TBX4.H12RSNP.1.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX4.H12RSNP.1.S.D
Gene (human)	TBX4 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Tbx4
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	23
Consensus	ndAGGTGTKAndhnhvvMMYbhn
GC content	45.4%
Information content (bits; total / per base)	17.876 / 0.777
Data sources	HT-SELEX
Aligned words	6580

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Mouse	1 (5)	0.637	0.64	0.462	0.468	0.598	0.602	1.414	1.433	8.638	12.284

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.964	0.961	0.861	0.861	0.725	0.741
Non-Methyl HT-SELEX, 2 experiments	best	0.999	0.999	0.948	0.947	0.79	0.808

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	T-Box factors {6.5} (TFClass)
TF family	TBX2-related {6.5.4} (TFClass)
TF subfamily	{6.5.4.0} (TFClass)
TFClass ID	TFClass: 6.5.4.0.3
HGNC	HGNC:11603
MGI	MGI:102556
EntrezGene (human)	GeneID:9496 (SSTAR profile)
EntrezGene (mouse)	GeneID:21387 (SSTAR profile)
UniProt ID (human)	TBX4_HUMAN
UniProt ID (mouse)	TBX4_MOUSE
UniProt AC (human)	P57082 (TFClass)
UniProt AC (mouse)	P70325 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 1 mouse
HT-SELEX	2
Methyl-HT-SELEX	0

PCM	TBX4.H12RSNP.1.S.D.pcm
PWM	TBX4.H12RSNP.1.S.D.pwm
PFM	TBX4.H12RSNP.1.S.D.pfm
Alignment	TBX4.H12RSNP.1.S.D.words.tsv
Threshold to P-value map	TBX4.H12RSNP.1.S.D.thr
Motif in other formats
JASPAR format	TBX4.H12RSNP.1.S.D_jaspar_format.txt
MEME format	TBX4.H12RSNP.1.S.D_meme_format.meme
Transfac format	TBX4.H12RSNP.1.S.D_transfac_format.txt
Homer format	TBX4.H12RSNP.1.S.D_homer_format_0.001.txt TBX4.H12RSNP.1.S.D_homer_format_0.0005.txt TBX4.H12RSNP.1.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2136.0	1361.0	1655.0	1428.0
02	2989.5	473.5	1873.5	1243.5
03	6345.0	19.0	157.0	59.0
04	89.0	41.0	6423.0	27.0
05	0.0	2.0	6578.0	0.0
06	0.0	60.0	9.0	6511.0
07	0.0	0.0	6580.0	0.0
08	188.0	164.0	35.0	6193.0
09	81.0	899.0	3949.0	1651.0
10	5784.0	69.0	542.0	185.0
11	2370.0	1161.0	1106.0	1943.0
12	3408.0	525.0	716.0	1931.0
13	1864.0	579.0	530.0	3607.0
14	1571.0	1245.0	1181.0	2583.0
15	1027.0	1243.0	583.0	3727.0
16	1712.0	2956.0	1310.0	602.0
17	3517.0	1191.0	1015.0	857.0
18	775.0	5165.0	371.0	269.0
19	3839.0	1326.0	1069.0	346.0
20	364.0	5024.0	488.0	704.0
21	619.0	3269.0	934.0	1758.0
22	827.25	1176.25	661.25	3915.25
23	1379.75	1695.75	1292.75	2211.75

PFM

	A	C	G	T
01	0.325	0.207	0.252	0.217
02	0.454	0.072	0.285	0.189
03	0.964	0.003	0.024	0.009
04	0.014	0.006	0.976	0.004
05	0.0	0.0	1.0	0.0
06	0.0	0.009	0.001	0.99
07	0.0	0.0	1.0	0.0
08	0.029	0.025	0.005	0.941
09	0.012	0.137	0.6	0.251
10	0.879	0.01	0.082	0.028
11	0.36	0.176	0.168	0.295
12	0.518	0.08	0.109	0.293
13	0.283	0.088	0.081	0.548
14	0.239	0.189	0.179	0.393
15	0.156	0.189	0.089	0.566
16	0.26	0.449	0.199	0.091
17	0.534	0.181	0.154	0.13
18	0.118	0.785	0.056	0.041
19	0.583	0.202	0.162	0.053
20	0.055	0.764	0.074	0.107
21	0.094	0.497	0.142	0.267
22	0.126	0.179	0.1	0.595
23	0.21	0.258	0.196	0.336

PWM

	A	C	G	T
01	0.261	-0.189	0.006	-0.141
02	0.597	-1.242	0.13	-0.279
03	1.349	-4.353	-2.337	-3.293
04	-2.894	-3.641	1.361	-4.033
05	-6.619	-5.972	1.385	-6.619
06	-6.619	-3.277	-4.991	1.375
07	-6.619	-6.619	1.385	-6.619
08	-2.159	-2.294	-3.791	1.325
09	-2.986	-0.603	0.875	0.004
10	1.256	-3.141	-1.108	-2.175
11	0.365	-0.348	-0.396	0.166
12	0.728	-1.139	-0.83	0.16
13	0.125	-1.042	-1.13	0.784
14	-0.046	-0.278	-0.331	0.451
15	-0.47	-0.28	-1.035	0.817
16	0.04	0.586	-0.227	-1.003
17	0.759	-0.322	-0.482	-0.651
18	-0.751	1.143	-1.485	-1.804
19	0.847	-0.215	-0.43	-1.554
20	-1.504	1.116	-1.212	-0.847
21	-0.975	0.686	-0.565	0.066
22	-0.686	-0.335	-0.909	0.866
23	-0.176	0.03	-0.241	0.296

Standard thresholds

P-value	Threshold
0.001	0.82261
0.0005	2.33351
0.0001	5.43551