JDP2.H13RSNP.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	JDP2.H13RSNP.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	15
Consensus	nvYSATGACGTCAYn
GC content	49.0%
Information content (bits; total / per base)	18.724 / 1.248
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	1642
Previous names	JDP2.H12RSNP.0.SM.B

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.658	0.682	0.559	0.587	0.52	0.546
Overall, 10 experiments	best	1.0	1.0	0.999	0.998	0.968	0.966
Methyl HT-SELEX, 2 experiments	median	0.976	0.964	0.952	0.935	0.903	0.886
Methyl HT-SELEX, 2 experiments	best	1.0	1.0	0.999	0.998	0.968	0.966
Non-Methyl HT-SELEX, 8 experiments	median	0.583	0.606	0.529	0.549	0.514	0.525
Non-Methyl HT-SELEX, 8 experiments	best	0.997	0.995	0.984	0.979	0.911	0.904

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.807	0.269	0.694	0.398
batch 2	0.934	0.799	0.879	0.582

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	JDP2.H13RSNP.0.SM.B.pcm
PWM	JDP2.H13RSNP.0.SM.B.pwm
PFM	JDP2.H13RSNP.0.SM.B.pfm
Threshold to P-value map	JDP2.H13RSNP.0.SM.B.thr
Motif in other formats
JASPAR format	JDP2.H13RSNP.0.SM.B_jaspar_format.txt
MEME format	JDP2.H13RSNP.0.SM.B_meme_format.meme
Transfac format	JDP2.H13RSNP.0.SM.B_transfac_format.txt
Homer format	JDP2.H13RSNP.0.SM.B_homer_format_0.001.txt JDP2.H13RSNP.0.SM.B_homer_format_0.0005.txt JDP2.H13RSNP.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	353.0	471.0	516.0	302.0
02	468.75	294.75	666.75	211.75
03	74.0	494.0	163.0	911.0
04	133.0	161.0	1223.0	125.0
05	1590.0	5.0	46.0	1.0
06	0.0	0.0	0.0	1642.0
07	0.0	0.0	1642.0	0.0
08	1642.0	0.0	0.0	0.0
09	0.0	1620.0	3.0	19.0
10	45.0	2.0	1564.0	31.0
11	0.0	33.0	0.0	1609.0
12	101.0	1530.0	10.0	1.0
13	1589.0	3.0	14.0	36.0
14	28.75	573.75	76.75	962.75
15	335.75	575.75	381.75	348.75

PFM

	A	C	G	T
01	0.215	0.287	0.314	0.184
02	0.285	0.18	0.406	0.129
03	0.045	0.301	0.099	0.555
04	0.081	0.098	0.745	0.076
05	0.968	0.003	0.028	0.001
06	0.0	0.0	0.0	1.0
07	0.0	0.0	1.0	0.0
08	1.0	0.0	0.0	0.0
09	0.0	0.987	0.002	0.012
10	0.027	0.001	0.952	0.019
11	0.0	0.02	0.0	0.98
12	0.062	0.932	0.006	0.001
13	0.968	0.002	0.009	0.022
14	0.018	0.349	0.047	0.586
15	0.204	0.351	0.232	0.212

PWM

	A	C	G	T
01	-0.15	0.137	0.228	-0.305
02	0.132	-0.329	0.483	-0.658
03	-1.693	0.184	-0.917	0.795
04	-1.118	-0.929	1.089	-1.179
05	1.351	-4.097	-2.154	-4.974
06	-5.406	-5.406	-5.406	1.383
07	-5.406	-5.406	1.383	-5.406
08	1.383	-5.406	-5.406	-5.406
09	-5.406	1.369	-4.443	-2.984
10	-2.175	-4.674	1.334	-2.53
11	-5.406	-2.471	-5.406	1.363
12	-1.389	1.312	-3.549	-4.974
13	1.35	-4.443	-3.259	-2.388
14	-2.601	0.334	-1.657	0.85
15	-0.2	0.337	-0.072	-0.162

Standard thresholds

P-value	Threshold
0.001	-0.85999
0.0005	0.84526
0.0001	4.38811