ISX.H12RSNP.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ISX.H12RSNP.2.SM.B
Gene (human)	ISX (GeneCards)
Gene synonyms (human)	RAXLX
Gene (mouse)	Isx
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	17
Consensus	ddbYMRYTAATTARbnn
GC content	30.01%
Information content (bits; total / per base)	15.452 / 0.909
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	697

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.982	0.969	0.977	0.961	0.965	0.946
Overall, 8 experiments	best	0.991	0.986	0.989	0.98	0.986	0.976
Methyl HT-SELEX, 2 experiments	median	0.986	0.976	0.981	0.968	0.972	0.956
Methyl HT-SELEX, 2 experiments	best	0.991	0.986	0.988	0.98	0.984	0.974
Non-Methyl HT-SELEX, 6 experiments	median	0.98	0.966	0.968	0.95	0.893	0.887
Non-Methyl HT-SELEX, 6 experiments	best	0.991	0.984	0.989	0.98	0.986	0.976

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.905	0.606	0.865	0.515
batch 2	0.698	0.295	0.638	0.467

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	Paired-related HD {3.1.3} (TFClass)
TF subfamily	ISX {3.1.3.12} (TFClass)
TFClass ID	TFClass: 3.1.3.12.1
HGNC	HGNC:28084
MGI	MGI:1918847
EntrezGene (human)	GeneID:91464 (SSTAR profile)
EntrezGene (mouse)	GeneID:71597 (SSTAR profile)
UniProt ID (human)	ISX_HUMAN
UniProt ID (mouse)	ISX_MOUSE
UniProt AC (human)	Q2M1V0 (TFClass)
UniProt AC (mouse)	A1A546 (TFClass)
GRECO-DB-TF	yes

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

PCM	ISX.H12RSNP.2.SM.B.pcm
PWM	ISX.H12RSNP.2.SM.B.pwm
PFM	ISX.H12RSNP.2.SM.B.pfm
Alignment	ISX.H12RSNP.2.SM.B.words.tsv
Threshold to P-value map	ISX.H12RSNP.2.SM.B.thr
Motif in other formats
JASPAR format	ISX.H12RSNP.2.SM.B_jaspar_format.txt
MEME format	ISX.H12RSNP.2.SM.B_meme_format.meme
Transfac format	ISX.H12RSNP.2.SM.B_transfac_format.txt
Homer format	ISX.H12RSNP.2.SM.B_homer_format_0.001.txt ISX.H12RSNP.2.SM.B_homer_format_0.0005.txt ISX.H12RSNP.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	295.25	98.25	135.25	168.25
02	341.25	96.25	136.25	123.25
03	102.0	103.0	165.0	327.0
04	22.0	145.0	108.0	422.0
05	425.0	141.0	104.0	27.0
06	450.0	60.0	184.0	3.0
07	6.0	203.0	17.0	471.0
08	0.0	22.0	0.0	675.0
09	697.0	0.0	0.0	0.0
10	697.0	0.0	0.0	0.0
11	0.0	0.0	0.0	697.0
12	0.0	0.0	0.0	697.0
13	579.0	0.0	118.0	0.0
14	128.0	76.0	493.0	0.0
15	102.0	324.0	133.0	138.0
16	162.5	205.5	229.5	99.5
17	205.0	144.0	115.0	233.0

PFM

	A	C	G	T
01	0.424	0.141	0.194	0.241
02	0.49	0.138	0.195	0.177
03	0.146	0.148	0.237	0.469
04	0.032	0.208	0.155	0.605
05	0.61	0.202	0.149	0.039
06	0.646	0.086	0.264	0.004
07	0.009	0.291	0.024	0.676
08	0.0	0.032	0.0	0.968
09	1.0	0.0	0.0	0.0
10	1.0	0.0	0.0	0.0
11	0.0	0.0	0.0	1.0
12	0.0	0.0	0.0	1.0
13	0.831	0.0	0.169	0.0
14	0.184	0.109	0.707	0.0
15	0.146	0.465	0.191	0.198
16	0.233	0.295	0.329	0.143
17	0.294	0.207	0.165	0.334

PWM

	A	C	G	T
01	0.524	-0.566	-0.251	-0.035
02	0.668	-0.586	-0.243	-0.342
03	-0.529	-0.519	-0.054	0.625
04	-2.007	-0.182	-0.473	0.879
05	0.886	-0.21	-0.51	-1.815
06	0.943	-1.049	0.054	-3.636
07	-3.137	0.151	-2.245	0.988
08	-4.677	-2.007	-4.677	1.347
09	1.379	-4.677	-4.677	-4.677
10	1.379	-4.677	-4.677	-4.677
11	-4.677	-4.677	-4.677	1.379
12	-4.677	-4.677	-4.677	1.379
13	1.194	-4.677	-0.385	-4.677
14	-0.305	-0.818	1.034	-4.677
15	-0.529	0.616	-0.267	-0.231
16	-0.069	0.164	0.273	-0.553
17	0.161	-0.189	-0.411	0.288

Standard thresholds

P-value	Threshold
0.001	1.96511
0.0005	3.35791
0.0001	6.35841