BARX1.H12RSNP.1.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	BARX1.H12RSNP.1.S.D
Gene (human)	BARX1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Barx1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	16
Consensus	nnRhTAATKRbhhhhh
GC content	35.47%
Information content (bits; total / per base)	11.702 / 0.731
Data sources	HT-SELEX
Aligned words	7740

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 (7)	0.73	0.753	0.541	0.617	0.644	0.647	1.564	1.651	14.796	24.432

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.985	0.977	0.966	0.951	0.891	0.878
Non-Methyl HT-SELEX, 2 experiments	best	0.986	0.979	0.966	0.953	0.896	0.881

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	NK-related {3.1.2} (TFClass)
TF subfamily	BARX {3.1.2.2} (TFClass)
TFClass ID	TFClass: 3.1.2.2.1
HGNC	HGNC:955
MGI	MGI:103124
EntrezGene (human)	GeneID:56033 (SSTAR profile)
EntrezGene (mouse)	GeneID:12022 (SSTAR profile)
UniProt ID (human)	BARX1_HUMAN
UniProt ID (mouse)	BARX1_MOUSE
UniProt AC (human)	Q9HBU1 (TFClass)
UniProt AC (mouse)	Q9ER42 (TFClass)
GRECO-DB-TF	yes

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

PCM	BARX1.H12RSNP.1.S.D.pcm
PWM	BARX1.H12RSNP.1.S.D.pwm
PFM	BARX1.H12RSNP.1.S.D.pfm
Alignment	BARX1.H12RSNP.1.S.D.words.tsv
Threshold to P-value map	BARX1.H12RSNP.1.S.D.thr
Motif in other formats
JASPAR format	BARX1.H12RSNP.1.S.D_jaspar_format.txt
MEME format	BARX1.H12RSNP.1.S.D_meme_format.meme
Transfac format	BARX1.H12RSNP.1.S.D_transfac_format.txt
Homer format	BARX1.H12RSNP.1.S.D_homer_format_0.001.txt BARX1.H12RSNP.1.S.D_homer_format_0.0005.txt BARX1.H12RSNP.1.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1539.25	1567.25	2715.25	1918.25
02	1521.0	2402.0	2397.0	1420.0
03	1435.0	980.0	5018.0	307.0
04	858.0	2801.0	655.0	3426.0
05	0.0	3.0	0.0	7737.0
06	7740.0	0.0	0.0	0.0
07	7740.0	0.0	0.0	0.0
08	0.0	29.0	43.0	7668.0
09	1.0	1575.0	2445.0	3719.0
10	2534.0	120.0	4942.0	144.0
11	938.0	2906.0	2291.0	1605.0
12	1021.0	1941.0	616.0	4162.0
13	1538.0	1489.0	876.0	3837.0
14	3669.0	1750.0	570.0	1751.0
15	3641.0	1520.0	552.0	2027.0
16	1994.0	1083.0	643.0	4020.0

PFM

	A	C	G	T
01	0.199	0.202	0.351	0.248
02	0.197	0.31	0.31	0.183
03	0.185	0.127	0.648	0.04
04	0.111	0.362	0.085	0.443
05	0.0	0.0	0.0	1.0
06	1.0	0.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.004	0.006	0.991
09	0.0	0.203	0.316	0.48
10	0.327	0.016	0.639	0.019
11	0.121	0.375	0.296	0.207
12	0.132	0.251	0.08	0.538
13	0.199	0.192	0.113	0.496
14	0.474	0.226	0.074	0.226
15	0.47	0.196	0.071	0.262
16	0.258	0.14	0.083	0.519

PWM

	A	C	G	T
01	-0.229	-0.211	0.338	-0.009
02	-0.24	0.216	0.214	-0.309
03	-0.299	-0.679	0.952	-1.835
04	-0.812	0.37	-1.081	0.571
05	-6.763	-5.913	-6.763	1.385
06	1.385	-6.763	-6.763	-6.763
07	1.385	-6.763	-6.763	-6.763
08	-6.763	-4.127	-3.757	1.376
09	-6.394	-0.206	0.234	0.653
10	0.269	-2.763	0.937	-2.584
11	-0.723	0.406	0.169	-0.187
12	-0.638	0.003	-1.142	0.765
13	-0.229	-0.262	-0.791	0.684
14	0.639	-0.1	-1.219	-0.1
15	0.632	-0.241	-1.251	0.046
16	0.03	-0.579	-1.099	0.731

Standard thresholds

P-value	Threshold
0.001	4.05306
0.0005	5.44296
0.0001	7.56091