TF65.H13RSNP.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TF65.H13RSNP.0.P.B
Gene (human)	RELA (GeneCards)
Gene synonyms (human)	NFKB3
Gene (mouse)	Rela
Gene synonyms (mouse)	Nfkb3
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	13
Consensus	bhKGSRnTTTCCh
GC content	56.22%
Information content (bits; total / per base)	10.538 / 0.811
Data sources	ChIP-Seq
Aligned words	1000
Previous names	TF65.H12RSNP.0.P.B

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
Human	65 (404)	0.893	0.967	0.835	0.938	0.856	0.947	3.51	4.668	229.281	576.222
Mouse	77 (478)	0.853	0.92	0.772	0.888	0.777	0.877	2.686	3.952	145.998	494.585

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.675	9.768	0.171	0.123

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	Rel homology region (RHR) factors {6.1} (TFClass)
TF family	NFkappaB-related {6.1.1} (TFClass)
TF subfamily	NFkappaB p65-like {6.1.1.2} (TFClass)
TFClass ID	TFClass: 6.1.1.2.1
HGNC	HGNC:9955
MGI	MGI:103290
EntrezGene (human)	GeneID:5970 (SSTAR profile)
EntrezGene (mouse)	GeneID:19697 (SSTAR profile)
UniProt ID (human)	TF65_HUMAN
UniProt ID (mouse)	TF65_MOUSE
UniProt AC (human)	Q04206 (TFClass)
UniProt AC (mouse)	Q04207 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	65 human, 77 mouse
HT-SELEX	0
Methyl-HT-SELEX	0
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	TF65.H13RSNP.0.P.B.pcm
PWM	TF65.H13RSNP.0.P.B.pwm
PFM	TF65.H13RSNP.0.P.B.pfm
Threshold to P-value map	TF65.H13RSNP.0.P.B.thr
Motif in other formats
JASPAR format	TF65.H13RSNP.0.P.B_jaspar_format.txt
MEME format	TF65.H13RSNP.0.P.B_meme_format.meme
Transfac format	TF65.H13RSNP.0.P.B_transfac_format.txt
Homer format	TF65.H13RSNP.0.P.B_homer_format_0.001.txt TF65.H13RSNP.0.P.B_homer_format_0.0005.txt TF65.H13RSNP.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	147.0	453.0	208.0	192.0
02	219.0	385.0	146.0	250.0
03	78.0	91.0	618.0	213.0
04	36.0	44.0	865.0	55.0
05	95.0	100.0	731.0	74.0
06	520.0	41.0	383.0	56.0
07	333.0	295.0	180.0	192.0
08	13.0	87.0	6.0	894.0
09	2.0	25.0	18.0	955.0
10	4.0	205.0	17.0	774.0
11	12.0	878.0	16.0	94.0
12	6.0	891.0	22.0	81.0
13	260.0	514.0	90.0	136.0

PFM

	A	C	G	T
01	0.147	0.453	0.208	0.192
02	0.219	0.385	0.146	0.25
03	0.078	0.091	0.618	0.213
04	0.036	0.044	0.865	0.055
05	0.095	0.1	0.731	0.074
06	0.52	0.041	0.383	0.056
07	0.333	0.295	0.18	0.192
08	0.013	0.087	0.006	0.894
09	0.002	0.025	0.018	0.955
10	0.004	0.205	0.017	0.774
11	0.012	0.878	0.016	0.094
12	0.006	0.891	0.022	0.081
13	0.26	0.514	0.09	0.136

PWM

	A	C	G	T
01	-0.526	0.591	-0.183	-0.262
02	-0.131	0.429	-0.533	0.0
03	-1.15	-0.999	0.901	-0.159
04	-1.898	-1.706	1.236	-1.49
05	-0.956	-0.906	1.068	-1.201
06	0.729	-1.774	0.424	-1.473
07	0.285	0.164	-0.326	-0.262
08	-2.839	-1.043	-3.484	1.269
09	-4.213	-2.243	-2.546	1.335
10	-3.783	-0.197	-2.598	1.125
11	-2.909	1.251	-2.653	-0.967
12	-3.484	1.266	-2.362	-1.113
13	0.039	0.717	-1.01	-0.603

Standard thresholds

P-value	Threshold
0.001	4.60106
0.0005	5.46871
0.0001	7.246595