ISX.H12INVITRO.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ISX.H12INVITRO.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	19
Consensus	hddbhRRYTAATTASbvnn
GC content	33.28%
Information content (bits; total / per base)	15.633 / 0.823
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	662

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.984	0.973	0.979	0.964	0.965	0.948
Overall, 8 experiments	best	0.993	0.988	0.99	0.983	0.987	0.978
Methyl HT-SELEX, 2 experiments	median	0.988	0.979	0.983	0.971	0.974	0.959
Methyl HT-SELEX, 2 experiments	best	0.993	0.988	0.99	0.983	0.985	0.976
Non-Methyl HT-SELEX, 6 experiments	median	0.983	0.971	0.97	0.954	0.889	0.887
Non-Methyl HT-SELEX, 6 experiments	best	0.992	0.986	0.99	0.982	0.987	0.978

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.883	0.602	0.864	0.532
batch 2	0.662	0.277	0.663	0.51

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.2.SM.B.pcm
PWM	ISX.H12INVITRO.2.SM.B.pwm
PFM	ISX.H12INVITRO.2.SM.B.pfm
Alignment	ISX.H12INVITRO.2.SM.B.words.tsv
Threshold to P-value map	ISX.H12INVITRO.2.SM.B.thr
Motif in other formats
JASPAR format	ISX.H12INVITRO.2.SM.B_jaspar_format.txt
MEME format	ISX.H12INVITRO.2.SM.B_meme_format.meme
Transfac format	ISX.H12INVITRO.2.SM.B_transfac_format.txt
Homer format	ISX.H12INVITRO.2.SM.B_homer_format_0.001.txt ISX.H12INVITRO.2.SM.B_homer_format_0.0005.txt ISX.H12INVITRO.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	173.75	137.75	98.75	251.75
02	326.5	80.5	140.5	114.5
03	279.0	81.0	176.0	126.0
04	62.0	117.0	125.0	358.0
05	84.0	153.0	73.0	352.0
06	467.0	50.0	140.0	5.0
07	408.0	49.0	169.0	36.0
08	0.0	212.0	43.0	407.0
09	0.0	50.0	0.0	612.0
10	662.0	0.0	0.0	0.0
11	662.0	0.0	0.0	0.0
12	0.0	0.0	0.0	662.0
13	0.0	0.0	0.0	662.0
14	566.0	0.0	96.0	0.0
15	68.0	74.0	509.0	11.0
16	56.0	270.0	143.0	193.0
17	143.0	204.0	266.0	49.0
18	163.0	235.0	166.0	98.0
19	111.75	149.75	177.75	222.75

PFM

	A	C	G	T
01	0.262	0.208	0.149	0.38
02	0.493	0.122	0.212	0.173
03	0.421	0.122	0.266	0.19
04	0.094	0.177	0.189	0.541
05	0.127	0.231	0.11	0.532
06	0.705	0.076	0.211	0.008
07	0.616	0.074	0.255	0.054
08	0.0	0.32	0.065	0.615
09	0.0	0.076	0.0	0.924
10	1.0	0.0	0.0	0.0
11	1.0	0.0	0.0	0.0
12	0.0	0.0	0.0	1.0
13	0.0	0.0	0.0	1.0
14	0.855	0.0	0.145	0.0
15	0.103	0.112	0.769	0.017
16	0.085	0.408	0.216	0.292
17	0.216	0.308	0.402	0.074
18	0.246	0.355	0.251	0.148
19	0.169	0.226	0.269	0.336

PWM

	A	C	G	T
01	0.048	-0.182	-0.51	0.416
02	0.675	-0.711	-0.162	-0.364
03	0.518	-0.704	0.061	-0.27
04	-0.966	-0.343	-0.278	0.766
05	-0.669	-0.078	-0.806	0.749
06	1.031	-1.175	-0.166	-3.228
07	0.897	-1.194	0.021	-1.491
08	-4.634	0.245	-1.32	0.894
09	-4.634	-1.175	-4.634	1.301
10	1.379	-4.634	-4.634	-4.634
11	1.379	-4.634	-4.634	-4.634
12	-4.634	-4.634	-4.634	1.379
13	-4.634	-4.634	-4.634	1.379
14	1.223	-4.634	-0.538	-4.634
15	-0.876	-0.793	1.117	-2.583
16	-1.065	0.486	-0.145	0.152
17	-0.145	0.207	0.471	-1.194
18	-0.015	0.348	0.003	-0.517
19	-0.388	-0.099	0.071	0.295

Standard thresholds

P-value	Threshold
0.001	2.02356
0.0005	3.41651
0.0001	6.40486