JDP2.H12INVIVO.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	JDP2.H12INVIVO.0.SM.D
Gene (human)	JDP2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Jdp2
Gene synonyms (mouse)	Jundm2
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	14
Consensus	nnbRATGACGTCWb
GC content	48.13%
Information content (bits; total / per base)	15.481 / 1.106
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	7039

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.67	0.691	0.562	0.591	0.521	0.548
Overall, 10 experiments	best	0.999	0.999	0.997	0.996	0.989	0.985
Methyl HT-SELEX, 2 experiments	median	0.973	0.958	0.958	0.938	0.926	0.905
Methyl HT-SELEX, 2 experiments	best	0.999	0.999	0.997	0.996	0.989	0.985
Non-Methyl HT-SELEX, 8 experiments	median	0.597	0.615	0.535	0.554	0.514	0.528
Non-Methyl HT-SELEX, 8 experiments	best	0.995	0.992	0.982	0.976	0.929	0.919

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.902	0.3	0.862	0.505
batch 2	0.914	0.66	0.832	0.531

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.H12INVIVO.0.SM.D.pcm
PWM	JDP2.H12INVIVO.0.SM.D.pwm
PFM	JDP2.H12INVIVO.0.SM.D.pfm
Alignment	JDP2.H12INVIVO.0.SM.D.words.tsv
Threshold to P-value map	JDP2.H12INVIVO.0.SM.D.thr
Motif in other formats
JASPAR format	JDP2.H12INVIVO.0.SM.D_jaspar_format.txt
MEME format	JDP2.H12INVIVO.0.SM.D_meme_format.meme
Transfac format	JDP2.H12INVIVO.0.SM.D_transfac_format.txt
Homer format	JDP2.H12INVIVO.0.SM.D_homer_format_0.001.txt JDP2.H12INVIVO.0.SM.D_homer_format_0.0005.txt JDP2.H12INVIVO.0.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1651.25	1986.25	2001.25	1400.25
02	1979.75	1413.75	2540.75	1104.75
03	442.0	2212.0	1124.0	3261.0
04	628.0	607.0	5263.0	541.0
05	6761.0	24.0	254.0	0.0
06	0.0	0.0	0.0	7039.0
07	0.0	0.0	7039.0	0.0
08	7039.0	0.0	0.0	0.0
09	0.0	6893.0	12.0	134.0
10	285.0	4.0	5263.0	1487.0
11	5.0	1509.0	0.0	5525.0
12	1923.0	5082.0	27.0	7.0
13	5503.75	351.75	143.75	1039.75
14	389.25	2953.25	730.25	2966.25

PFM

	A	C	G	T
01	0.235	0.282	0.284	0.199
02	0.281	0.201	0.361	0.157
03	0.063	0.314	0.16	0.463
04	0.089	0.086	0.748	0.077
05	0.961	0.003	0.036	0.0
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	0.979	0.002	0.019
10	0.04	0.001	0.748	0.211
11	0.001	0.214	0.0	0.785
12	0.273	0.722	0.004	0.001
13	0.782	0.05	0.02	0.148
14	0.055	0.42	0.104	0.421

PWM

	A	C	G	T
01	-0.064	0.121	0.128	-0.228
02	0.118	-0.219	0.367	-0.465
03	-1.378	0.228	-0.448	0.616
04	-1.028	-1.062	1.095	-1.177
05	1.345	-4.208	-1.928	-6.679
06	-6.679	-6.679	-6.679	1.385
07	-6.679	-6.679	1.385	-6.679
08	1.385	-6.679	-6.679	-6.679
09	-6.679	1.364	-4.82	-2.56
10	-1.814	-5.647	1.095	-0.168
11	-5.498	-0.154	-6.679	1.143
12	0.089	1.06	-4.1	-5.253
13	1.139	-1.605	-2.491	-0.525
14	-1.504	0.517	-0.878	0.522

Standard thresholds

P-value	Threshold
0.001	0.77001
0.0005	2.47201
0.0001	6.121765