SP9.H12INVITRO.1.S.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SP9.H12INVITRO.1.S.C
Gene (human)	SP9 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Sp9
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	12
Consensus	dRKGGGCGTGKn
GC content	71.28%
Information content (bits; total / per base)	14.984 / 1.249
Data sources	HT-SELEX
Aligned words	5921

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	2 (14)	0.532	0.557	0.382	0.408	0.534	0.562	1.325	1.511	0.0	0.824

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 1 experiments	median	0.949	0.917	0.914	0.877	0.801	0.786
Non-Methyl HT-SELEX, 1 experiments	best	0.949	0.917	0.914	0.877	0.801	0.786

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.527	0.027	0.026	-0.012

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	Three-zinc finger Kruppel-related {2.3.1} (TFClass)
TF subfamily	Sp1-like {2.3.1.1} (TFClass)
TFClass ID	TFClass: 2.3.1.1.9
HGNC	HGNC:30690
MGI	MGI:3574660
EntrezGene (human)	GeneID:100131390 (SSTAR profile)
EntrezGene (mouse)	GeneID:381373 (SSTAR profile)
UniProt ID (human)	SP9_HUMAN
UniProt ID (mouse)	SP9_MOUSE
UniProt AC (human)	P0CG40 (TFClass)
UniProt AC (mouse)	Q64HY3 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 2 mouse
HT-SELEX	1
Methyl-HT-SELEX	0

PCM	SP9.H12INVITRO.1.S.C.pcm
PWM	SP9.H12INVITRO.1.S.C.pwm
PFM	SP9.H12INVITRO.1.S.C.pfm
Alignment	SP9.H12INVITRO.1.S.C.words.tsv
Threshold to P-value map	SP9.H12INVITRO.1.S.C.thr
Motif in other formats
JASPAR format	SP9.H12INVITRO.1.S.C_jaspar_format.txt
MEME format	SP9.H12INVITRO.1.S.C_meme_format.meme
Transfac format	SP9.H12INVITRO.1.S.C_transfac_format.txt
Homer format	SP9.H12INVITRO.1.S.C_homer_format_0.001.txt SP9.H12INVITRO.1.S.C_homer_format_0.0005.txt SP9.H12INVITRO.1.S.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1631.0	671.0	2415.0	1204.0
02	1348.5	168.5	3744.5	659.5
03	772.0	0.0	2149.0	3000.0
04	192.0	0.0	5729.0	0.0
05	0.0	0.0	5921.0	0.0
06	0.0	0.0	5921.0	0.0
07	0.0	5921.0	0.0	0.0
08	0.0	0.0	5921.0	0.0
09	0.0	0.0	9.0	5912.0
10	507.0	0.0	5094.0	320.0
11	781.0	227.0	3662.0	1251.0
12	790.5	1511.5	1582.5	2036.5

PFM

	A	C	G	T
01	0.275	0.113	0.408	0.203
02	0.228	0.028	0.632	0.111
03	0.13	0.0	0.363	0.507
04	0.032	0.0	0.968	0.0
05	0.0	0.0	1.0	0.0
06	0.0	0.0	1.0	0.0
07	0.0	1.0	0.0	0.0
08	0.0	0.0	1.0	0.0
09	0.0	0.0	0.002	0.998
10	0.086	0.0	0.86	0.054
11	0.132	0.038	0.618	0.211
12	0.134	0.255	0.267	0.344

PWM

	A	C	G	T
01	0.097	-0.789	0.489	-0.206
02	-0.093	-2.162	0.927	-0.807
03	-0.65	-6.526	0.372	0.706
04	-2.033	-6.526	1.352	-6.526
05	-6.526	-6.526	1.385	-6.526
06	-6.526	-6.526	1.385	-6.526
07	-6.526	1.385	-6.526	-6.526
08	-6.526	-6.526	1.385	-6.526
09	-6.526	-6.526	-4.888	1.384
10	-1.069	-6.526	1.235	-1.526
11	-0.638	-1.867	0.905	-0.168
12	-0.626	0.021	0.067	0.319

Standard thresholds

P-value	Threshold
0.001	0.28875
0.0005	1.84997
0.0001	6.13342