RX.H12INVIVO.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	RX.H12INVIVO.0.SM.D
Gene (human)	RAX (GeneCards)
Gene synonyms (human)	RX
Gene (mouse)	Rax
Gene synonyms (mouse)	Rx
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	16
Consensus	nbnRnYTAATTAvbvn
GC content	32.56%
Information content (bits; total / per base)	12.76 / 0.797
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9998

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.798	0.784	0.766	0.759	0.748	0.742
Overall, 4 experiments	best	0.99	0.983	0.985	0.975	0.974	0.961
Methyl HT-SELEX, 1 experiments	median	0.987	0.977	0.981	0.968	0.971	0.955
Methyl HT-SELEX, 1 experiments	best	0.987	0.977	0.981	0.968	0.971	0.955
Non-Methyl HT-SELEX, 3 experiments	median	0.609	0.591	0.552	0.55	0.525	0.53
Non-Methyl HT-SELEX, 3 experiments	best	0.99	0.983	0.985	0.975	0.974	0.961

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	RAX {3.1.3.22} (TFClass)
TFClass ID	TFClass: 3.1.3.22.1
HGNC	HGNC:18662
MGI	MGI:109632
EntrezGene (human)	GeneID:30062 (SSTAR profile)
EntrezGene (mouse)	GeneID:19434 (SSTAR profile)
UniProt ID (human)	RX_HUMAN
UniProt ID (mouse)	RX_MOUSE
UniProt AC (human)	Q9Y2V3 (TFClass)
UniProt AC (mouse)	O35602 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	RX.H12INVIVO.0.SM.D.pcm
PWM	RX.H12INVIVO.0.SM.D.pwm
PFM	RX.H12INVIVO.0.SM.D.pfm
Alignment	RX.H12INVIVO.0.SM.D.words.tsv
Threshold to P-value map	RX.H12INVIVO.0.SM.D.thr
Motif in other formats
JASPAR format	RX.H12INVIVO.0.SM.D_jaspar_format.txt
MEME format	RX.H12INVIVO.0.SM.D_meme_format.meme
Transfac format	RX.H12INVIVO.0.SM.D_transfac_format.txt
Homer format	RX.H12INVIVO.0.SM.D_homer_format_0.001.txt RX.H12INVIVO.0.SM.D_homer_format_0.0005.txt RX.H12INVIVO.0.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3044.0	2452.0	1957.0	2545.0
02	1308.5	2020.5	1397.5	5271.5
03	2857.0	2231.0	1534.0	3376.0
04	6050.0	1523.0	1990.0	435.0
05	3781.0	1613.0	2118.0	2486.0
06	17.0	4227.0	1193.0	4561.0
07	39.0	2237.0	133.0	7589.0
08	9875.0	26.0	97.0	0.0
09	9994.0	2.0	2.0	0.0
10	0.0	1.0	0.0	9997.0
11	0.0	43.0	0.0	9955.0
12	9649.0	4.0	333.0	12.0
13	2447.0	1949.0	4707.0	895.0
14	576.0	4470.0	2516.0	2436.0
15	2378.0	2171.0	4002.0	1447.0
16	2480.25	2678.25	2459.25	2380.25

PFM

	A	C	G	T
01	0.304	0.245	0.196	0.255
02	0.131	0.202	0.14	0.527
03	0.286	0.223	0.153	0.338
04	0.605	0.152	0.199	0.044
05	0.378	0.161	0.212	0.249
06	0.002	0.423	0.119	0.456
07	0.004	0.224	0.013	0.759
08	0.988	0.003	0.01	0.0
09	1.0	0.0	0.0	0.0
10	0.0	0.0	0.0	1.0
11	0.0	0.004	0.0	0.996
12	0.965	0.0	0.033	0.001
13	0.245	0.195	0.471	0.09
14	0.058	0.447	0.252	0.244
15	0.238	0.217	0.4	0.145
16	0.248	0.268	0.246	0.238

PWM

	A	C	G	T
01	0.197	-0.019	-0.244	0.018
02	-0.646	-0.213	-0.581	0.746
03	0.134	-0.114	-0.488	0.3
04	0.883	-0.495	-0.228	-1.744
05	0.414	-0.437	-0.165	-0.005
06	-4.865	0.525	-0.739	0.601
07	-4.104	-0.111	-2.917	1.11
08	1.373	-4.482	-3.227	-6.991
09	1.385	-6.366	-6.366	-6.991
10	-6.991	-6.63	-6.991	1.386
11	-6.991	-4.011	-6.991	1.381
12	1.35	-5.984	-2.01	-5.164
13	-0.021	-0.249	0.633	-1.025
14	-1.465	0.581	0.007	-0.026
15	-0.05	-0.141	0.47	-0.546
16	-0.008	0.069	-0.016	-0.049

Standard thresholds

P-value	Threshold
0.001	2.75356
0.0005	4.34361
0.0001	7.51461