RLF.H13RSNP.0.PSGI.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	RLF.H13RSNP.0.PSGI.D
Gene (human)	RLF (GeneCards)
Gene synonyms (human)
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	11
Consensus	YbGCCGCTTdW
GC content	58.72%
Information content (bits; total / per base)	12.767 / 1.161
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + SMiLe-Seq
Aligned words	7875
Previous names

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	Centrality, median	Centrality, best
Overall	1 (2)	0.654	0.654	0.446	0.448	0.461	0.472	5.594	6.602

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 2 experiments	median	0.962	0.947	0.894	0.871	0.771	0.766
overall, 2 experiments	best	0.971	0.96	0.912	0.891	0.791	0.786
IVT, 1 experiments	median	0.954	0.934	0.876	0.851	0.75	0.746
IVT, 1 experiments	best	0.954	0.934	0.876	0.851	0.75	0.746
GFPIVT, 1 experiments	median	0.971	0.96	0.912	0.891	0.791	0.786
GFPIVT, 1 experiments	best	0.971	0.96	0.912	0.891	0.791	0.786

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
overall, 2 experiments	median	17.0	0.637	0.665	0.48
overall, 2 experiments	best	188.921	0.725	0.816	0.62
IVT, 1 experiments	median	188.921	0.725	0.816	0.62
IVT, 1 experiments	best	188.921	0.725	0.816	0.62
GFPIVT, 1 experiments	median	15.912	0.571	0.614	0.458
GFPIVT, 1 experiments	best	17.0	0.637	0.665	0.48

SMiLE-Seq benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 1 experiments	median	0.661	0.606	0.628	0.585	0.58	0.561
Overall, 1 experiments	best	0.661	0.606	0.628	0.585	0.58	0.561

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	RLF-like {2.3.4.7} (TFClass)
TFClass ID	TFClass: 2.3.4.7.1
HGNC	HGNC:10025
MGI
EntrezGene (human)	GeneID:6018 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	RLF_HUMAN
UniProt ID (mouse)
UniProt AC (human)	Q13129 (TFClass)
UniProt AC (mouse)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 0 mouse
HT-SELEX	2 overall: 0 Lysate, 1 IVT, 1 GFPIVT
Genomic HT-SELEX	2 overall: 0 Lysate, 1 IVT, 1 GFPIVT
SMiLE-Seq	1
PBM	0

PCM	RLF.H13RSNP.0.PSGI.D.pcm
PWM	RLF.H13RSNP.0.PSGI.D.pwm
PFM	RLF.H13RSNP.0.PSGI.D.pfm
Threshold to P-value map	RLF.H13RSNP.0.PSGI.D.thr
Motif in other formats
JASPAR format	RLF.H13RSNP.0.PSGI.D_jaspar_format.txt
MEME format	RLF.H13RSNP.0.PSGI.D_meme_format.meme
Transfac format	RLF.H13RSNP.0.PSGI.D_transfac_format.txt
Homer format	RLF.H13RSNP.0.PSGI.D_homer_format_0.001.txt RLF.H13RSNP.0.PSGI.D_homer_format_0.0005.txt RLF.H13RSNP.0.PSGI.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	981.75	4916.75	966.75	1009.75
02	769.75	4325.75	1649.75	1129.75
03	346.0	342.0	6692.0	495.0
04	125.0	7724.0	22.0	4.0
05	5.0	4951.0	2919.0	0.0
06	0.0	1.0	7874.0	0.0
07	0.0	4763.0	1.0	3111.0
08	2.0	7.0	3.0	7863.0
09	3.0	12.0	0.0	7860.0
10	2151.0	668.0	1803.0	3253.0
11	761.5	678.5	548.5	5886.5

PFM

	A	C	G	T
01	0.125	0.624	0.123	0.128
02	0.098	0.549	0.209	0.143
03	0.044	0.043	0.85	0.063
04	0.016	0.981	0.003	0.001
05	0.001	0.629	0.371	0.0
06	0.0	0.0	1.0	0.0
07	0.0	0.605	0.0	0.395
08	0.0	0.001	0.0	0.998
09	0.0	0.002	0.0	0.998
10	0.273	0.085	0.229	0.413
11	0.097	0.086	0.07	0.747

PWM

	A	C	G	T
01	-0.695	0.915	-0.71	-0.667
02	-0.937	0.787	-0.177	-0.555
03	-1.733	-1.745	1.223	-1.377
04	-2.74	1.366	-4.398	-5.755
05	-5.606	0.922	0.393	-6.779
06	-6.779	-6.41	1.385	-6.779
07	-6.779	0.883	-6.41	0.457
08	-6.141	-5.362	-5.929	1.384
09	-5.929	-4.93	-6.779	1.384
10	0.088	-1.079	-0.088	0.502
11	-0.948	-1.063	-1.275	1.095

Standard thresholds

P-value	Threshold
0.001	2.98992
0.0005	4.689065
0.0001	7.380415