IRX5.H12RSNP.0.M.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRX5.H12RSNP.0.M.D
Gene (human)	IRX5 (GeneCards)
Gene synonyms (human)	IRX2A, IRXB2
Gene (mouse)	Irx5
Gene synonyms (mouse)	Irxb2
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	11
Consensus	nRCGCGTWAvn
GC content	51.47%
Information content (bits; total / per base)	10.69 / 0.972
Data sources	Methyl-HT-SELEX
Aligned words	1393

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.879	0.807	0.868	0.798	0.84	0.775
Overall, 6 experiments	best	0.928	0.886	0.902	0.854	0.87	0.82
Methyl HT-SELEX, 2 experiments	median	0.925	0.884	0.897	0.848	0.859	0.809
Methyl HT-SELEX, 2 experiments	best	0.928	0.886	0.902	0.854	0.87	0.82
Non-Methyl HT-SELEX, 4 experiments	median	0.829	0.75	0.803	0.732	0.757	0.701
Non-Methyl HT-SELEX, 4 experiments	best	0.888	0.82	0.88	0.812	0.851	0.787

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: 3.1.4.1.5
HGNC	HGNC:14361
MGI	MGI:1859086
EntrezGene (human)	GeneID:10265 (SSTAR profile)
EntrezGene (mouse)	GeneID:54352 (SSTAR profile)
UniProt ID (human)	IRX5_HUMAN
UniProt ID (mouse)	IRX5_MOUSE
UniProt AC (human)	P78411 (TFClass)
UniProt AC (mouse)	Q9JKQ4 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	4
Methyl-HT-SELEX	2

PCM	IRX5.H12RSNP.0.M.D.pcm
PWM	IRX5.H12RSNP.0.M.D.pwm
PFM	IRX5.H12RSNP.0.M.D.pfm
Alignment	IRX5.H12RSNP.0.M.D.words.tsv
Threshold to P-value map	IRX5.H12RSNP.0.M.D.thr
Motif in other formats
JASPAR format	IRX5.H12RSNP.0.M.D_jaspar_format.txt
MEME format	IRX5.H12RSNP.0.M.D_meme_format.meme
Transfac format	IRX5.H12RSNP.0.M.D_transfac_format.txt
Homer format	IRX5.H12RSNP.0.M.D_homer_format_0.001.txt IRX5.H12RSNP.0.M.D_homer_format_0.0005.txt IRX5.H12RSNP.0.M.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	393.5	359.5	254.5	385.5
02	844.25	66.25	250.25	232.25
03	0.0	1332.0	0.0	61.0
04	433.0	0.0	942.0	18.0
05	0.0	1107.0	0.0	286.0
06	0.0	0.0	1393.0	0.0
07	0.0	0.0	0.0	1393.0
08	725.0	40.0	0.0	628.0
09	999.0	363.0	31.0	0.0
10	327.75	691.75	265.75	107.75
11	359.5	339.5	451.5	242.5

PFM

	A	C	G	T
01	0.282	0.258	0.183	0.277
02	0.606	0.048	0.18	0.167
03	0.0	0.956	0.0	0.044
04	0.311	0.0	0.676	0.013
05	0.0	0.795	0.0	0.205
06	0.0	0.0	1.0	0.0
07	0.0	0.0	0.0	1.0
08	0.52	0.029	0.0	0.451
09	0.717	0.261	0.022	0.0
10	0.235	0.497	0.191	0.077
11	0.258	0.244	0.324	0.174

PWM

	A	C	G	T
01	0.122	0.032	-0.312	0.101
02	0.882	-1.638	-0.328	-0.403
03	-5.265	1.338	-5.265	-1.718
04	0.217	-5.265	0.992	-2.872
05	-5.265	1.153	-5.265	-0.196
06	-5.265	-5.265	1.382	-5.265
07	-5.265	-5.265	-5.265	1.382
08	0.731	-2.125	-5.265	0.587
09	1.05	0.041	-2.367	-5.265
10	-0.06	0.684	-0.269	-1.162
11	0.032	-0.025	0.258	-0.36

Standard thresholds

P-value	Threshold
0.001	4.638945
0.0005	5.859315
0.0001	7.671225