JDP2.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	JDP2.H12INVITRO.0.SM.B
Gene (human)	JDP2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Jdp2
Gene synonyms (mouse)	Jundm2
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	11
Consensus	nvRTGACKYvd
GC content	48.19%
Information content (bits; total / per base)	10.014 / 0.91
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9537

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.662	0.684	0.559	0.587	0.524	0.547
Overall, 10 experiments	best	0.998	0.997	0.985	0.981	0.972	0.961
Methyl HT-SELEX, 2 experiments	median	0.973	0.958	0.951	0.931	0.924	0.898
Methyl HT-SELEX, 2 experiments	best	0.998	0.997	0.985	0.981	0.972	0.961
Non-Methyl HT-SELEX, 8 experiments	median	0.589	0.607	0.529	0.549	0.51	0.525
Non-Methyl HT-SELEX, 8 experiments	best	0.996	0.993	0.984	0.978	0.94	0.929

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.852	0.307	0.803	0.529
batch 2	0.905	0.65	0.716	0.388

TF superclass	Basic domains {1} (TFClass)
TF class	Basic leucine zipper factors (bZIP) {1.1} (TFClass)
TF family	Fos-related {1.1.2} (TFClass)
TF subfamily	ATF3-like {1.1.2.2} (TFClass)
TFClass ID	TFClass: 1.1.2.2.2
HGNC	HGNC:17546
MGI	MGI:1932093
EntrezGene (human)	GeneID:122953 (SSTAR profile)
EntrezGene (mouse)	GeneID:81703 (SSTAR profile)
UniProt ID (human)	JDP2_HUMAN
UniProt ID (mouse)	JDP2_MOUSE
UniProt AC (human)	Q8WYK2 (TFClass)
UniProt AC (mouse)	P97875 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	8
Methyl-HT-SELEX	2

PCM	JDP2.H12INVITRO.0.SM.B.pcm
PWM	JDP2.H12INVITRO.0.SM.B.pwm
PFM	JDP2.H12INVITRO.0.SM.B.pfm
Alignment	JDP2.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	JDP2.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	JDP2.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	JDP2.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	JDP2.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	JDP2.H12INVITRO.0.SM.B_homer_format_0.001.txt JDP2.H12INVITRO.0.SM.B_homer_format_0.0005.txt JDP2.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1913.5	1974.5	2589.5	3059.5
02	1880.25	2474.25	3953.25	1229.25
03	6368.0	504.0	2564.0	101.0
04	0.0	0.0	2.0	9535.0
05	0.0	0.0	8919.0	618.0
06	9537.0	0.0	0.0	0.0
07	1.0	9128.0	128.0	280.0
08	399.0	206.0	7319.0	1613.0
09	913.0	3043.0	364.0	5217.0
10	4045.25	2324.25	1859.25	1308.25
11	4015.75	1531.75	1675.75	2313.75

PFM

	A	C	G	T
01	0.201	0.207	0.272	0.321
02	0.197	0.259	0.415	0.129
03	0.668	0.053	0.269	0.011
04	0.0	0.0	0.0	1.0
05	0.0	0.0	0.935	0.065
06	1.0	0.0	0.0	0.0
07	0.0	0.957	0.013	0.029
08	0.042	0.022	0.767	0.169
09	0.096	0.319	0.038	0.547
10	0.424	0.244	0.195	0.137
11	0.421	0.161	0.176	0.243

PWM

	A	C	G	T
01	-0.22	-0.188	0.083	0.249
02	-0.237	0.037	0.505	-0.662
03	0.982	-1.55	0.073	-3.14
04	-6.949	-6.949	-6.321	1.385
05	-6.949	-6.949	1.319	-1.347
06	1.386	-6.949	-6.949	-6.949
07	-6.586	1.342	-2.908	-2.135
08	-1.783	-2.439	1.121	-0.39
09	-0.958	0.244	-1.874	0.783
10	0.528	-0.025	-0.248	-0.599
11	0.521	-0.442	-0.352	-0.03

Standard thresholds

P-value	Threshold
0.001	4.90237
0.0005	5.864515
0.0001	7.60871