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

Motif	VENTX.H12INVITRO.1.S.C
Gene (human)	VENTX (GeneCards)
Gene synonyms (human)	HPX42B, VENTX2
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	18
Consensus	nnbWMATTTGCATAWdhd
GC content	32.17%
Information content (bits; total / per base)	18.572 / 1.032
Data sources	HT-SELEX
Aligned words	1756

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.744	0.681	0.688	0.639	0.635	0.604
Overall, 4 experiments	best	0.998	0.997	0.995	0.992	0.977	0.972
Methyl HT-SELEX, 1 experiments	median	0.762	0.698	0.703	0.653	0.647	0.614
Methyl HT-SELEX, 1 experiments	best	0.762	0.698	0.703	0.653	0.647	0.614
Non-Methyl HT-SELEX, 3 experiments	median	0.727	0.665	0.673	0.626	0.622	0.594
Non-Methyl HT-SELEX, 3 experiments	best	0.998	0.997	0.995	0.992	0.977	0.972

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.591	0.005	0.634	0.422
batch 2	0.537	0.027	0.47	0.275

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	NK-related {3.1.2} (TFClass)
TF subfamily	VENTX {3.1.2.23} (TFClass)
TFClass ID	TFClass: 3.1.2.23.1
HGNC	HGNC:13639
MGI
EntrezGene (human)	GeneID:27287 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	VENTX_HUMAN
UniProt ID (mouse)
UniProt AC (human)	O95231 (TFClass)
UniProt AC (mouse)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

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

PCM

	A	C	G	T
01	448.5	419.5	444.5	443.5
02	464.0	542.0	438.0	312.0
03	182.0	888.0	224.0	462.0
04	316.0	80.0	300.0	1060.0
05	1136.0	370.0	149.0	101.0
06	1641.0	28.0	36.0	51.0
07	1.0	2.0	1.0	1752.0
08	167.0	3.0	0.0	1586.0
09	295.0	0.0	0.0	1461.0
10	6.0	0.0	1750.0	0.0
11	9.0	1747.0	0.0	0.0
12	1749.0	1.0	6.0	0.0
13	6.0	0.0	0.0	1750.0
14	1663.0	8.0	65.0	20.0
15	463.0	274.0	48.0	971.0
16	203.0	153.0	687.0	713.0
17	195.5	883.5	170.5	506.5
18	925.75	185.75	263.75	380.75

PFM

	A	C	G	T
01	0.255	0.239	0.253	0.253
02	0.264	0.309	0.249	0.178
03	0.104	0.506	0.128	0.263
04	0.18	0.046	0.171	0.604
05	0.647	0.211	0.085	0.058
06	0.935	0.016	0.021	0.029
07	0.001	0.001	0.001	0.998
08	0.095	0.002	0.0	0.903
09	0.168	0.0	0.0	0.832
10	0.003	0.0	0.997	0.0
11	0.005	0.995	0.0	0.0
12	0.996	0.001	0.003	0.0
13	0.003	0.0	0.0	0.997
14	0.947	0.005	0.037	0.011
15	0.264	0.156	0.027	0.553
16	0.116	0.087	0.391	0.406
17	0.111	0.503	0.097	0.288
18	0.527	0.106	0.15	0.217

PWM

	A	C	G	T
01	0.021	-0.045	0.012	0.01
02	0.055	0.21	-0.002	-0.34
03	-0.875	0.702	-0.669	0.051
04	-0.327	-1.684	-0.379	0.879
05	0.948	-0.17	-1.072	-1.455
06	1.315	-2.692	-2.455	-2.121
07	-5.035	-4.736	-5.035	1.381
08	-0.96	-4.506	-5.464	1.281
09	-0.395	-5.464	-5.464	1.199
10	-4.026	-5.464	1.38	-5.464
11	-3.703	1.378	-5.464	-5.464
12	1.379	-5.035	-4.026	-5.464
13	-4.026	-5.464	-5.464	1.38
14	1.329	-3.799	-1.886	-3.004
15	0.053	-0.469	-2.179	0.792
16	-0.766	-1.046	0.446	0.483
17	-0.804	0.697	-0.939	0.142
18	0.744	-0.854	-0.507	-0.142

Standard thresholds

P-value	Threshold
0.001	-0.50479
0.0005	1.14656
0.0001	4.63251