RORG.H12INVIVO.1.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	RORG.H12INVIVO.1.PS.A
Gene (human)	RORC (GeneCards)
Gene synonyms (human)	NR1F3, RORG, RZRG
Gene (mouse)	Rorc
Gene synonyms (mouse)	Nr1f3, Rorg, Thor
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	12
Consensus	ddAAbTRGGKCA
GC content	43.24%
Information content (bits; total / per base)	12.56 / 1.047
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1000

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Mouse	7 (44)	0.724	0.942	0.712	0.937	0.708	0.944	3.617	5.839	50.885	297.119

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.995	0.991	0.987	0.981	0.952	0.942
Overall, 2 experiments	best	0.996	0.994	0.989	0.984	0.957	0.945
Methyl HT-SELEX, 1 experiments	median	0.996	0.994	0.989	0.984	0.946	0.938
Methyl HT-SELEX, 1 experiments	best	0.996	0.994	0.989	0.984	0.946	0.938
Non-Methyl HT-SELEX, 1 experiments	median	0.993	0.989	0.986	0.978	0.957	0.945
Non-Methyl HT-SELEX, 1 experiments	best	0.993	0.989	0.986	0.978	0.957	0.945

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Nuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF family	Thyroid hormone receptor-related {2.1.2} (TFClass)
TF subfamily	ROR (NR1F) {2.1.2.6} (TFClass)
TFClass ID	TFClass: 2.1.2.6.3
HGNC	HGNC:10260
MGI	MGI:104856
EntrezGene (human)	GeneID:6097 (SSTAR profile)
EntrezGene (mouse)	GeneID:19885 (SSTAR profile)
UniProt ID (human)	RORG_HUMAN
UniProt ID (mouse)	RORG_MOUSE
UniProt AC (human)	P51449 (TFClass)
UniProt AC (mouse)	P51450 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 7 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	RORG.H12INVIVO.1.PS.A.pcm
PWM	RORG.H12INVIVO.1.PS.A.pwm
PFM	RORG.H12INVIVO.1.PS.A.pfm
Alignment	RORG.H12INVIVO.1.PS.A.words.tsv
Threshold to P-value map	RORG.H12INVIVO.1.PS.A.thr
Motif in other formats
JASPAR format	RORG.H12INVIVO.1.PS.A_jaspar_format.txt
MEME format	RORG.H12INVIVO.1.PS.A_meme_format.meme
Transfac format	RORG.H12INVIVO.1.PS.A_transfac_format.txt
Homer format	RORG.H12INVIVO.1.PS.A_homer_format_0.001.txt RORG.H12INVIVO.1.PS.A_homer_format_0.0005.txt RORG.H12INVIVO.1.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	311.0	142.0	397.0	150.0
02	492.0	78.0	204.0	226.0
03	924.0	27.0	14.0	35.0
04	716.0	8.0	15.0	261.0
05	96.0	328.0	449.0	127.0
06	12.0	54.0	73.0	861.0
07	650.0	5.0	329.0	16.0
08	43.0	2.0	922.0	33.0
09	10.0	20.0	960.0	10.0
10	47.0	74.0	104.0	775.0
11	9.0	926.0	19.0	46.0
12	945.0	7.0	32.0	16.0

PFM

	A	C	G	T
01	0.311	0.142	0.397	0.15
02	0.492	0.078	0.204	0.226
03	0.924	0.027	0.014	0.035
04	0.716	0.008	0.015	0.261
05	0.096	0.328	0.449	0.127
06	0.012	0.054	0.073	0.861
07	0.65	0.005	0.329	0.016
08	0.043	0.002	0.922	0.033
09	0.01	0.02	0.96	0.01
10	0.047	0.074	0.104	0.775
11	0.009	0.926	0.019	0.046
12	0.945	0.007	0.032	0.016

PWM

	A	C	G	T
01	0.217	-0.56	0.46	-0.506
02	0.674	-1.15	-0.202	-0.1
03	1.302	-2.171	-2.773	-1.925
04	1.048	-3.253	-2.711	0.043
05	-0.946	0.27	0.583	-0.671
06	-2.909	-1.508	-1.215	1.232
07	0.951	-3.622	0.273	-2.653
08	-1.728	-4.213	1.3	-1.981
09	-3.066	-2.45	1.34	-3.066
10	-1.642	-1.201	-0.867	1.127
11	-3.156	1.304	-2.497	-1.663
12	1.325	-3.362	-2.01	-2.653

Standard thresholds

P-value	Threshold
0.001	3.96051
0.0005	4.949515
0.0001	7.11018