NRL.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NRL.H12INVITRO.0.SM.B
Gene (human)	NRL (GeneCards)
Gene synonyms (human)	D14S46E
Gene (mouse)	Nrl
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	13
Consensus	ddhnTGCTGACdn
GC content	49.35%
Information content (bits; total / per base)	12.479 / 0.96
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9982

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.992	0.987	0.975	0.969	0.846	0.854
Overall, 5 experiments	best	0.999	0.999	0.998	0.997	0.969	0.967
Methyl HT-SELEX, 2 experiments	median	0.989	0.983	0.955	0.944	0.832	0.834
Methyl HT-SELEX, 2 experiments	best	0.995	0.993	0.975	0.969	0.846	0.854
Non-Methyl HT-SELEX, 3 experiments	median	0.992	0.987	0.978	0.969	0.9	0.893
Non-Methyl HT-SELEX, 3 experiments	best	0.999	0.999	0.998	0.997	0.969	0.967

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.932	0.738	0.925	0.637
batch 2	0.773	0.699	0.784	0.595

TF superclass	Basic domains {1} (TFClass)
TF class	Basic leucine zipper factors (bZIP) {1.1} (TFClass)
TF family	Maf-related {1.1.3} (TFClass)
TF subfamily	Large MAF {1.1.3.1} (TFClass)
TFClass ID	TFClass: 1.1.3.1.4
HGNC	HGNC:8002
MGI	MGI:102567
EntrezGene (human)	GeneID:4901 (SSTAR profile)
EntrezGene (mouse)	GeneID:18185 (SSTAR profile)
UniProt ID (human)	NRL_HUMAN
UniProt ID (mouse)	NRL_MOUSE
UniProt AC (human)	P54845 (TFClass)
UniProt AC (mouse)	P54846 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	2

PCM	NRL.H12INVITRO.0.SM.B.pcm
PWM	NRL.H12INVITRO.0.SM.B.pwm
PFM	NRL.H12INVITRO.0.SM.B.pfm
Alignment	NRL.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	NRL.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	NRL.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	NRL.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	NRL.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	NRL.H12INVITRO.0.SM.B_homer_format_0.001.txt NRL.H12INVITRO.0.SM.B_homer_format_0.0005.txt NRL.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3779.0	1394.0	2438.0	2371.0
02	4136.75	1054.75	1338.75	3451.75
03	3718.0	1413.0	1085.0	3766.0
04	2815.0	1854.0	2323.0	2990.0
05	488.0	1375.0	138.0	7981.0
06	31.0	104.0	9828.0	19.0
07	97.0	9868.0	7.0	10.0
08	15.0	11.0	18.0	9938.0
09	21.0	7.0	9606.0	348.0
10	9909.0	29.0	23.0	21.0
11	77.0	8445.0	308.0	1152.0
12	1683.25	1439.25	5131.25	1728.25
13	1866.0	3100.0	1704.0	3312.0

PFM

	A	C	G	T
01	0.379	0.14	0.244	0.238
02	0.414	0.106	0.134	0.346
03	0.372	0.142	0.109	0.377
04	0.282	0.186	0.233	0.3
05	0.049	0.138	0.014	0.8
06	0.003	0.01	0.985	0.002
07	0.01	0.989	0.001	0.001
08	0.002	0.001	0.002	0.996
09	0.002	0.001	0.962	0.035
10	0.993	0.003	0.002	0.002
11	0.008	0.846	0.031	0.115
12	0.169	0.144	0.514	0.173
13	0.187	0.311	0.171	0.332

PWM

	A	C	G	T
01	0.415	-0.582	-0.023	-0.051
02	0.505	-0.86	-0.622	0.324
03	0.398	-0.568	-0.832	0.411
04	0.12	-0.297	-0.072	0.181
05	-1.628	-0.595	-2.879	1.162
06	-4.318	-3.157	1.37	-4.764
07	-3.225	1.374	-5.593	-5.313
08	-4.972	-5.235	-4.812	1.381
09	-4.675	-5.593	1.347	-1.964
10	1.378	-4.379	-4.592	-4.675
11	-3.45	1.218	-2.086	-0.772
12	-0.393	-0.55	0.72	-0.367
13	-0.29	0.217	-0.381	0.283

Standard thresholds

P-value	Threshold
0.001	3.39951
0.0005	4.69396
0.0001	7.365625