RLF.H13INVITRO.0.PSGI.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	RLF.H13INVITRO.0.PSGI.A
Gene (human)	RLF (GeneCards)
Gene synonyms (human)
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	10
Consensus	nMSGTTTndn
GC content	48.19%
Information content (bits; total / per base)	8.46 / 0.846
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + SMiLe-Seq
Aligned words	1317
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)	0.48	0.482	0.32	0.32	0.42	0.427	0.007	0.013

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 2 experiments	median	0.964	0.95	0.895	0.873	0.769	0.766
overall, 2 experiments	best	0.969	0.955	0.91	0.888	0.785	0.781
IVT, 1 experiments	median	0.959	0.944	0.879	0.857	0.753	0.75
IVT, 1 experiments	best	0.959	0.944	0.879	0.857	0.753	0.75
GFPIVT, 1 experiments	median	0.969	0.955	0.91	0.888	0.785	0.781
GFPIVT, 1 experiments	best	0.969	0.955	0.91	0.888	0.785	0.781

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
overall, 2 experiments	median	4.959	0.534	0.612	0.449
overall, 2 experiments	best	102.824	0.648	0.744	0.551
IVT, 1 experiments	median	102.824	0.648	0.744	0.551
IVT, 1 experiments	best	102.824	0.648	0.744	0.551
GFPIVT, 1 experiments	median	3.648	0.503	0.572	0.432
GFPIVT, 1 experiments	best	4.959	0.534	0.612	0.449

SMiLE-Seq benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 1 experiments	median	0.721	0.666	0.642	0.613	0.589	0.576
Overall, 1 experiments	best	0.721	0.666	0.642	0.613	0.589	0.576

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.H13INVITRO.0.PSGI.A.pcm
PWM	RLF.H13INVITRO.0.PSGI.A.pwm
PFM	RLF.H13INVITRO.0.PSGI.A.pfm
Threshold to P-value map	RLF.H13INVITRO.0.PSGI.A.thr
Motif in other formats
JASPAR format	RLF.H13INVITRO.0.PSGI.A_jaspar_format.txt
MEME format	RLF.H13INVITRO.0.PSGI.A_meme_format.meme
Transfac format	RLF.H13INVITRO.0.PSGI.A_transfac_format.txt
Homer format	RLF.H13INVITRO.0.PSGI.A_homer_format_0.001.txt RLF.H13INVITRO.0.PSGI.A_homer_format_0.0005.txt RLF.H13INVITRO.0.PSGI.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	332.75	301.75	406.75	275.75
02	278.75	769.75	231.75	36.75
03	9.0	768.0	525.0	15.0
04	0.0	0.0	1317.0	0.0
05	0.0	518.0	0.0	799.0
06	0.0	26.0	0.0	1291.0
07	0.0	15.0	0.0	1302.0
08	402.0	172.0	305.0	438.0
09	420.25	172.25	175.25	549.25
10	352.0	288.0	355.0	322.0

PFM

	A	C	G	T
01	0.253	0.229	0.309	0.209
02	0.212	0.584	0.176	0.028
03	0.007	0.583	0.399	0.011
04	0.0	0.0	1.0	0.0
05	0.0	0.393	0.0	0.607
06	0.0	0.02	0.0	0.98
07	0.0	0.011	0.0	0.989
08	0.305	0.131	0.232	0.333
09	0.319	0.131	0.133	0.417
10	0.267	0.219	0.27	0.244

PWM

	A	C	G	T
01	0.011	-0.087	0.21	-0.176
02	-0.166	0.846	-0.349	-2.15
03	-3.423	0.844	0.465	-2.981
04	-5.217	-5.217	1.382	-5.217
05	-5.217	0.451	-5.217	0.883
06	-5.217	-2.477	-5.217	1.362
07	-5.217	-2.981	-5.217	1.371
08	0.199	-0.644	-0.076	0.284
09	0.243	-0.643	-0.626	0.51
10	0.066	-0.133	0.075	-0.022

Standard thresholds

P-value	Threshold
0.001	5.73054
0.0005	6.195115
0.0001	7.02372