MotifSOX3.H12INVIVO.1.S.C
Gene (human)SOX3
(GeneCards)
Gene synonyms (human)
Gene (mouse)Sox3
Gene synonyms (mouse)Sox-3
LOGO
LOGO (reverse complement)
Motif subtype1
Quality
C
Motif length16
ConsensushddddbMATTGWbnnn
GC content40.14%
Information content (bits; total / per base)11.319 / 0.707
Data sourcesHT-SELEX
Aligned words2499

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
Human 1 (7) 0.642 0.664 0.463 0.526 0.649 0.692 1.619 1.788 14.824 32.523
Mouse 3 (11) 0.688 0.711 0.537 0.554 0.637 0.672 1.637 1.763 48.229 80.62

HT-SELEX benchmarking auROC10 auPRC10 auROC25 auPRC25 auROC50 auPRC50
Overall, 2 experiments median 0.988 0.983 0.975 0.964 0.943 0.927
best 0.997 0.996 0.99 0.986 0.966 0.957
Methyl HT-SELEX, 1 experiments median 0.98 0.97 0.961 0.943 0.92 0.897
best 0.98 0.97 0.961 0.943 0.92 0.897
Non-Methyl HT-SELEX, 1 experiments median 0.997 0.996 0.99 0.986 0.966 0.957
best 0.997 0.996 0.99 0.986 0.966 0.957

rSNP benchmarking, SNP-SELEX auROC auPRC Pearson r Kendall tau
batch 2 0.673 0.346 0.553 0.461
TF superclassOther all-alpha-helical DNA-binding domains {4} (TFClass)
TF classHigh-mobility group (HMG) domain factors {4.1} (TFClass)
TF familySOX-related {4.1.1} (TFClass)
TF subfamilyGroup B {4.1.1.2} (TFClass)
TFClass IDTFClass: 4.1.1.2.3
HGNCHGNC:11199
MGIMGI:98365
EntrezGene (human)GeneID:6658
(SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)SOX3_HUMAN
UniProt ID (mouse)SOX3_MOUSE
UniProt AC (human)P41225
(TFClass)
UniProt AC (mouse)P53784
(TFClass)
GRECO-DB-TF
yes
ChIP-Seq 1 human, 3 mouse
HT-SELEX 1
Methyl-HT-SELEX 1
PCM
ACGT
01830.5971.5321.5375.5
021477.75279.75287.75453.75
031266.0187.0318.0728.0
04309.0264.0513.01413.0
05518.0314.01129.0538.0
06344.01149.0555.0451.0
07535.01640.07.0317.0
082485.09.05.00.0
091.01.04.02493.0
102.01.01.02495.0
116.010.02482.01.0
12564.0130.015.01790.0
13217.0828.0475.0979.0
14673.0877.0545.0404.0
15381.0881.0508.0729.0
16491.25703.25637.25667.25
PFM
ACGT
010.3320.3890.1290.15
020.5910.1120.1150.182
030.5070.0750.1270.291
040.1240.1060.2050.565
050.2070.1260.4520.215
060.1380.460.2220.18
070.2140.6560.0030.127
080.9940.0040.0020.0
090.00.00.0020.998
100.0010.00.00.998
110.0020.0040.9930.0
120.2260.0520.0060.716
130.0870.3310.190.392
140.2690.3510.2180.162
150.1520.3530.2030.292
160.1970.2810.2550.267
PWM
ACGT
010.2840.44-0.661-0.507
020.859-0.8-0.772-0.319
030.705-1.199-0.6720.153
04-0.701-0.857-0.1960.814
05-0.187-0.6850.59-0.149
06-0.5940.608-0.118-0.325
07-0.1550.963-4.248-0.675
081.378-4.047-4.501-5.77
09-5.357-5.357-4.6561.382
10-5.065-5.357-5.3571.382
11-4.367-3.9591.377-5.357
12-0.102-1.558-3.611.051
13-1.0520.281-0.2730.448
140.0740.338-0.136-0.434
15-0.4930.343-0.2060.154
16-0.240.1180.020.066
Standard thresholds
P-value Threshold
0.001 4.36496
0.0005 5.60501
0.0001 7.53736