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

Motif	ISX.H12INVIVO.1.S.D
Gene (human)	ISX (GeneCards)
Gene synonyms (human)	RAXLX
Gene (mouse)	Isx
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	17
Consensus	nvbTAATTARhYWAdhd
GC content	25.4%
Information content (bits; total / per base)	16.507 / 0.971
Data sources	HT-SELEX
Aligned words	4776

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.992	0.988	0.983	0.974	0.97	0.957
Overall, 8 experiments	best	0.999	0.998	0.996	0.995	0.99	0.986
Methyl HT-SELEX, 2 experiments	median	0.995	0.992	0.989	0.984	0.978	0.968
Methyl HT-SELEX, 2 experiments	best	0.999	0.998	0.996	0.995	0.99	0.986
Non-Methyl HT-SELEX, 6 experiments	median	0.992	0.988	0.975	0.965	0.891	0.894
Non-Methyl HT-SELEX, 6 experiments	best	0.998	0.997	0.994	0.991	0.987	0.981

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.914	0.654	0.88	0.53
batch 2	0.731	0.321	0.761	0.572

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

PCM

	A	C	G	T
01	1454.75	1166.75	1150.75	1003.75
02	1221.5	632.5	2606.5	315.5
03	358.0	2228.0	693.0	1497.0
04	0.0	114.0	1.0	4661.0
05	4776.0	0.0	0.0	0.0
06	4776.0	0.0	0.0	0.0
07	0.0	0.0	0.0	4776.0
08	0.0	0.0	0.0	4776.0
09	3861.0	0.0	915.0	0.0
10	1118.0	178.0	3474.0	6.0
11	2825.0	934.0	408.0	609.0
12	301.0	640.0	330.0	3505.0
13	1054.0	322.0	141.0	3259.0
14	4139.0	184.0	82.0	371.0
15	2200.0	564.0	705.0	1307.0
16	783.25	1237.25	471.25	2284.25
17	1345.5	671.5	773.5	1985.5

PFM

	A	C	G	T
01	0.305	0.244	0.241	0.21
02	0.256	0.132	0.546	0.066
03	0.075	0.466	0.145	0.313
04	0.0	0.024	0.0	0.976
05	1.0	0.0	0.0	0.0
06	1.0	0.0	0.0	0.0
07	0.0	0.0	0.0	1.0
08	0.0	0.0	0.0	1.0
09	0.808	0.0	0.192	0.0
10	0.234	0.037	0.727	0.001
11	0.591	0.196	0.085	0.128
12	0.063	0.134	0.069	0.734
13	0.221	0.067	0.03	0.682
14	0.867	0.039	0.017	0.078
15	0.461	0.118	0.148	0.274
16	0.164	0.259	0.099	0.478
17	0.282	0.141	0.162	0.416

PWM

	A	C	G	T
01	0.197	-0.023	-0.037	-0.173
02	0.023	-0.634	0.78	-1.326
03	-1.2	0.623	-0.543	0.226
04	-6.336	-2.332	-5.95	1.361
05	1.385	-6.336	-6.336	-6.336
06	1.385	-6.336	-6.336	-6.336
07	-6.336	-6.336	-6.336	1.385
08	-6.336	-6.336	-6.336	1.385
09	1.172	-6.336	-0.266	-6.336
10	-0.066	-1.893	1.067	-4.993
11	0.86	-0.245	-1.07	-0.672
12	-1.373	-0.622	-1.281	1.076
13	-0.124	-1.306	-2.123	1.003
14	1.242	-1.86	-2.655	-1.165
15	0.61	-0.748	-0.526	0.09
16	-0.421	0.036	-0.927	0.648
17	0.119	-0.574	-0.433	0.508

Standard thresholds

P-value	Threshold
0.001	0.18686
0.0005	1.93311
0.0001	5.71296