IRX3.H12CORE.2.S.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	IRX3.H12CORE.2.S.C
Gene (human)	IRX3 (GeneCards)
Gene synonyms (human)	IRXB1
Gene (mouse)	Irx3
Gene synonyms (mouse)	Irxb1
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	C

Motif length	21
Consensus	ndACAhSnddddWCATGTWvn
GC content	35.63%
Information content (bits; total / per base)	15.293 / 0.728
Data sources	HT-SELEX
Aligned words	2422

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.733	0.696	0.658	0.631	0.603	0.59
Overall, 4 experiments	best	0.991	0.988	0.889	0.886	0.74	0.756
Methyl HT-SELEX, 1 experiments	median	0.746	0.7	0.682	0.644	0.63	0.605
Methyl HT-SELEX, 1 experiments	best	0.746	0.7	0.682	0.644	0.63	0.605
Non-Methyl HT-SELEX, 3 experiments	median	0.72	0.691	0.633	0.618	0.576	0.575
Non-Methyl HT-SELEX, 3 experiments	best	0.991	0.988	0.889	0.886	0.74	0.756

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.H12CORE.2.S.C.pcm
PWM	IRX3.H12CORE.2.S.C.pwm
PFM	IRX3.H12CORE.2.S.C.pfm
Alignment	IRX3.H12CORE.2.S.C.words.tsv
Threshold to P-value map	IRX3.H12CORE.2.S.C.thr
Motif in other formats
JASPAR format	IRX3.H12CORE.2.S.C_jaspar_format.txt
MEME format	IRX3.H12CORE.2.S.C_meme_format.meme
Transfac format	IRX3.H12CORE.2.S.C_transfac_format.txt
Homer format	IRX3.H12CORE.2.S.C_homer_format_0.001.txt IRX3.H12CORE.2.S.C_homer_format_0.0005.txt IRX3.H12CORE.2.S.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	494.5	418.5	664.5	844.5
02	883.5	128.5	411.5	998.5
03	2027.0	167.0	103.0	125.0
04	195.0	2029.0	98.0	100.0
05	2028.0	143.0	96.0	155.0
06	714.0	410.0	161.0	1137.0
07	318.0	354.0	1571.0	179.0
08	897.0	483.0	584.0	458.0
09	1038.0	371.0	445.0	568.0
10	1269.0	238.0	372.0	543.0
11	1143.0	255.0	331.0	693.0
12	1168.0	289.0	323.0	642.0
13	1434.0	153.0	339.0	496.0
14	20.0	2164.0	113.0	125.0
15	2095.0	0.0	207.0	120.0
16	1.0	2.0	3.0	2416.0
17	1.0	0.0	2421.0	0.0
18	15.0	12.0	7.0	2388.0
19	1427.0	308.0	6.0	681.0
20	1173.0	677.0	354.0	218.0
21	739.75	548.75	362.75	770.75

PFM

	A	C	G	T
01	0.204	0.173	0.274	0.349
02	0.365	0.053	0.17	0.412
03	0.837	0.069	0.043	0.052
04	0.081	0.838	0.04	0.041
05	0.837	0.059	0.04	0.064
06	0.295	0.169	0.066	0.469
07	0.131	0.146	0.649	0.074
08	0.37	0.199	0.241	0.189
09	0.429	0.153	0.184	0.235
10	0.524	0.098	0.154	0.224
11	0.472	0.105	0.137	0.286
12	0.482	0.119	0.133	0.265
13	0.592	0.063	0.14	0.205
14	0.008	0.893	0.047	0.052
15	0.865	0.0	0.085	0.05
16	0.0	0.001	0.001	0.998
17	0.0	0.0	1.0	0.0
18	0.006	0.005	0.003	0.986
19	0.589	0.127	0.002	0.281
20	0.484	0.28	0.146	0.09
21	0.305	0.227	0.15	0.318

PWM

	A	C	G	T
01	-0.202	-0.368	0.093	0.332
02	0.377	-1.538	-0.385	0.499
03	1.206	-1.28	-1.756	-1.565
04	-1.126	1.207	-1.805	-1.785
05	1.206	-1.433	-1.825	-1.353
06	0.164	-0.388	-1.316	0.629
07	-0.641	-0.534	0.951	-1.211
08	0.392	-0.225	-0.036	-0.278
09	0.538	-0.488	-0.307	-0.064
10	0.738	-0.929	-0.485	-0.109
11	0.634	-0.86	-0.601	0.135
12	0.655	-0.736	-0.626	0.058
13	0.86	-1.366	-0.578	-0.199
14	-3.321	1.271	-1.665	-1.565
15	1.239	-5.742	-1.067	-1.606
16	-5.328	-5.036	-4.81	1.381
17	-5.328	-5.742	1.383	-5.742
18	-3.579	-3.774	-4.218	1.37
19	0.855	-0.673	-4.336	0.117
20	0.66	0.111	-0.534	-1.016
21	0.2	-0.098	-0.51	0.241

Standard thresholds

P-value	Threshold
0.001	2.74946
0.0005	3.99796
0.0001	6.53026