ISX.H12INVITRO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ISX.H12INVITRO.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	17
Consensus	nvYTAATTAGhYWAdhd
GC content	26.57%
Information content (bits; total / per base)	16.269 / 0.957
Data sources	HT-SELEX
Aligned words	5166

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.991	0.986	0.984	0.974	0.972	0.958
Overall, 8 experiments	best	0.998	0.997	0.996	0.994	0.99	0.986
Methyl HT-SELEX, 2 experiments	median	0.994	0.99	0.989	0.983	0.979	0.969
Methyl HT-SELEX, 2 experiments	best	0.998	0.997	0.996	0.994	0.99	0.986
Non-Methyl HT-SELEX, 6 experiments	median	0.991	0.986	0.976	0.966	0.894	0.896
Non-Methyl HT-SELEX, 6 experiments	best	0.997	0.995	0.994	0.99	0.988	0.982

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.916	0.647	0.881	0.535
batch 2	0.725	0.303	0.751	0.568

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.H12INVITRO.1.S.B.pcm
PWM	ISX.H12INVITRO.1.S.B.pwm
PFM	ISX.H12INVITRO.1.S.B.pfm
Alignment	ISX.H12INVITRO.1.S.B.words.tsv
Threshold to P-value map	ISX.H12INVITRO.1.S.B.thr
Motif in other formats
JASPAR format	ISX.H12INVITRO.1.S.B_jaspar_format.txt
MEME format	ISX.H12INVITRO.1.S.B_meme_format.meme
Transfac format	ISX.H12INVITRO.1.S.B_transfac_format.txt
Homer format	ISX.H12INVITRO.1.S.B_homer_format_0.001.txt ISX.H12INVITRO.1.S.B_homer_format_0.0005.txt ISX.H12INVITRO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1575.0	1267.0	1308.0	1016.0
02	1546.0	657.0	2701.0	262.0
03	198.0	2794.0	695.0	1479.0
04	0.0	229.0	0.0	4937.0
05	5166.0	0.0	0.0	0.0
06	5166.0	0.0	0.0	0.0
07	0.0	0.0	0.0	5166.0
08	0.0	0.0	0.0	5166.0
09	3913.0	0.0	1253.0	0.0
10	593.0	114.0	4459.0	0.0
11	2526.0	1298.0	435.0	907.0
12	519.0	866.0	456.0	3325.0
13	1594.0	506.0	166.0	2900.0
14	4194.0	226.0	74.0	672.0
15	2199.0	450.0	670.0	1847.0
16	1077.0	976.0	354.0	2759.0
17	1568.5	546.5	831.5	2219.5

PFM

	A	C	G	T
01	0.305	0.245	0.253	0.197
02	0.299	0.127	0.523	0.051
03	0.038	0.541	0.135	0.286
04	0.0	0.044	0.0	0.956
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	0.757	0.0	0.243	0.0
10	0.115	0.022	0.863	0.0
11	0.489	0.251	0.084	0.176
12	0.1	0.168	0.088	0.644
13	0.309	0.098	0.032	0.561
14	0.812	0.044	0.014	0.13
15	0.426	0.087	0.13	0.358
16	0.208	0.189	0.069	0.534
17	0.304	0.106	0.161	0.43

PWM

	A	C	G	T
01	0.198	-0.019	0.013	-0.239
02	0.18	-0.674	0.737	-1.589
03	-1.866	0.771	-0.618	0.135
04	-6.406	-1.722	-6.406	1.34
05	1.385	-6.406	-6.406	-6.406
06	1.385	-6.406	-6.406	-6.406
07	-6.406	-6.406	-6.406	1.385
08	-6.406	-6.406	-6.406	1.385
09	1.107	-6.406	-0.03	-6.406
10	-0.776	-2.41	1.238	-6.406
11	0.67	0.005	-1.085	-0.353
12	-0.909	-0.399	-1.038	0.945
13	0.21	-0.934	-2.04	0.808
14	1.177	-1.735	-2.833	-0.652
15	0.532	-1.051	-0.655	0.357
16	-0.181	-0.28	-1.29	0.758
17	0.194	-0.858	-0.439	0.541

Standard thresholds

P-value	Threshold
0.001	0.17496
0.0005	1.93966
0.0001	5.81156