MEIS3.H12INVIVO.1.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MEIS3.H12INVIVO.1.S.D
Gene (human)	MEIS3 (GeneCards)
Gene synonyms (human)	MRG2
Gene (mouse)	Meis3
Gene synonyms (mouse)	Mrg2
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	20
Consensus	nhTGACAGSTKKhMvvnnnn
GC content	49.32%
Information content (bits; total / per base)	15.337 / 0.767
Data sources	HT-SELEX
Aligned words	2236

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.986	0.979	0.956	0.944	0.865	0.856
Overall, 6 experiments	best	0.994	0.992	0.988	0.981	0.978	0.967
Methyl HT-SELEX, 1 experiments	median	0.99	0.984	0.981	0.97	0.967	0.952
Methyl HT-SELEX, 1 experiments	best	0.99	0.984	0.981	0.97	0.967	0.952
Non-Methyl HT-SELEX, 5 experiments	median	0.982	0.975	0.94	0.923	0.842	0.83
Non-Methyl HT-SELEX, 5 experiments	best	0.994	0.992	0.988	0.981	0.978	0.967

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.832	0.644	0.789	0.505

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	TALE-type HD {3.1.4} (TFClass)
TF subfamily	MEIS {3.1.4.2} (TFClass)
TFClass ID	TFClass: 3.1.4.2.3
HGNC	HGNC:29537
MGI	MGI:108519
EntrezGene (human)	GeneID:56917 (SSTAR profile)
EntrezGene (mouse)	GeneID:17537 (SSTAR profile)
UniProt ID (human)	MEIS3_HUMAN
UniProt ID (mouse)	MEIS3_MOUSE
UniProt AC (human)	Q99687 (TFClass)
UniProt AC (mouse)	P97368 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	5
Methyl-HT-SELEX	1

PCM	MEIS3.H12INVIVO.1.S.D.pcm
PWM	MEIS3.H12INVIVO.1.S.D.pwm
PFM	MEIS3.H12INVIVO.1.S.D.pfm
Alignment	MEIS3.H12INVIVO.1.S.D.words.tsv
Threshold to P-value map	MEIS3.H12INVIVO.1.S.D.thr
Motif in other formats
JASPAR format	MEIS3.H12INVIVO.1.S.D_jaspar_format.txt
MEME format	MEIS3.H12INVIVO.1.S.D_meme_format.meme
Transfac format	MEIS3.H12INVIVO.1.S.D_transfac_format.txt
Homer format	MEIS3.H12INVIVO.1.S.D_homer_format_0.001.txt MEIS3.H12INVIVO.1.S.D_homer_format_0.0005.txt MEIS3.H12INVIVO.1.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	708.5	603.5	495.5	428.5
02	720.75	670.75	234.75	609.75
03	76.0	130.0	27.0	2003.0
04	2.0	0.0	2234.0	0.0
05	2092.0	1.0	10.0	133.0
06	0.0	2234.0	0.0	2.0
07	2233.0	0.0	3.0	0.0
08	50.0	167.0	1992.0	27.0
09	36.0	1603.0	552.0	45.0
10	32.0	230.0	41.0	1933.0
11	103.0	91.0	1421.0	621.0
12	129.0	116.0	516.0	1475.0
13	262.0	1327.0	242.0	405.0
14	1380.0	478.0	157.0	221.0
15	1125.0	436.0	368.0	307.0
16	875.0	469.0	555.0	337.0
17	527.0	693.0	597.0	419.0
18	449.0	489.0	540.0	758.0
19	416.75	512.75	619.75	686.75
20	422.25	536.25	662.25	615.25

PFM

	A	C	G	T
01	0.317	0.27	0.222	0.192
02	0.322	0.3	0.105	0.273
03	0.034	0.058	0.012	0.896
04	0.001	0.0	0.999	0.0
05	0.936	0.0	0.004	0.059
06	0.0	0.999	0.0	0.001
07	0.999	0.0	0.001	0.0
08	0.022	0.075	0.891	0.012
09	0.016	0.717	0.247	0.02
10	0.014	0.103	0.018	0.864
11	0.046	0.041	0.636	0.278
12	0.058	0.052	0.231	0.66
13	0.117	0.593	0.108	0.181
14	0.617	0.214	0.07	0.099
15	0.503	0.195	0.165	0.137
16	0.391	0.21	0.248	0.151
17	0.236	0.31	0.267	0.187
18	0.201	0.219	0.242	0.339
19	0.186	0.229	0.277	0.307
20	0.189	0.24	0.296	0.275

PWM

	A	C	G	T
01	0.236	0.076	-0.12	-0.265
02	0.253	0.182	-0.863	0.087
03	-1.974	-1.447	-2.965	1.274
04	-4.961	-5.673	1.383	-5.673
05	1.317	-5.255	-3.851	-1.425
06	-5.673	1.383	-5.673	-4.961
07	1.382	-5.673	-4.735	-5.673
08	-2.38	-1.2	1.268	-2.965
09	-2.694	1.051	-0.013	-2.481
10	-2.805	-0.883	-2.57	1.238
11	-1.676	-1.798	0.931	0.105
12	-1.455	-1.56	-0.08	0.968
13	-0.754	0.863	-0.833	-0.321
14	0.902	-0.156	-1.261	-0.923
15	0.698	-0.248	-0.416	-0.596
16	0.447	-0.175	-0.007	-0.504
17	-0.059	0.214	0.066	-0.287
18	-0.218	-0.133	-0.034	0.304
19	-0.292	-0.086	0.103	0.205
20	-0.279	-0.041	0.169	0.096

Standard thresholds

P-value	Threshold
0.001	2.33116
0.0005	3.69626
0.0001	6.45171