PRDM9.H12INVITRO.0.P.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PRDM9.H12INVITRO.0.P.D
Gene (human)	PRDM9 (GeneCards)
Gene synonyms (human)	PFM6
Gene (mouse)	Prdm9
Gene synonyms (mouse)	Hst1, Meisetz
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	20
Consensus	hRnddGGYAGYAvCWbCWbd
GC content	51.85%
Information content (bits; total / per base)	14.681 / 0.734
Data sources	ChIP-Seq
Aligned words	876

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
Mouse	4 (26)	0.83	0.962	0.815	0.943	0.814	0.955	4.285	5.59	193.886	474.284

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	Multiple dispersed zinc fingers {2.3.4} (TFClass)
TF subfamily	Unclassified {2.3.4.0} (TFClass)
TFClass ID	TFClass: 2.3.4.0.71
HGNC	HGNC:13994
MGI	MGI:2384854
EntrezGene (human)	GeneID:56979 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	PRDM9_HUMAN
UniProt ID (mouse)	PRDM9_MOUSE
UniProt AC (human)	Q9NQV7 (TFClass)
UniProt AC (mouse)	Q96EQ9 (TFClass)
GRECO-DB-TF	no

ChIP-Seq	0 human, 4 mouse
HT-SELEX	0
Methyl-HT-SELEX	0

PCM	PRDM9.H12INVITRO.0.P.D.pcm
PWM	PRDM9.H12INVITRO.0.P.D.pwm
PFM	PRDM9.H12INVITRO.0.P.D.pfm
Alignment	PRDM9.H12INVITRO.0.P.D.words.tsv
Threshold to P-value map	PRDM9.H12INVITRO.0.P.D.thr
Motif in other formats
JASPAR format	PRDM9.H12INVITRO.0.P.D_jaspar_format.txt
MEME format	PRDM9.H12INVITRO.0.P.D_meme_format.meme
Transfac format	PRDM9.H12INVITRO.0.P.D_transfac_format.txt
Homer format	PRDM9.H12INVITRO.0.P.D_homer_format_0.001.txt PRDM9.H12INVITRO.0.P.D_homer_format_0.0005.txt PRDM9.H12INVITRO.0.P.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	406.0	213.0	117.0	140.0
02	544.0	77.0	179.0	76.0
03	244.0	120.0	300.0	212.0
04	435.0	61.0	236.0	144.0
05	248.0	69.0	243.0	316.0
06	96.0	5.0	706.0	69.0
07	184.0	14.0	661.0	17.0
08	21.0	483.0	9.0	363.0
09	744.0	0.0	114.0	18.0
10	54.0	2.0	813.0	7.0
11	13.0	484.0	5.0	374.0
12	819.0	8.0	43.0	6.0
13	142.0	220.0	437.0	77.0
14	4.0	867.0	0.0	5.0
15	538.0	53.0	4.0	281.0
16	49.0	314.0	192.0	321.0
17	29.0	785.0	22.0	40.0
18	194.0	141.0	40.0	501.0
19	85.0	159.0	365.0	267.0
20	176.0	124.0	399.0	177.0

PFM

	A	C	G	T
01	0.463	0.243	0.134	0.16
02	0.621	0.088	0.204	0.087
03	0.279	0.137	0.342	0.242
04	0.497	0.07	0.269	0.164
05	0.283	0.079	0.277	0.361
06	0.11	0.006	0.806	0.079
07	0.21	0.016	0.755	0.019
08	0.024	0.551	0.01	0.414
09	0.849	0.0	0.13	0.021
10	0.062	0.002	0.928	0.008
11	0.015	0.553	0.006	0.427
12	0.935	0.009	0.049	0.007
13	0.162	0.251	0.499	0.088
14	0.005	0.99	0.0	0.006
15	0.614	0.061	0.005	0.321
16	0.056	0.358	0.219	0.366
17	0.033	0.896	0.025	0.046
18	0.221	0.161	0.046	0.572
19	0.097	0.182	0.417	0.305
20	0.201	0.142	0.455	0.202

PWM

	A	C	G	T
01	0.614	-0.028	-0.62	-0.443
02	0.905	-1.031	-0.2	-1.044
03	0.107	-0.595	0.313	-0.032
04	0.682	-1.259	0.074	-0.415
05	0.123	-1.138	0.103	0.364
06	-0.815	-3.496	1.165	-1.138
07	-0.173	-2.644	1.1	-2.469
08	-2.275	0.787	-3.027	0.502
09	1.218	-4.87	-0.646	-2.416
10	-1.377	-4.09	1.306	-3.234
11	-2.709	0.789	-3.496	0.532
12	1.313	-3.125	-1.597	-3.356
13	-0.429	0.005	0.687	-1.031
14	-3.657	1.37	-4.87	-3.496
15	0.894	-1.395	-3.657	0.248
16	-1.471	0.358	-0.13	0.38
17	-1.973	1.271	-2.232	-1.666
18	-0.12	-0.436	-1.666	0.823
19	-0.934	-0.317	0.508	0.197
20	-0.217	-0.563	0.596	-0.211

Standard thresholds

P-value	Threshold
0.001	3.18501
0.0005	4.32696
0.0001	6.69401