LHX1.H12INVITRO.1.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	LHX1.H12INVITRO.1.M.C
Gene (human)	LHX1 (GeneCards)
Gene synonyms (human)	LIM-1, LIM1
Gene (mouse)	Lhx1
Gene synonyms (mouse)	Lim-1, Lim1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	10
Consensus	nSbTAACGMn
GC content	43.71%
Information content (bits; total / per base)	10.098 / 1.01
Data sources	Methyl-HT-SELEX
Aligned words	4814

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.801	0.726	0.774	0.703	0.726	0.67
Overall, 2 experiments	best	0.844	0.776	0.8	0.737	0.74	0.691
Methyl HT-SELEX, 1 experiments	median	0.844	0.776	0.8	0.737	0.74	0.691
Methyl HT-SELEX, 1 experiments	best	0.844	0.776	0.8	0.737	0.74	0.691
Non-Methyl HT-SELEX, 1 experiments	median	0.759	0.676	0.747	0.669	0.712	0.648
Non-Methyl HT-SELEX, 1 experiments	best	0.759	0.676	0.747	0.669	0.712	0.648

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	HD-LIM {3.1.5} (TFClass)
TF subfamily	LHX1-like {3.1.5.2} (TFClass)
TFClass ID	TFClass: 3.1.5.2.1
HGNC	HGNC:6593
MGI	MGI:99783
EntrezGene (human)	GeneID:3975 (SSTAR profile)
EntrezGene (mouse)	GeneID:16869 (SSTAR profile)
UniProt ID (human)	LHX1_HUMAN
UniProt ID (mouse)	LHX1_MOUSE
UniProt AC (human)	P48742 (TFClass)
UniProt AC (mouse)	P63006 (TFClass)
GRECO-DB-TF	yes

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

PCM	LHX1.H12INVITRO.1.M.C.pcm
PWM	LHX1.H12INVITRO.1.M.C.pwm
PFM	LHX1.H12INVITRO.1.M.C.pfm
Alignment	LHX1.H12INVITRO.1.M.C.words.tsv
Threshold to P-value map	LHX1.H12INVITRO.1.M.C.thr
Motif in other formats
JASPAR format	LHX1.H12INVITRO.1.M.C_jaspar_format.txt
MEME format	LHX1.H12INVITRO.1.M.C_meme_format.meme
Transfac format	LHX1.H12INVITRO.1.M.C_transfac_format.txt
Homer format	LHX1.H12INVITRO.1.M.C_homer_format_0.001.txt LHX1.H12INVITRO.1.M.C_homer_format_0.0005.txt LHX1.H12INVITRO.1.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1516.25	1229.25	1076.25	992.25
02	623.5	2309.5	1724.5	156.5
03	398.0	1209.0	1917.0	1290.0
04	0.0	0.0	0.0	4814.0
05	4814.0	0.0	0.0	0.0
06	4814.0	0.0	0.0	0.0
07	0.0	3322.0	0.0	1492.0
08	0.0	13.0	4494.0	307.0
09	3428.75	717.75	471.75	195.75
10	1048.5	935.5	1620.5	1209.5

PFM

	A	C	G	T
01	0.315	0.255	0.224	0.206
02	0.13	0.48	0.358	0.033
03	0.083	0.251	0.398	0.268
04	0.0	0.0	0.0	1.0
05	1.0	0.0	0.0	0.0
06	1.0	0.0	0.0	0.0
07	0.0	0.69	0.0	0.31
08	0.0	0.003	0.934	0.064
09	0.712	0.149	0.098	0.041
10	0.218	0.194	0.337	0.251

PWM

	A	C	G	T
01	0.231	0.021	-0.112	-0.193
02	-0.656	0.651	0.359	-2.028
03	-1.103	0.005	0.465	0.069
04	-6.343	-6.343	-6.343	1.385
05	1.385	-6.343	-6.343	-6.343
06	1.385	-6.343	-6.343	-6.343
07	-6.343	1.014	-6.343	0.215
08	-6.343	-4.379	1.316	-1.361
09	1.046	-0.516	-0.934	-1.807
10	-0.138	-0.251	0.297	0.005

Standard thresholds

P-value	Threshold
0.001	5.120045
0.0005	6.049325
0.0001	7.710405