TF65.H12INVITRO.0.P.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TF65.H12INVITRO.0.P.D
Gene (human)	RELA (GeneCards)
Gene synonyms (human)	NFKB3
Gene (mouse)	Rela
Gene synonyms (mouse)	Nfkb3
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	13
Consensus	nKGGRvTTYCCMn
GC content	55.35%
Information content (bits; total / per base)	13.042 / 1.003
Data sources	ChIP-Seq
Aligned words	999

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)	0.895	0.967	0.847	0.945	0.864	0.95	3.662	4.899	247.77	577.222
Mouse	77 (478)	0.855	0.923	0.782	0.896	0.781	0.884	2.753	4.035	154.396	511.319

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.169	6.473	0.187	0.117

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

PCM	TF65.H12INVITRO.0.P.D.pcm
PWM	TF65.H12INVITRO.0.P.D.pwm
PFM	TF65.H12INVITRO.0.P.D.pfm
Alignment	TF65.H12INVITRO.0.P.D.words.tsv
Threshold to P-value map	TF65.H12INVITRO.0.P.D.thr
Motif in other formats
JASPAR format	TF65.H12INVITRO.0.P.D_jaspar_format.txt
MEME format	TF65.H12INVITRO.0.P.D_meme_format.meme
Transfac format	TF65.H12INVITRO.0.P.D_transfac_format.txt
Homer format	TF65.H12INVITRO.0.P.D_homer_format_0.001.txt TF65.H12INVITRO.0.P.D_homer_format_0.0005.txt TF65.H12INVITRO.0.P.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	174.0	360.0	169.0	296.0
02	79.0	83.0	558.0	279.0
03	16.0	4.0	971.0	8.0
04	20.0	4.0	908.0	67.0
05	661.0	19.0	287.0	32.0
06	476.0	222.0	160.0	141.0
07	0.0	37.0	0.0	962.0
08	4.0	43.0	37.0	915.0
09	9.0	272.0	14.0	704.0
10	6.0	973.0	4.0	16.0
11	7.0	969.0	5.0	18.0
12	256.0	566.0	69.0	108.0
13	362.0	169.0	285.0	183.0

PFM

	A	C	G	T
01	0.174	0.36	0.169	0.296
02	0.079	0.083	0.559	0.279
03	0.016	0.004	0.972	0.008
04	0.02	0.004	0.909	0.067
05	0.662	0.019	0.287	0.032
06	0.476	0.222	0.16	0.141
07	0.0	0.037	0.0	0.963
08	0.004	0.043	0.037	0.916
09	0.009	0.272	0.014	0.705
10	0.006	0.974	0.004	0.016
11	0.007	0.97	0.005	0.018
12	0.256	0.567	0.069	0.108
13	0.362	0.169	0.285	0.183

PWM

	A	C	G	T
01	-0.358	0.364	-0.387	0.169
02	-1.136	-1.088	0.8	0.11
03	-2.652	-3.782	1.353	-3.252
04	-2.449	-3.782	1.286	-1.297
05	0.969	-2.496	0.138	-2.009
06	0.642	-0.117	-0.441	-0.566
07	-4.981	-1.871	-4.981	1.343
08	-3.782	-1.727	-1.871	1.293
09	-3.155	0.085	-2.772	1.032
10	-3.483	1.355	-3.782	-2.652
11	-3.361	1.351	-3.621	-2.545
12	0.025	0.814	-1.269	-0.829
13	0.369	-0.387	0.131	-0.308

Standard thresholds

P-value	Threshold
0.001	3.64191
0.0005	4.77251
0.0001	7.02937