S2A4R.H14INVIVO.0.PSG.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	S2A4R.H14INVIVO.0.PSG.A
Gene (human)	SLC2A4RG (GeneCards)
Gene synonyms (human)
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	10
Consensus	nGCCGGCCGG
GC content	92.48%
Information content (bits; total / per base)	15.083 / 1.508
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX
Aligned words	310
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	2 (4)	0.829	0.844	0.682	0.717	0.529	0.574	26.515	28.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 3 experiments	median	1.0	1.0	0.999	0.999	0.996	0.994
overall, 3 experiments	best	1.0	1.0	1.0	1.0	1.0	0.999
Lysate, 1 experiments	median	1.0	1.0	0.999	0.999	0.88	0.915
Lysate, 1 experiments	best	1.0	1.0	0.999	0.999	0.88	0.915
IVT, 1 experiments	median	0.999	0.999	0.998	0.997	0.996	0.994
IVT, 1 experiments	best	0.999	0.999	0.998	0.997	0.996	0.994
GFPIVT, 1 experiments	median	1.0	1.0	1.0	1.0	1.0	0.999
GFPIVT, 1 experiments	best	1.0	1.0	1.0	1.0	1.0	0.999

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
overall, 3 experiments	median	202.046	0.91	0.965	0.949
overall, 3 experiments	best	470.569	0.94	0.977	0.968
Lysate, 1 experiments	median	241.62	0.936	0.975	0.961
Lysate, 1 experiments	best	470.569	0.94	0.977	0.968
IVT, 1 experiments	median	142.284	0.864	0.936	0.889
IVT, 1 experiments	best	142.284	0.864	0.936	0.889
GFPIVT, 1 experiments	median	202.046	0.91	0.965	0.949
GFPIVT, 1 experiments	best	209.959	0.914	0.969	0.956

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	Other with up to three adjacent zinc fingers {2.3.2} (TFClass)
TF subfamily	CR1-CR2 {2.3.2.255} (TFClass)
TFClass ID	TFClass: 2.3.2.255.1
HGNC
MGI
EntrezGene (human)
EntrezGene (mouse)
UniProt ID (human)	S2A4R_HUMAN
UniProt ID (mouse)
UniProt AC (human)	Q9NR83 (TFClass)
UniProt AC (mouse)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 0 mouse
HT-SELEX	3 overall: 1 Lysate, 1 IVT, 1 GFPIVT
Genomic HT-SELEX	3 overall: 1 Lysate, 1 IVT, 1 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	S2A4R.H14INVIVO.0.PSG.A.pcm
PWM	S2A4R.H14INVIVO.0.PSG.A.pwm
PFM	S2A4R.H14INVIVO.0.PSG.A.pfm
Threshold to P-value map	S2A4R.H14INVIVO.0.PSG.A.thr
Motif in other formats
JASPAR format	S2A4R.H14INVIVO.0.PSG.A_jaspar_format.txt
MEME format	S2A4R.H14INVIVO.0.PSG.A_meme_format.meme
Transfac format	S2A4R.H14INVIVO.0.PSG.A_transfac_format.txt
Homer format	S2A4R.H14INVIVO.0.PSG.A_homer_format_0.001.txt S2A4R.H14INVIVO.0.PSG.A_homer_format_0.0005.txt S2A4R.H14INVIVO.0.PSG.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	96.0	76.0	57.0	81.0
02	22.0	16.0	265.0	7.0
03	1.0	303.0	4.0	2.0
04	1.0	309.0	0.0	0.0
05	0.0	2.0	308.0	0.0
06	1.0	3.0	304.0	2.0
07	0.0	286.0	19.0	5.0
08	8.0	294.0	3.0	5.0
09	1.0	8.0	300.0	1.0
10	0.0	50.0	260.0	0.0

PFM

	A	C	G	T
01	0.31	0.245	0.184	0.261
02	0.071	0.052	0.855	0.023
03	0.003	0.977	0.013	0.006
04	0.003	0.997	0.0	0.0
05	0.0	0.006	0.994	0.0
06	0.003	0.01	0.981	0.006
07	0.0	0.923	0.061	0.016
08	0.026	0.948	0.01	0.016
09	0.003	0.026	0.968	0.003
10	0.0	0.161	0.839	0.0

PWM

	A	C	G	T
01	0.211	-0.019	-0.301	0.043
02	-1.214	-1.51	1.217	-2.236
03	-3.479	1.35	-2.676	-3.135
04	-3.479	1.369	-4.008	-4.008
05	-4.008	-3.135	1.366	-4.008
06	-3.479	-2.879	1.353	-3.135
07	-4.008	1.292	-1.351	-2.507
08	-2.124	1.32	-2.879	-2.507
09	-3.479	-2.124	1.34	-3.479
10	-4.008	-0.428	1.198	-4.008

Standard thresholds

P-value	Threshold
0.001	2.839335
0.0005	3.989105
0.0001	6.702415