NKX61.H12CORE.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NKX61.H12CORE.0.PS.A
Gene (human)	NKX6-1 (GeneCards)
Gene synonyms (human)	NKX6A
Gene (mouse)	Nkx6-1
Gene synonyms (mouse)	Nkx6.1, Nkx6a
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	20
Consensus	dRhdRATKdvndWWWRAWdd
GC content	30.16%
Information content (bits; total / per base)	12.426 / 0.621
Data sources	ChIP-Seq + HT-SELEX
Aligned words	997

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	3 (19)	0.81	0.87	0.696	0.777	0.84	0.893	3.284	3.743	188.013	324.796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 6 experiments	median	0.735	0.701	0.634	0.623	0.566	0.574
Non-Methyl HT-SELEX, 6 experiments	best	0.959	0.941	0.908	0.88	0.821	0.798

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	NK6 {3.1.2.19} (TFClass)
TFClass ID	TFClass: 3.1.2.19.1
HGNC	HGNC:7839
MGI	MGI:1206039
EntrezGene (human)	GeneID:4825 (SSTAR profile)
EntrezGene (mouse)	GeneID:18096 (SSTAR profile)
UniProt ID (human)	NKX61_HUMAN
UniProt ID (mouse)	NKX61_MOUSE
UniProt AC (human)	P78426 (TFClass)
UniProt AC (mouse)	Q99MA9 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 3 mouse
HT-SELEX	6
Methyl-HT-SELEX	0

PCM	NKX61.H12CORE.0.PS.A.pcm
PWM	NKX61.H12CORE.0.PS.A.pwm
PFM	NKX61.H12CORE.0.PS.A.pfm
Alignment	NKX61.H12CORE.0.PS.A.words.tsv
Threshold to P-value map	NKX61.H12CORE.0.PS.A.thr
Motif in other formats
JASPAR format	NKX61.H12CORE.0.PS.A_jaspar_format.txt
MEME format	NKX61.H12CORE.0.PS.A_meme_format.meme
Transfac format	NKX61.H12CORE.0.PS.A_transfac_format.txt
Homer format	NKX61.H12CORE.0.PS.A_homer_format_0.001.txt NKX61.H12CORE.0.PS.A_homer_format_0.0005.txt NKX61.H12CORE.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	243.0	80.0	528.0	146.0
02	691.0	86.0	135.0	85.0
03	160.0	247.0	126.0	464.0
04	297.0	51.0	141.0	508.0
05	608.0	48.0	268.0	73.0
06	973.0	8.0	9.0	7.0
07	51.0	37.0	98.0	811.0
08	33.0	81.0	567.0	316.0
09	382.0	67.0	405.0	143.0
10	126.0	351.0	420.0	100.0
11	349.0	215.0	135.0	298.0
12	398.0	95.0	121.0	383.0
13	382.0	45.0	48.0	522.0
14	285.0	48.0	40.0	624.0
15	119.0	83.0	38.0	757.0
16	630.0	95.0	248.0	24.0
17	981.0	0.0	12.0	4.0
18	110.0	38.0	62.0	787.0
19	163.0	53.0	376.0	405.0
20	380.0	83.0	425.0	109.0

PFM

	A	C	G	T
01	0.244	0.08	0.53	0.146
02	0.693	0.086	0.135	0.085
03	0.16	0.248	0.126	0.465
04	0.298	0.051	0.141	0.51
05	0.61	0.048	0.269	0.073
06	0.976	0.008	0.009	0.007
07	0.051	0.037	0.098	0.813
08	0.033	0.081	0.569	0.317
09	0.383	0.067	0.406	0.143
10	0.126	0.352	0.421	0.1
11	0.35	0.216	0.135	0.299
12	0.399	0.095	0.121	0.384
13	0.383	0.045	0.048	0.524
14	0.286	0.048	0.04	0.626
15	0.119	0.083	0.038	0.759
16	0.632	0.095	0.249	0.024
17	0.984	0.0	0.012	0.004
18	0.11	0.038	0.062	0.789
19	0.163	0.053	0.377	0.406
20	0.381	0.083	0.426	0.109

PWM

	A	C	G	T
01	-0.025	-1.122	0.747	-0.53
02	1.015	-1.051	-0.607	-1.063
03	-0.439	-0.009	-0.675	0.618
04	0.174	-1.56	-0.564	0.709
05	0.888	-1.619	0.072	-1.212
06	1.357	-3.251	-3.153	-3.359
07	-1.56	-1.869	-0.923	1.175
08	-1.978	-1.11	0.818	0.236
09	0.425	-1.295	0.483	-0.551
10	-0.675	0.34	0.519	-0.903
11	0.335	-0.147	-0.607	0.178
12	0.465	-0.953	-0.715	0.427
13	0.425	-1.681	-1.619	0.736
14	0.133	-1.619	-1.794	0.914
15	-0.732	-1.086	-1.843	1.106
16	0.923	-0.953	-0.005	-2.278
17	1.365	-4.979	-2.906	-3.78
18	-0.809	-1.843	-1.371	1.145
19	-0.421	-1.523	0.409	0.483
20	0.419	-1.086	0.531	-0.818

Standard thresholds

P-value	Threshold
0.001	4.14786
0.0005	5.09286
0.0001	7.05116