PRDM5.H12INVIVO.1.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PRDM5.H12INVIVO.1.P.B
Gene (human)	PRDM5 (GeneCards)
Gene synonyms (human)	PFM2
Gene (mouse)	Prdm5
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	10
Consensus	bhYCTCCWKb
GC content	61.83%
Information content (bits; total / per base)	9.123 / 0.912
Data sources	ChIP-Seq
Aligned words	972

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 (24)	0.68	0.705	0.515	0.537	0.651	0.681	1.592	1.774	38.207	86.409

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	More than 3 adjacent zinc fingers {2.3.3} (TFClass)
TF subfamily	Unclassified {2.3.3.0} (TFClass)
TFClass ID	TFClass: 2.3.3.0.195
HGNC	HGNC:9349
MGI	MGI:1918029
EntrezGene (human)	GeneID:11107 (SSTAR profile)
EntrezGene (mouse)	GeneID:70779 (SSTAR profile)
UniProt ID (human)	PRDM5_HUMAN
UniProt ID (mouse)	PRDM5_MOUSE
UniProt AC (human)	Q9NQX1 (TFClass)
UniProt AC (mouse)	Q9CXE0 (TFClass)
GRECO-DB-TF	yes

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

PCM	PRDM5.H12INVIVO.1.P.B.pcm
PWM	PRDM5.H12INVIVO.1.P.B.pwm
PFM	PRDM5.H12INVIVO.1.P.B.pfm
Alignment	PRDM5.H12INVIVO.1.P.B.words.tsv
Threshold to P-value map	PRDM5.H12INVIVO.1.P.B.thr
Motif in other formats
JASPAR format	PRDM5.H12INVIVO.1.P.B_jaspar_format.txt
MEME format	PRDM5.H12INVIVO.1.P.B_meme_format.meme
Transfac format	PRDM5.H12INVIVO.1.P.B_transfac_format.txt
Homer format	PRDM5.H12INVIVO.1.P.B_homer_format_0.001.txt PRDM5.H12INVIVO.1.P.B_homer_format_0.0005.txt PRDM5.H12INVIVO.1.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	89.0	198.0	563.0	122.0
02	167.0	313.0	131.0	361.0
03	16.0	383.0	118.0	455.0
04	6.0	922.0	4.0	40.0
05	17.0	26.0	3.0	926.0
06	51.0	878.0	40.0	3.0
07	16.0	947.0	1.0	8.0
08	649.0	55.0	19.0	249.0
09	7.0	139.0	624.0	202.0
10	81.0	357.0	289.0	245.0

PFM

	A	C	G	T
01	0.092	0.204	0.579	0.126
02	0.172	0.322	0.135	0.371
03	0.016	0.394	0.121	0.468
04	0.006	0.949	0.004	0.041
05	0.017	0.027	0.003	0.953
06	0.052	0.903	0.041	0.003
07	0.016	0.974	0.001	0.008
08	0.668	0.057	0.02	0.256
09	0.007	0.143	0.642	0.208
10	0.083	0.367	0.297	0.252

PWM

	A	C	G	T
01	-0.992	-0.203	0.836	-0.682
02	-0.372	0.252	-0.612	0.394
03	-2.625	0.452	-0.715	0.624
04	-3.456	1.328	-3.756	-1.769
05	-2.571	-2.178	-3.948	1.333
06	-1.535	1.279	-1.769	-3.948
07	-2.625	1.355	-4.5	-3.226
08	0.978	-1.462	-2.469	0.024
09	-3.335	-0.553	0.939	-0.183
10	-1.085	0.382	0.172	0.008

Standard thresholds

P-value	Threshold
0.001	4.97599
0.0005	5.84006
0.0001	7.39765