EntrezGene (human)	GeneID:79191 (SSTAR profile)
EntrezGene (mouse)	GeneID:16373 (SSTAR profile)
UniProt ID (human)	IRX3_HUMAN
UniProt ID (mouse)	IRX3_MOUSE
UniProt AC (human)	P78415 (TFClass)
UniProt AC (mouse)	P81067 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	IRX3.H12INVIVO.1.S.D.pcm
PWM	IRX3.H12INVIVO.1.S.D.pwm
PFM	IRX3.H12INVIVO.1.S.D.pfm
Alignment	IRX3.H12INVIVO.1.S.D.words.tsv
Threshold to P-value map	IRX3.H12INVIVO.1.S.D.thr
Motif in other formats
JASPAR format	IRX3.H12INVIVO.1.S.D_jaspar_format.txt
MEME format	IRX3.H12INVIVO.1.S.D_meme_format.meme
Transfac format	IRX3.H12INVIVO.1.S.D_transfac_format.txt
Homer format	IRX3.H12INVIVO.1.S.D_homer_format_0.001.txt IRX3.H12INVIVO.1.S.D_homer_format_0.0005.txt IRX3.H12INVIVO.1.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2425.5	1618.5	3151.5	2580.5
02	999.75	6141.75	1534.75	1099.75
03	6038.0	113.0	1849.0	1776.0
04	22.0	5.0	63.0	9686.0
05	3.0	4.0	9757.0	12.0
06	9.0	33.0	52.0	9682.0
07	3916.5	755.5	160.5	4943.5
08	3058.5	2938.5	2204.5	1574.5

PFM

	A	C	G	T
01	0.248	0.166	0.322	0.264
02	0.102	0.628	0.157	0.112
03	0.618	0.012	0.189	0.182
04	0.002	0.001	0.006	0.991
05	0.0	0.0	0.998	0.001
06	0.001	0.003	0.005	0.99
07	0.401	0.077	0.016	0.506
08	0.313	0.301	0.226	0.161

PWM

	A	C	G	T
01	-0.008	-0.412	0.254	0.054
02	-0.893	0.921	-0.465	-0.797
03	0.904	-3.055	-0.279	-0.319
04	-4.612	-5.815	-3.623	1.376
05	-6.135	-5.962	1.384	-5.142
06	-5.378	-4.239	-3.808	1.376
07	0.471	-1.172	-2.71	0.704
08	0.224	0.184	-0.103	-0.439

Standard thresholds

P-value	Threshold
0.001	5.426515
0.0005	5.901095
0.0001	6.858145