MSGN1.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MSGN1.H12INVIVO.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	13
Consensus	vddRMCAAATGGb
GC content	49.22%
Information content (bits; total / per base)	13.925 / 1.071
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1007

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)	0.974	0.976	0.938	0.946	0.967	0.982	4.808	5.506	424.921	437.481

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.992	0.986	0.985	0.976	0.954	0.942
Overall, 2 experiments	best	0.994	0.989	0.988	0.981	0.96	0.949
Methyl HT-SELEX, 1 experiments	median	0.994	0.989	0.988	0.981	0.96	0.949
Methyl HT-SELEX, 1 experiments	best	0.994	0.989	0.988	0.981	0.96	0.949
Non-Methyl HT-SELEX, 1 experiments	median	0.99	0.983	0.982	0.972	0.948	0.934
Non-Methyl HT-SELEX, 1 experiments	best	0.99	0.983	0.982	0.972	0.948	0.934

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.H12INVIVO.0.PSM.A.pcm
PWM	MSGN1.H12INVIVO.0.PSM.A.pwm
PFM	MSGN1.H12INVIVO.0.PSM.A.pfm
Alignment	MSGN1.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	MSGN1.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	MSGN1.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	MSGN1.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	MSGN1.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	MSGN1.H12INVIVO.0.PSM.A_homer_format_0.001.txt MSGN1.H12INVIVO.0.PSM.A_homer_format_0.0005.txt MSGN1.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	288.0	178.0	375.0	166.0
02	270.0	148.0	411.0	178.0
03	283.0	104.0	472.0	148.0
04	476.0	21.0	507.0	3.0
05	463.0	386.0	153.0	5.0
06	0.0	1005.0	2.0	0.0
07	1006.0	0.0	1.0	0.0
08	778.0	0.0	166.0	63.0
09	983.0	15.0	7.0	2.0
10	68.0	9.0	1.0	929.0
11	1.0	0.0	998.0	8.0
12	2.0	28.0	933.0	44.0
13	66.0	402.0	122.0	417.0

PFM

	A	C	G	T
01	0.286	0.177	0.372	0.165
02	0.268	0.147	0.408	0.177
03	0.281	0.103	0.469	0.147
04	0.473	0.021	0.503	0.003
05	0.46	0.383	0.152	0.005
06	0.0	0.998	0.002	0.0
07	0.999	0.0	0.001	0.0
08	0.773	0.0	0.165	0.063
09	0.976	0.015	0.007	0.002
10	0.068	0.009	0.001	0.923
11	0.001	0.0	0.991	0.008
12	0.002	0.028	0.927	0.044
13	0.066	0.399	0.121	0.414

PWM

	A	C	G	T
01	0.134	-0.344	0.396	-0.413
02	0.07	-0.526	0.488	-0.344
03	0.116	-0.874	0.625	-0.526
04	0.634	-2.412	0.697	-3.982
05	0.606	0.425	-0.494	-3.629
06	-4.988	1.379	-4.219	-4.988
07	1.38	-4.988	-4.531	-4.988
08	1.124	-4.988	-0.413	-1.365
09	1.357	-2.718	-3.369	-4.219
10	-1.291	-3.162	-4.531	1.301
11	-4.531	-4.988	1.372	-3.26
12	-4.219	-2.143	1.305	-1.713
13	-1.32	0.465	-0.717	0.502

Standard thresholds

P-value	Threshold
0.001	2.86656
0.0005	4.17896
0.0001	6.829175