ARNT2.H12INVITRO.2.S.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ARNT2.H12INVITRO.2.S.C
Gene (human)	ARNT2 (GeneCards)
Gene synonyms (human)	BHLHE1, KIAA0307
Gene (mouse)	Arnt2
Gene synonyms (mouse)	Kiaa0307
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	C

Motif length	12
Consensus	ndCACGTGAYnn
GC content	56.55%
Information content (bits; total / per base)	14.852 / 1.238
Data sources	HT-SELEX
Aligned words	8586

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	13 (90)	0.516	0.533	0.37	0.4	0.527	0.615	1.28	1.639	15.073	38.31

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 1 experiments	median	0.998	0.997	0.99	0.988	0.843	0.861
Non-Methyl HT-SELEX, 1 experiments	best	0.998	0.997	0.99	0.988	0.843	0.861

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	PAS {1.2.5} (TFClass)
TF subfamily	PAS-ARNT {1.2.5.2} (TFClass)
TFClass ID	TFClass: 1.2.5.2.2
HGNC	HGNC:16876
MGI	MGI:107188
EntrezGene (human)	GeneID:9915 (SSTAR profile)
EntrezGene (mouse)	GeneID:11864 (SSTAR profile)
UniProt ID (human)	ARNT2_HUMAN
UniProt ID (mouse)	ARNT2_MOUSE
UniProt AC (human)	Q9HBZ2 (TFClass)
UniProt AC (mouse)	Q61324 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 13 mouse
HT-SELEX	1
Methyl-HT-SELEX	0

PCM	ARNT2.H12INVITRO.2.S.C.pcm
PWM	ARNT2.H12INVITRO.2.S.C.pwm
PFM	ARNT2.H12INVITRO.2.S.C.pfm
Alignment	ARNT2.H12INVITRO.2.S.C.words.tsv
Threshold to P-value map	ARNT2.H12INVITRO.2.S.C.thr
Motif in other formats
JASPAR format	ARNT2.H12INVITRO.2.S.C_jaspar_format.txt
MEME format	ARNT2.H12INVITRO.2.S.C_meme_format.meme
Transfac format	ARNT2.H12INVITRO.2.S.C_transfac_format.txt
Homer format	ARNT2.H12INVITRO.2.S.C_homer_format_0.001.txt ARNT2.H12INVITRO.2.S.C_homer_format_0.0005.txt ARNT2.H12INVITRO.2.S.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2241.0	2468.0	2077.0	1800.0
02	1098.75	867.75	3837.75	2781.75
03	0.0	8586.0	0.0	0.0
04	8586.0	0.0	0.0	0.0
05	0.0	8586.0	0.0	0.0
06	0.0	0.0	8586.0	0.0
07	0.0	0.0	0.0	8586.0
08	0.0	0.0	8586.0	0.0
09	8586.0	0.0	0.0	0.0
10	221.0	5244.0	1141.0	1980.0
11	2080.75	2693.75	1357.75	2453.75
12	2163.75	2363.75	1869.75	2188.75

PFM

	A	C	G	T
01	0.261	0.287	0.242	0.21
02	0.128	0.101	0.447	0.324
03	0.0	1.0	0.0	0.0
04	1.0	0.0	0.0	0.0
05	0.0	1.0	0.0	0.0
06	0.0	0.0	1.0	0.0
07	0.0	0.0	0.0	1.0
08	0.0	0.0	1.0	0.0
09	1.0	0.0	0.0	0.0
10	0.026	0.611	0.133	0.231
11	0.242	0.314	0.158	0.286
12	0.252	0.275	0.218	0.255

PWM

	A	C	G	T
01	0.043	0.139	-0.033	-0.176
02	-0.669	-0.904	0.581	0.259
03	-6.855	1.386	-6.855	-6.855
04	1.386	-6.855	-6.855	-6.855
05	-6.855	1.386	-6.855	-6.855
06	-6.855	-6.855	1.386	-6.855
07	-6.855	-6.855	-6.855	1.386
08	-6.855	-6.855	1.386	-6.855
09	1.386	-6.855	-6.855	-6.855
10	-2.264	0.893	-0.631	-0.081
11	-0.031	0.227	-0.457	0.134
12	0.008	0.096	-0.138	0.019

Standard thresholds

P-value	Threshold
0.001	-0.146085
0.0005	1.43493
0.0001	2.98537