NKX62.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NKX62.H12INVITRO.0.SM.B
Gene (human)	NKX6-2 (GeneCards)
Gene synonyms (human)	GTX, NKX6B
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	12
Consensus	nvWTAATKAbbn
GC content	32.11%
Information content (bits; total / per base)	10.462 / 0.872
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9850

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.942	0.906	0.917	0.876	0.866	0.826
Overall, 8 experiments	best	0.96	0.936	0.942	0.91	0.904	0.866
Methyl HT-SELEX, 2 experiments	median	0.918	0.87	0.896	0.844	0.858	0.807
Methyl HT-SELEX, 2 experiments	best	0.947	0.914	0.923	0.884	0.882	0.84
Non-Methyl HT-SELEX, 6 experiments	median	0.945	0.91	0.923	0.882	0.875	0.837
Non-Methyl HT-SELEX, 6 experiments	best	0.96	0.936	0.942	0.91	0.904	0.866

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: 3.1.2.19.2
HGNC	HGNC:19321
MGI
EntrezGene (human)	GeneID:84504 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	NKX62_HUMAN
UniProt ID (mouse)
UniProt AC (human)	Q9C056 (TFClass)
UniProt AC (mouse)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	6
Methyl-HT-SELEX	2

PCM	NKX62.H12INVITRO.0.SM.B.pcm
PWM	NKX62.H12INVITRO.0.SM.B.pwm
PFM	NKX62.H12INVITRO.0.SM.B.pfm
Alignment	NKX62.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	NKX62.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	NKX62.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	NKX62.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	NKX62.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	NKX62.H12INVITRO.0.SM.B_homer_format_0.001.txt NKX62.H12INVITRO.0.SM.B_homer_format_0.0005.txt NKX62.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2477.75	2673.75	2322.75	2375.75
02	4146.5	1795.5	2622.5	1285.5
03	1301.0	434.0	1189.0	6926.0
04	3.0	383.0	0.0	9464.0
05	9722.0	0.0	127.0	1.0
06	9850.0	0.0	0.0	0.0
07	0.0	5.0	1.0	9844.0
08	316.0	726.0	3804.0	5004.0
09	7180.0	20.0	2632.0	18.0
10	947.0	4210.0	3268.0	1425.0
11	1277.5	3323.5	3294.5	1954.5
12	2189.0	2806.0	2313.0	2542.0

PFM

	A	C	G	T
01	0.252	0.271	0.236	0.241
02	0.421	0.182	0.266	0.131
03	0.132	0.044	0.121	0.703
04	0.0	0.039	0.0	0.961
05	0.987	0.0	0.013	0.0
06	1.0	0.0	0.0	0.0
07	0.0	0.001	0.0	0.999
08	0.032	0.074	0.386	0.508
09	0.729	0.002	0.267	0.002
10	0.096	0.427	0.332	0.145
11	0.13	0.337	0.334	0.198
12	0.222	0.285	0.235	0.258

PWM

	A	C	G	T
01	0.006	0.082	-0.058	-0.036
02	0.521	-0.316	0.063	-0.649
03	-0.637	-1.732	-0.727	1.034
04	-6.142	-1.856	-6.977	1.346
05	1.373	-6.977	-2.948	-6.616
06	1.386	-6.977	-6.977	-6.977
07	-6.977	-5.822	-6.616	1.385
08	-2.047	-1.219	0.435	0.709
09	1.07	-4.705	0.067	-4.799
10	-0.954	0.536	0.283	-0.546
11	-0.655	0.3	0.291	-0.231
12	-0.118	0.13	-0.063	0.032

Standard thresholds

P-value	Threshold
0.001	4.799325
0.0005	5.910265
0.0001	7.66143