TET3.H13INVITRO.0.PSGIB.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TET3.H13INVITRO.0.PSGIB.A
Gene (human)	TET3 (GeneCards)
Gene synonyms (human)	KIAA0401
Gene (mouse)	Tet3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	7
Consensus	ACGTAhv
GC content	48.42%
Information content (bits; total / per base)	8.679 / 1.24
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + SMiLe-Seq + PBM
Aligned words	9367
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 (2)	0.547	0.559	0.351	0.36	0.394	0.394	0.0	0.0

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 4 experiments	median	0.877	0.826	0.816	0.763	0.754	0.71
overall, 4 experiments	best	0.891	0.852	0.852	0.795	0.788	0.741
Lysate, 2 experiments	median	0.868	0.822	0.816	0.763	0.754	0.71
Lysate, 2 experiments	best	0.891	0.852	0.837	0.788	0.77	0.729
IVT, 1 experiments	median	0.888	0.838	0.852	0.795	0.788	0.741
IVT, 1 experiments	best	0.888	0.838	0.852	0.795	0.788	0.741
GFPIVT, 1 experiments	median	0.865	0.814	0.738	0.715	0.659	0.648
GFPIVT, 1 experiments	best	0.865	0.814	0.738	0.715	0.659	0.648

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
overall, 3 experiments	median	6.959	0.434	0.763	0.615
overall, 3 experiments	best	47.301	0.52	0.805	0.681
Lysate, 2 experiments	median	6.406	0.427	0.765	0.615
Lysate, 2 experiments	best	47.301	0.481	0.805	0.681
GFPIVT, 1 experiments	median	18.824	0.476	0.736	0.615
GFPIVT, 1 experiments	best	26.721	0.52	0.764	0.627

SMiLE-Seq benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 1 experiments	median	0.706	0.647	0.647	0.607	0.605	0.579
Overall, 1 experiments	best	0.706	0.647	0.647	0.607	0.605	0.579

PBM benchmarking		auROC, QNZS	auPR, QNZS	auROC, SD	auPR, SD
Overall, 4 experiments	median	0.782	0.021	0.848	0.097
Overall, 4 experiments	best	0.783	0.027	0.853	0.11

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	CXXC zinc finger factors {2.6} (TFClass)
TF family	CpG-binding {2.6.1} (TFClass)
TF subfamily	{2.6.1.0} (TFClass)
TFClass ID	TFClass: 2.6.1.0.8
HGNC	HGNC:28313
MGI	MGI:2446229
EntrezGene (human)	GeneID:200424 (SSTAR profile)
EntrezGene (mouse)	GeneID:194388 (SSTAR profile)
UniProt ID (human)	TET3_HUMAN
UniProt ID (mouse)	TET3_MOUSE
UniProt AC (human)	O43151 (TFClass)
UniProt AC (mouse)	Q8BG87 (TFClass)
GRECO-DB-TF	no

ChIP-Seq	2 human, 0 mouse
HT-SELEX	4 overall: 2 Lysate, 1 IVT, 1 GFPIVT
Genomic HT-SELEX	3 overall: 2 Lysate, 0 IVT, 1 GFPIVT
SMiLE-Seq	1
PBM	4

PCM	TET3.H13INVITRO.0.PSGIB.A.pcm
PWM	TET3.H13INVITRO.0.PSGIB.A.pwm
PFM	TET3.H13INVITRO.0.PSGIB.A.pfm
Threshold to P-value map	TET3.H13INVITRO.0.PSGIB.A.thr
Motif in other formats
JASPAR format	TET3.H13INVITRO.0.PSGIB.A_jaspar_format.txt
MEME format	TET3.H13INVITRO.0.PSGIB.A_meme_format.meme
Transfac format	TET3.H13INVITRO.0.PSGIB.A_transfac_format.txt
Homer format	TET3.H13INVITRO.0.PSGIB.A_homer_format_0.001.txt TET3.H13INVITRO.0.PSGIB.A_homer_format_0.0005.txt TET3.H13INVITRO.0.PSGIB.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	8539.5	156.5	490.5	180.5
02	0.0	9311.0	54.0	2.0
03	1.0	4.0	9361.0	1.0
04	10.0	762.0	285.0	8310.0
05	8486.0	12.0	220.0	649.0
06	4295.0	2500.0	1249.0	1323.0
07	1128.5	3971.5	3369.5	897.5

PFM

	A	C	G	T
01	0.912	0.017	0.052	0.019
02	0.0	0.994	0.006	0.0
03	0.0	0.0	0.999	0.0
04	0.001	0.081	0.03	0.887
05	0.906	0.001	0.023	0.069
06	0.459	0.267	0.133	0.141
07	0.12	0.424	0.36	0.096

PWM

	A	C	G	T
01	1.293	-2.692	-1.56	-2.551
02	-6.933	1.38	-3.729	-6.304
03	-6.57	-5.921	1.385	-6.57
04	-5.251	-1.121	-2.099	1.266
05	1.287	-5.1	-2.356	-1.281
06	0.606	0.065	-0.628	-0.57
07	-0.729	0.528	0.364	-0.957

Standard thresholds

P-value	Threshold
0.001	5.135545
0.0005	6.31008
0.0001	7.41909