ISX.H12RSNP.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ISX.H12RSNP.1.S.B
Gene (human)	ISX (GeneCards)
Gene synonyms (human)	RAXLX
Gene (mouse)	Isx
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	18
Consensus	nnvYTAATTARhYWWWWd
GC content	24.88%
Information content (bits; total / per base)	16.055 / 0.892
Data sources	HT-SELEX
Aligned words	1541

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.987	0.979	0.981	0.968	0.97	0.954
Overall, 8 experiments	best	0.996	0.993	0.993	0.988	0.988	0.981
Methyl HT-SELEX, 2 experiments	median	0.991	0.984	0.986	0.977	0.976	0.964
Methyl HT-SELEX, 2 experiments	best	0.996	0.993	0.993	0.988	0.988	0.981
Non-Methyl HT-SELEX, 6 experiments	median	0.987	0.979	0.974	0.961	0.891	0.892
Non-Methyl HT-SELEX, 6 experiments	best	0.995	0.991	0.991	0.986	0.987	0.979

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.922	0.579	0.894	0.546
batch 2	0.729	0.307	0.744	0.578

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.1.S.B.pcm
PWM	ISX.H12RSNP.1.S.B.pwm
PFM	ISX.H12RSNP.1.S.B.pfm
Alignment	ISX.H12RSNP.1.S.B.words.tsv
Threshold to P-value map	ISX.H12RSNP.1.S.B.thr
Motif in other formats
JASPAR format	ISX.H12RSNP.1.S.B_jaspar_format.txt
MEME format	ISX.H12RSNP.1.S.B_meme_format.meme
Transfac format	ISX.H12RSNP.1.S.B_transfac_format.txt
Homer format	ISX.H12RSNP.1.S.B_homer_format_0.001.txt ISX.H12RSNP.1.S.B_homer_format_0.0005.txt ISX.H12RSNP.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	417.25	306.25	473.25	344.25
02	516.5	349.5	448.5	226.5
03	685.0	182.0	611.0	63.0
04	13.0	873.0	158.0	497.0
05	0.0	151.0	0.0	1390.0
06	1541.0	0.0	0.0	0.0
07	1541.0	0.0	0.0	0.0
08	0.0	0.0	0.0	1541.0
09	0.0	0.0	0.0	1541.0
10	1335.0	0.0	206.0	0.0
11	571.0	117.0	851.0	2.0
12	379.0	506.0	111.0	545.0
13	182.0	308.0	92.0	959.0
14	841.0	177.0	57.0	466.0
15	1189.0	75.0	32.0	245.0
16	514.0	87.0	120.0	820.0
17	376.0	162.0	72.0	931.0
18	567.0	152.0	224.0	598.0

PFM

	A	C	G	T
01	0.271	0.199	0.307	0.223
02	0.335	0.227	0.291	0.147
03	0.445	0.118	0.396	0.041
04	0.008	0.567	0.103	0.323
05	0.0	0.098	0.0	0.902
06	1.0	0.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.0	0.0	1.0
10	0.866	0.0	0.134	0.0
11	0.371	0.076	0.552	0.001
12	0.246	0.328	0.072	0.354
13	0.118	0.2	0.06	0.622
14	0.546	0.115	0.037	0.302
15	0.772	0.049	0.021	0.159
16	0.334	0.056	0.078	0.532
17	0.244	0.105	0.047	0.604
18	0.368	0.099	0.145	0.388

PWM

	A	C	G	T
01	0.079	-0.228	0.205	-0.112
02	0.292	-0.097	0.151	-0.528
03	0.573	-0.745	0.459	-1.787
04	-3.262	0.815	-0.885	0.254
05	-5.352	-0.929	-5.352	1.28
06	1.383	-5.352	-5.352	-5.352
07	1.383	-5.352	-5.352	-5.352
08	-5.352	-5.352	-5.352	1.383
09	-5.352	-5.352	-5.352	1.383
10	1.239	-5.352	-0.622	-5.352
11	0.392	-1.181	0.79	-4.614
12	-0.016	0.272	-1.233	0.346
13	-0.745	-0.223	-1.417	0.909
14	0.778	-0.772	-1.884	0.189
15	1.124	-1.617	-2.437	-0.45
16	0.287	-1.472	-1.156	0.753
17	-0.024	-0.86	-1.657	0.88
18	0.385	-0.923	-0.539	0.438

Standard thresholds

P-value	Threshold
0.001	1.17401
0.0005	2.72386
0.0001	6.06191