NKX61.H12INVITRO.2.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NKX61.H12INVITRO.2.S.B
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	2
Quality	B

Motif length	13
Consensus	nndTTAATKAbnn
GC content	29.54%
Information content (bits; total / per base)	11.784 / 0.906
Data sources	HT-SELEX
Aligned words	9523

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)	0.736	0.775	0.546	0.609	0.696	0.778	1.854	2.248	62.959	129.292

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 6 experiments	median	0.909	0.87	0.808	0.78	0.676	0.682
Non-Methyl HT-SELEX, 6 experiments	best	0.98	0.967	0.97	0.952	0.948	0.925

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.H12INVITRO.2.S.B.pcm
PWM	NKX61.H12INVITRO.2.S.B.pwm
PFM	NKX61.H12INVITRO.2.S.B.pfm
Alignment	NKX61.H12INVITRO.2.S.B.words.tsv
Threshold to P-value map	NKX61.H12INVITRO.2.S.B.thr
Motif in other formats
JASPAR format	NKX61.H12INVITRO.2.S.B_jaspar_format.txt
MEME format	NKX61.H12INVITRO.2.S.B_meme_format.meme
Transfac format	NKX61.H12INVITRO.2.S.B_transfac_format.txt
Homer format	NKX61.H12INVITRO.2.S.B_homer_format_0.001.txt NKX61.H12INVITRO.2.S.B_homer_format_0.0005.txt NKX61.H12INVITRO.2.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2222.75	2666.75	2094.75	2538.75
02	2616.25	2746.25	1993.25	2167.25
03	4792.0	1326.0	1764.0	1641.0
04	1032.0	112.0	504.0	7875.0
05	0.0	32.0	0.0	9491.0
06	9521.0	0.0	2.0	0.0
07	9523.0	0.0	0.0	0.0
08	0.0	0.0	2.0	9521.0
09	105.0	86.0	3692.0	5640.0
10	7563.0	10.0	1940.0	10.0
11	877.0	4189.0	3056.0	1401.0
12	1318.5	3346.5	2732.5	2125.5
13	2383.0	2456.0	1823.0	2861.0

PFM

	A	C	G	T
01	0.233	0.28	0.22	0.267
02	0.275	0.288	0.209	0.228
03	0.503	0.139	0.185	0.172
04	0.108	0.012	0.053	0.827
05	0.0	0.003	0.0	0.997
06	1.0	0.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.0	1.0
09	0.011	0.009	0.388	0.592
10	0.794	0.001	0.204	0.001
11	0.092	0.44	0.321	0.147
12	0.138	0.351	0.287	0.223
13	0.25	0.258	0.191	0.3

PWM

	A	C	G	T
01	-0.069	0.113	-0.128	0.064
02	0.094	0.143	-0.177	-0.094
03	0.699	-0.584	-0.299	-0.372
04	-0.835	-3.037	-1.549	1.196
05	-6.947	-4.241	-6.947	1.382
06	1.385	-6.947	-6.32	-6.947
07	1.386	-6.947	-6.947	-6.947
08	-6.947	-6.947	-6.32	1.385
09	-3.101	-3.296	0.438	0.862
10	1.155	-5.267	-0.205	-5.267
11	-0.997	0.565	0.249	-0.53
12	-0.59	0.34	0.138	-0.113
13	0.001	0.031	-0.267	0.184

Standard thresholds

P-value	Threshold
0.001	3.35867
0.0005	5.159365
0.0001	7.78131