SIX4.H12INVITRO.1.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SIX4.H12INVITRO.1.M.C
Gene (human)	SIX4 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Six4
Gene synonyms (mouse)	Arec3
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	15
Consensus	nvbSATACSYnhhvn
GC content	51.67%
Information content (bits; total / per base)	9.373 / 0.625
Data sources	Methyl-HT-SELEX
Aligned words	574

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
Human	1 (6)	0.693	0.705	0.514	0.558	0.677	0.68	1.664	1.742	25.602	44.745
Mouse	1 (7)	0.525	0.534	0.358	0.366	0.528	0.539	1.078	1.112	4.585	5.319

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Methyl HT-SELEX, 1 experiments	median	0.724	0.662	0.679	0.628	0.636	0.6
Methyl HT-SELEX, 1 experiments	best	0.724	0.662	0.679	0.628	0.636	0.6

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	HD-SINE {3.1.6} (TFClass)
TF subfamily	SIX4-like {3.1.6.3} (TFClass)
TFClass ID	TFClass: 3.1.6.3.1
HGNC	HGNC:10890
MGI	MGI:106034
EntrezGene (human)	GeneID:51804 (SSTAR profile)
EntrezGene (mouse)	GeneID:20474 (SSTAR profile)
UniProt ID (human)	SIX4_HUMAN
UniProt ID (mouse)	SIX4_MOUSE
UniProt AC (human)	Q9UIU6 (TFClass)
UniProt AC (mouse)	Q61321 (TFClass)
GRECO-DB-TF	yes

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

PCM	SIX4.H12INVITRO.1.M.C.pcm
PWM	SIX4.H12INVITRO.1.M.C.pwm
PFM	SIX4.H12INVITRO.1.M.C.pfm
Alignment	SIX4.H12INVITRO.1.M.C.words.tsv
Threshold to P-value map	SIX4.H12INVITRO.1.M.C.thr
Motif in other formats
JASPAR format	SIX4.H12INVITRO.1.M.C_jaspar_format.txt
MEME format	SIX4.H12INVITRO.1.M.C_meme_format.meme
Transfac format	SIX4.H12INVITRO.1.M.C_transfac_format.txt
Homer format	SIX4.H12INVITRO.1.M.C_homer_format_0.001.txt SIX4.H12INVITRO.1.M.C_homer_format_0.0005.txt SIX4.H12INVITRO.1.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	163.0	210.0	100.0	101.0
02	205.75	114.75	177.75	75.75
03	33.0	247.0	73.0	221.0
04	69.0	81.0	417.0	7.0
05	513.0	25.0	0.0	36.0
06	0.0	169.0	0.0	405.0
07	570.0	4.0	0.0	0.0
08	0.0	574.0	0.0	0.0
09	38.0	280.0	245.0	11.0
10	58.0	275.0	25.0	216.0
11	138.0	96.0	144.0	196.0
12	206.0	213.0	51.0	104.0
13	201.0	203.0	83.0	87.0
14	191.5	217.5	92.5	72.5
15	141.75	210.75	120.75	100.75

PFM

	A	C	G	T
01	0.284	0.366	0.174	0.176
02	0.358	0.2	0.31	0.132
03	0.057	0.43	0.127	0.385
04	0.12	0.141	0.726	0.012
05	0.894	0.044	0.0	0.063
06	0.0	0.294	0.0	0.706
07	0.993	0.007	0.0	0.0
08	0.0	1.0	0.0	0.0
09	0.066	0.488	0.427	0.019
10	0.101	0.479	0.044	0.376
11	0.24	0.167	0.251	0.341
12	0.359	0.371	0.089	0.181
13	0.35	0.354	0.145	0.152
14	0.334	0.379	0.161	0.126
15	0.247	0.367	0.21	0.176

PWM

	A	C	G	T
01	0.126	0.377	-0.356	-0.347
02	0.357	-0.221	0.212	-0.629
03	-1.434	0.538	-0.665	0.428
04	-0.72	-0.563	1.06	-2.827
05	1.266	-1.697	-4.515	-1.351
06	-4.515	0.162	-4.515	1.03
07	1.371	-3.257	-4.515	-4.515
08	-4.515	1.378	-4.515	-4.515
09	-1.299	0.663	0.53	-2.445
10	-0.89	0.645	-1.697	0.405
11	-0.039	-0.397	0.003	0.309
12	0.358	0.391	-1.015	-0.318
13	0.334	0.344	-0.54	-0.493
14	0.286	0.412	-0.433	-0.672
15	-0.012	0.381	-0.171	-0.349

Standard thresholds

P-value	Threshold
0.001	5.10486
0.0005	5.90441
0.0001	7.35526