MSGN1.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MSGN1.H12INVITRO.0.PSM.A
Gene (human)	MSGN1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Msgn1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	nvvCAWATGGYn
GC content	47.62%
Information content (bits; total / per base)	13.06 / 1.088
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9955

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	1 (7)	0.933	0.949	0.897	0.914	0.919	0.952	4.223	4.821	383.114	394.602

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.996	0.992	0.992	0.987	0.969	0.962
Overall, 2 experiments	best	0.996	0.994	0.994	0.99	0.972	0.966
Methyl HT-SELEX, 1 experiments	median	0.996	0.994	0.994	0.99	0.972	0.966
Methyl HT-SELEX, 1 experiments	best	0.996	0.994	0.994	0.99	0.972	0.966
Non-Methyl HT-SELEX, 1 experiments	median	0.995	0.99	0.991	0.985	0.966	0.957
Non-Methyl HT-SELEX, 1 experiments	best	0.995	0.99	0.991	0.985	0.966	0.957

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	Tal-related {1.2.3} (TFClass)
TF subfamily	MESP {1.2.3.3} (TFClass)
TFClass ID	TFClass: 1.2.3.3.6
HGNC	HGNC:14907
MGI	MGI:1860483
EntrezGene (human)	GeneID:343930 (SSTAR profile)
EntrezGene (mouse)	GeneID:56184 (SSTAR profile)
UniProt ID (human)	MSGN1_HUMAN
UniProt ID (mouse)	MSGN1_MOUSE
UniProt AC (human)	A6NI15 (TFClass)
UniProt AC (mouse)	Q9JK54 (TFClass)
GRECO-DB-TF	yes

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

PCM	MSGN1.H12INVITRO.0.PSM.A.pcm
PWM	MSGN1.H12INVITRO.0.PSM.A.pwm
PFM	MSGN1.H12INVITRO.0.PSM.A.pfm
Alignment	MSGN1.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	MSGN1.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	MSGN1.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	MSGN1.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	MSGN1.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	MSGN1.H12INVITRO.0.PSM.A_homer_format_0.001.txt MSGN1.H12INVITRO.0.PSM.A_homer_format_0.0005.txt MSGN1.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2273.5	2269.5	3421.5	1990.5
02	3463.5	1319.5	4511.5	660.5
03	3113.0	4614.0	1644.0	584.0
04	8.0	9926.0	12.0	9.0
05	9942.0	2.0	8.0	3.0
06	5555.0	6.0	4.0	4390.0
07	9811.0	0.0	2.0	142.0
08	1.0	11.0	1.0	9942.0
09	0.0	2.0	9934.0	19.0
10	269.0	419.0	7912.0	1355.0
11	331.25	4211.25	550.25	4862.25
12	1926.25	3260.25	2848.25	1920.25

PFM

	A	C	G	T
01	0.228	0.228	0.344	0.2
02	0.348	0.133	0.453	0.066
03	0.313	0.463	0.165	0.059
04	0.001	0.997	0.001	0.001
05	0.999	0.0	0.001	0.0
06	0.558	0.001	0.0	0.441
07	0.986	0.0	0.0	0.014
08	0.0	0.001	0.0	0.999
09	0.0	0.0	0.998	0.002
10	0.027	0.042	0.795	0.136
11	0.033	0.423	0.055	0.488
12	0.193	0.327	0.286	0.193

PWM

	A	C	G	T
01	-0.09	-0.092	0.318	-0.223
02	0.33	-0.634	0.594	-1.324
03	0.224	0.617	-0.414	-1.447
04	-5.488	1.383	-5.16	-5.396
05	1.384	-6.362	-5.488	-6.152
06	0.802	-5.704	-5.98	0.567
07	1.371	-6.987	-6.362	-2.849
08	-6.626	-5.233	-6.626	1.384
09	-6.987	-6.362	1.383	-4.762
10	-2.217	-1.777	1.156	-0.607
11	-2.011	0.526	-1.506	0.669
12	-0.256	0.27	0.135	-0.259

Standard thresholds

P-value	Threshold
0.001	2.07181
0.0005	3.712995
0.0001	7.35957