GATA5.H12RSNP.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA5.H12RSNP.0.SM.B
Gene (human)	GATA5 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gata5
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	12
Consensus	ndnWGATAASvn
GC content	38.33%
Information content (bits; total / per base)	11.617 / 0.968
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9951

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.985	0.974	0.979	0.966	0.957	0.939
Overall, 6 experiments	best	0.993	0.987	0.992	0.986	0.99	0.983
Methyl HT-SELEX, 2 experiments	median	0.989	0.98	0.987	0.976	0.983	0.971
Methyl HT-SELEX, 2 experiments	best	0.99	0.982	0.988	0.979	0.984	0.973
Non-Methyl HT-SELEX, 4 experiments	median	0.979	0.963	0.972	0.952	0.916	0.899
Non-Methyl HT-SELEX, 4 experiments	best	0.993	0.987	0.992	0.986	0.99	0.983

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.971	0.877	0.933	0.599
batch 2	0.868	0.634	0.847	0.654

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Other C4 zinc finger-type factors {2.2} (TFClass)
TF family	C4-GATA-related {2.2.1} (TFClass)
TF subfamily	GATA double {2.2.1.1} (TFClass)
TFClass ID	TFClass: 2.2.1.1.5
HGNC	HGNC:15802
MGI	MGI:109497
EntrezGene (human)	GeneID:140628 (SSTAR profile)
EntrezGene (mouse)	GeneID:14464 (SSTAR profile)
UniProt ID (human)	GATA5_HUMAN
UniProt ID (mouse)	GATA5_MOUSE
UniProt AC (human)	Q9BWX5 (TFClass)
UniProt AC (mouse)	P97489 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	4
Methyl-HT-SELEX	2

PCM	GATA5.H12RSNP.0.SM.B.pcm
PWM	GATA5.H12RSNP.0.SM.B.pwm
PFM	GATA5.H12RSNP.0.SM.B.pfm
Alignment	GATA5.H12RSNP.0.SM.B.words.tsv
Threshold to P-value map	GATA5.H12RSNP.0.SM.B.thr
Motif in other formats
JASPAR format	GATA5.H12RSNP.0.SM.B_jaspar_format.txt
MEME format	GATA5.H12RSNP.0.SM.B_meme_format.meme
Transfac format	GATA5.H12RSNP.0.SM.B_transfac_format.txt
Homer format	GATA5.H12RSNP.0.SM.B_homer_format_0.001.txt GATA5.H12RSNP.0.SM.B_homer_format_0.0005.txt GATA5.H12RSNP.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2820.0	1833.0	3287.0	2011.0
02	2356.75	1510.75	4157.75	1925.75
03	2456.0	3085.0	3001.0	1409.0
04	5052.0	1039.0	74.0	3786.0
05	0.0	1.0	9944.0	6.0
06	9944.0	0.0	0.0	7.0
07	0.0	1.0	0.0	9950.0
08	9912.0	17.0	0.0	22.0
09	9903.0	22.0	11.0	15.0
10	539.0	2831.0	6212.0	369.0
11	4304.75	1931.75	3060.75	653.75
12	2831.5	1904.5	1852.5	3362.5

PFM

	A	C	G	T
01	0.283	0.184	0.33	0.202
02	0.237	0.152	0.418	0.194
03	0.247	0.31	0.302	0.142
04	0.508	0.104	0.007	0.38
05	0.0	0.0	0.999	0.001
06	0.999	0.0	0.0	0.001
07	0.0	0.0	0.0	1.0
08	0.996	0.002	0.0	0.002
09	0.995	0.002	0.001	0.002
10	0.054	0.284	0.624	0.037
11	0.433	0.194	0.308	0.066
12	0.285	0.191	0.186	0.338

PWM

	A	C	G	T
01	0.125	-0.305	0.278	-0.213
02	-0.054	-0.498	0.513	-0.256
03	-0.013	0.215	0.187	-0.568
04	0.708	-0.872	-3.485	0.42
05	-6.987	-6.626	1.385	-5.704
06	1.385	-6.987	-6.987	-5.59
07	-6.987	-6.626	-6.987	1.386
08	1.382	-4.86	-6.987	-4.63
09	1.381	-4.63	-5.232	-4.969
10	-1.526	0.129	0.915	-1.903
11	0.548	-0.253	0.207	-1.334
12	0.129	-0.267	-0.295	0.301

Standard thresholds

P-value	Threshold
0.001	2.56377
0.0005	5.21753
0.0001	7.950625