Genomic list of motif instances from the JASPAR_CORE_vertebrate 2014 matrices with a 0.00001 pvalue.

Description

This serie contains list of motif instance generated by scaning the human genome using all the PWMs available in the JASPAR CORE vertebrate 2014 collection. The score limit was set to a score corresponding to a pvalue of 0.00001, using genome backgroud frequencies of 0.29, 0.21, 0.21, 0.29 for A, C, G and T respectively.

Source

Samples

From H. sapiens (Feb 2009 GRCh37/hg19).

Sequence-derived:

Filename Description Feature GEO-ID
1 genomic_hit_MA0002.2_RUNX1.sga MA0002.2|RUNX1 RUNX1 -
2 genomic_hit_MA0003.2_TFAP2A.sga MA0003.2|TFAP2A TFAP2A -
3 genomic_hit_MA0004.1_Arnt.sga MA0004.1|Arnt Arnt -
4 genomic_hit_MA0006.1_Arnt.sga MA0006.1|Arnt Arnt -
5 genomic_hit_MA0007.2_AR.sga MA0007.2|AR AR -
6 genomic_hit_MA0009.1_T.sga MA0009.1|T T -
7 genomic_hit_MA0014.2_PAX5.sga MA0014.2|PAX5 PAX5 -
8 genomic_hit_MA0017.1_NR2F1.sga MA0017.1|NR2F1 NR2F1 -
9 genomic_hit_MA0018.2_CREB1.sga MA0018.2|CREB1 CREB1 -
10 genomic_hit_MA0019.1_Ddit3.sga MA0019.1|Ddit3 Ddit3 -
11 genomic_hit_MA0024.2_E2F1.sga MA0024.2|E2F1 E2F1 -
12 genomic_hit_MA0025.1_NFIL3.sga MA0025.1|NFIL3 NFIL3 -
13 genomic_hit_MA0027.1_En1.sga MA0027.1|En1 En1 -
14 genomic_hit_MA0028.1_ELK1.sga MA0028.1|ELK1 ELK1 -
15 genomic_hit_MA0029.1_Mecom.sga MA0029.1|Mecom Mecom -
16 genomic_hit_MA0030.1_FOXF2.sga MA0030.1|FOXF2 FOXF2 -
17 genomic_hit_MA0031.1_FOXD1.sga MA0031.1|FOXD1 FOXD1 -
18 genomic_hit_MA0032.1_FOXC1.sga MA0032.1|FOXC1 FOXC1 -
19 genomic_hit_MA0033.1_FOXL1.sga MA0033.1|FOXL1 FOXL1 -
20 genomic_hit_MA0035.3_Gata1.sga MA0035.3|Gata1 Gata1 -
21 genomic_hit_MA0036.2_GATA2.sga MA0036.2|GATA2 GATA2 -
22 genomic_hit_MA0037.2_GATA3.sga MA0037.2|GATA3 GATA3 -
23 genomic_hit_MA0038.1_Gfi1.sga MA0038.1|Gfi1 Gfi1 -
24 genomic_hit_MA0039.2_Klf4.sga MA0039.2|Klf4 Klf4 -
25 genomic_hit_MA0040.1_Foxq1.sga MA0040.1|Foxq1 Foxq1 -
26 genomic_hit_MA0041.1_Foxd3.sga MA0041.1|Foxd3 Foxd3 -
27 genomic_hit_MA0042.1_FOXI1.sga MA0042.1|FOXI1 FOXI1 -
28 genomic_hit_MA0043.1_HLF.sga MA0043.1|HLF HLF -
29 genomic_hit_MA0046.1_HNF1A.sga MA0046.1|HNF1A HNF1A -
30 genomic_hit_MA0047.2_Foxa2.sga MA0047.2|Foxa2 Foxa2 -
31 genomic_hit_MA0048.1_NHLH1.sga MA0048.1|NHLH1 NHLH1 -
32 genomic_hit_MA0050.2_IRF1.sga MA0050.2|IRF1 IRF1 -
33 genomic_hit_MA0051.1_IRF2.sga MA0051.1|IRF2 IRF2 -
34 genomic_hit_MA0052.2_MEF2A.sga MA0052.2|MEF2A MEF2A -
35 genomic_hit_MA0056.1_MZF1.sga MA0056.1|MZF1 MZF1 -
36 genomic_hit_MA0057.1_MZF1.sga MA0057.1|MZF1 MZF1 -
37 genomic_hit_MA0058.2_MAX.sga MA0058.2|MAX MAX -
38 genomic_hit_MA0059.1_MYC.sga MA0059.1|MYC MYC -
39 genomic_hit_MA0060.2_NFYA.sga MA0060.2|NFYA NFYA -
40 genomic_hit_MA0062.2_GABPA.sga MA0062.2|GABPA GABPA -
41 genomic_hit_MA0063.1_Nkx2-5.sga MA0063.1|Nkx2-5 Nkx2-5 -
42 genomic_hit_MA0065.2_PPARG.sga MA0065.2|PPARG PPARG -
43 genomic_hit_MA0066.1_PPARG.sga MA0066.1|PPARG PPARG -
44 genomic_hit_MA0067.1_Pax2.sga MA0067.1|Pax2 Pax2 -
45 genomic_hit_MA0068.1_Pax4.sga MA0068.1|Pax4 Pax4 -
46 genomic_hit_MA0069.1_Pax6.sga MA0069.1|Pax6 Pax6 -
47 genomic_hit_MA0070.1_PBX1.sga MA0070.1|PBX1 PBX1 -
48 genomic_hit_MA0071.1_RORA.sga MA0071.1|RORA RORA -
49 genomic_hit_MA0072.1_RORA.sga MA0072.1|RORA RORA -
50 genomic_hit_MA0073.1_RREB1.sga MA0073.1|RREB1 RREB1 -
51 genomic_hit_MA0074.1_RXRA.sga MA0074.1|RXRA RXRA -
52 genomic_hit_MA0075.1_Prrx2.sga MA0075.1|Prrx2 Prrx2 -
53 genomic_hit_MA0076.2_ELK4.sga MA0076.2|ELK4 ELK4 -
54 genomic_hit_MA0077.1_SOX9.sga MA0077.1|SOX9 SOX9 -
55 genomic_hit_MA0078.1_Sox17.sga MA0078.1|Sox17 Sox17 -
56 genomic_hit_MA0079.3_SP1.sga MA0079.3|SP1 SP1 -
57 genomic_hit_MA0080.3_Spi1.sga MA0080.3|Spi1 Spi1 -
58 genomic_hit_MA0081.1_SPIB.sga MA0081.1|SPIB SPIB -
59 genomic_hit_MA0083.2_SRF.sga MA0083.2|SRF SRF -
60 genomic_hit_MA0084.1_SRY.sga MA0084.1|SRY SRY -
61 genomic_hit_MA0087.1_Sox5.sga MA0087.1|Sox5 Sox5 -
62 genomic_hit_MA0088.1_znf143.sga MA0088.1|znf143 znf143 -
63 genomic_hit_MA0089.1_NFE2L1.sga MA0089.1|NFE2L1 NFE2L1 -
64 genomic_hit_MA0090.1_TEAD1.sga MA0090.1|TEAD1 TEAD1 -
65 genomic_hit_MA0091.1_TAL1.sga MA0091.1|TAL1 TAL1 -
66 genomic_hit_MA0092.1_Hand1.sga MA0092.1|Hand1 Hand1 -
67 genomic_hit_MA0093.2_USF1.sga MA0093.2|USF1 USF1 -
68 genomic_hit_MA0095.2_YY1.sga MA0095.2|YY1 YY1 -
69 genomic_hit_MA0098.2_Ets1.sga MA0098.2|Ets1 Ets1 -
70 genomic_hit_MA0099.2_JUN.sga MA0099.2|JUN JUN -
71 genomic_hit_MA0100.2_Myb.sga MA0100.2|Myb Myb -
72 genomic_hit_MA0101.1_REL.sga MA0101.1|REL REL -
73 genomic_hit_MA0102.3_CEBPA.sga MA0102.3|CEBPA CEBPA -
74 genomic_hit_MA0103.2_ZEB1.sga MA0103.2|ZEB1 ZEB1 -
75 genomic_hit_MA0104.3_Mycn.sga MA0104.3|Mycn Mycn -
76 genomic_hit_MA0105.3_NFKB1.sga MA0105.3|NFKB1 NFKB1 -
77 genomic_hit_MA0106.2_TP53.sga MA0106.2|TP53 TP53 -
78 genomic_hit_MA0107.1_RELA.sga MA0107.1|RELA RELA -
79 genomic_hit_MA0108.2_TBP.sga MA0108.2|TBP TBP -
80 genomic_hit_MA0109.1_Hltf.sga MA0109.1|Hltf Hltf -
81 genomic_hit_MA0111.1_Spz1.sga MA0111.1|Spz1 Spz1 -
82 genomic_hit_MA0112.2_ESR1.sga MA0112.2|ESR1 ESR1 -
83 genomic_hit_MA0113.2_NR3C1.sga MA0113.2|NR3C1 NR3C1 -
84 genomic_hit_MA0114.2_HNF4A.sga MA0114.2|HNF4A HNF4A -
85 genomic_hit_MA0115.1_NR1H2.sga MA0115.1|NR1H2 NR1H2 -
86 genomic_hit_MA0116.1_Zfp423.sga MA0116.1|Zfp423 Zfp423 -
87 genomic_hit_MA0117.1_Mafb.sga MA0117.1|Mafb Mafb -
88 genomic_hit_MA0119.1_TLX1.sga MA0119.1|TLX1 TLX1 -
89 genomic_hit_MA0122.1_Nkx3-2.sga MA0122.1|Nkx3-2 Nkx3-2 -
90 genomic_hit_MA0124.1_NKX3-1.sga MA0124.1|NKX3-1 NKX3-1 -
91 genomic_hit_MA0125.1_Nobox.sga MA0125.1|Nobox Nobox -
92 genomic_hit_MA0130.1_ZNF354C.sga MA0130.1|ZNF354C ZNF354C -
93 genomic_hit_MA0131.1_HINFP.sga MA0131.1|HINFP HINFP -
94 genomic_hit_MA0132.1_Pdx1.sga MA0132.1|Pdx1 Pdx1 -
95 genomic_hit_MA0133.1_BRCA1.sga MA0133.1|BRCA1 BRCA1 -
96 genomic_hit_MA0135.1_Lhx3.sga MA0135.1|Lhx3 Lhx3 -
97 genomic_hit_MA0136.1_ELF5.sga MA0136.1|ELF5 ELF5 -
98 genomic_hit_MA0137.3_STAT1.sga MA0137.3|STAT1 STAT1 -
99 genomic_hit_MA0138.2_REST.sga MA0138.2|REST REST -
100 genomic_hit_MA0139.1_CTCF.sga MA0139.1|CTCF CTCF -
101 genomic_hit_MA0140.2_TAL1.sga MA0140.2|TAL1 TAL1 -
102 genomic_hit_MA0141.2_Esrrb.sga MA0141.2|Esrrb Esrrb -
103 genomic_hit_MA0142.1_Pou5f1.sga MA0142.1|Pou5f1 Pou5f1 -
104 genomic_hit_MA0143.3_Sox2.sga MA0143.3|Sox2 Sox2 -
105 genomic_hit_MA0144.2_STAT3.sga MA0144.2|STAT3 STAT3 -
106 genomic_hit_MA0145.2_Tcfcp2l1.sga MA0145.2|Tcfcp2l1 Tcfcp2l1 -
107 genomic_hit_MA0146.2_Zfx.sga MA0146.2|Zfx Zfx -
108 genomic_hit_MA0147.2_Myc.sga MA0147.2|Myc Myc -
109 genomic_hit_MA0148.3_FOXA1.sga MA0148.3|FOXA1 FOXA1 -
110 genomic_hit_MA0149.1_EWSR1-FLI1.sga MA0149.1|EWSR1-FLI1 EWSR1-FLI1 -
111 genomic_hit_MA0150.2_Nfe2l2.sga MA0150.2|Nfe2l2 Nfe2l2 -
112 genomic_hit_MA0151.1_ARID3A.sga MA0151.1|ARID3A ARID3A -
113 genomic_hit_MA0152.1_NFATC2.sga MA0152.1|NFATC2 NFATC2 -
114 genomic_hit_MA0153.1_HNF1B.sga MA0153.1|HNF1B HNF1B -
115 genomic_hit_MA0154.2_EBF1.sga MA0154.2|EBF1 EBF1 -
116 genomic_hit_MA0155.1_INSM1.sga MA0155.1|INSM1 INSM1 -
117 genomic_hit_MA0156.1_FEV.sga MA0156.1|FEV FEV -
118 genomic_hit_MA0157.1_FOXO3.sga MA0157.1|FOXO3 FOXO3 -
119 genomic_hit_MA0158.1_HOXA5.sga MA0158.1|HOXA5 HOXA5 -
120 genomic_hit_MA0159.1_RXR.sga MA0159.1|RXR RXR -
121 genomic_hit_MA0160.1_NR4A2.sga MA0160.1|NR4A2 NR4A2 -
122 genomic_hit_MA0161.1_NFIC.sga MA0161.1|NFIC NFIC -
123 genomic_hit_MA0162.2_EGR1.sga MA0162.2|EGR1 EGR1 -
124 genomic_hit_MA0163.1_PLAG1.sga MA0163.1|PLAG1 PLAG1 -
125 genomic_hit_MA0164.1_Nr2e3.sga MA0164.1|Nr2e3 Nr2e3 -
126 genomic_hit_MA0258.2_ESR2.sga MA0258.2|ESR2 ESR2 -
127 genomic_hit_MA0259.1_HIF1A.sga MA0259.1|HIF1A HIF1A -
128 genomic_hit_MA0442.1_SOX10.sga MA0442.1|SOX10 SOX10 -
129 genomic_hit_MA0461.1_Atoh1.sga MA0461.1|Atoh1 Atoh1 -
130 genomic_hit_MA0462.1_BATF.sga MA0462.1|BATF BATF -
131 genomic_hit_MA0463.1_Bcl6.sga MA0463.1|Bcl6 Bcl6 -
132 genomic_hit_MA0464.1_Bhlhe40.sga MA0464.1|Bhlhe40 Bhlhe40 -
133 genomic_hit_MA0465.1_CDX2.sga MA0465.1|CDX2 CDX2 -
134 genomic_hit_MA0466.1_CEBPB.sga MA0466.1|CEBPB CEBPB -
135 genomic_hit_MA0467.1_Crx.sga MA0467.1|Crx Crx -
136 genomic_hit_MA0468.1_DUX4.sga MA0468.1|DUX4 DUX4 -
137 genomic_hit_MA0469.1_E2F3.sga MA0469.1|E2F3 E2F3 -
138 genomic_hit_MA0470.1_E2F4.sga MA0470.1|E2F4 E2F4 -
139 genomic_hit_MA0471.1_E2F6.sga MA0471.1|E2F6 E2F6 -
140 genomic_hit_MA0472.1_EGR2.sga MA0472.1|EGR2 EGR2 -
141 genomic_hit_MA0473.1_ELF1.sga MA0473.1|ELF1 ELF1 -
142 genomic_hit_MA0474.1_Erg.sga MA0474.1|Erg Erg -
143 genomic_hit_MA0475.1_FLI1.sga MA0475.1|FLI1 FLI1 -
144 genomic_hit_MA0476.1_FOS.sga MA0476.1|FOS FOS -
145 genomic_hit_MA0477.1_FOSL1.sga MA0477.1|FOSL1 FOSL1 -
146 genomic_hit_MA0478.1_FOSL2.sga MA0478.1|FOSL2 FOSL2 -
147 genomic_hit_MA0479.1_FOXH1.sga MA0479.1|FOXH1 FOXH1 -
148 genomic_hit_MA0480.1_Foxo1.sga MA0480.1|Foxo1 Foxo1 -
149 genomic_hit_MA0481.1_FOXP1.sga MA0481.1|FOXP1 FOXP1 -
150 genomic_hit_MA0482.1_Gata4.sga MA0482.1|Gata4 Gata4 -
151 genomic_hit_MA0483.1_Gfi1b.sga MA0483.1|Gfi1b Gfi1b -
152 genomic_hit_MA0484.1_HNF4G.sga MA0484.1|HNF4G HNF4G -
153 genomic_hit_MA0485.1_Hoxc9.sga MA0485.1|Hoxc9 Hoxc9 -
154 genomic_hit_MA0486.1_HSF1.sga MA0486.1|HSF1 HSF1 -
155 genomic_hit_MA0488.1_JUN.sga MA0488.1|JUN JUN -
156 genomic_hit_MA0489.1_JUN.sga MA0489.1|JUN JUN -
157 genomic_hit_MA0490.1_JUNB.sga MA0490.1|JUNB JUNB -
158 genomic_hit_MA0491.1_JUND.sga MA0491.1|JUND JUND -
159 genomic_hit_MA0492.1_JUND.sga MA0492.1|JUND JUND -
160 genomic_hit_MA0493.1_Klf1.sga MA0493.1|Klf1 Klf1 -
161 genomic_hit_MA0494.1_Nr1h3.sga MA0494.1|Nr1h3 Nr1h3 -
162 genomic_hit_MA0495.1_MAFF.sga MA0495.1|MAFF MAFF -
163 genomic_hit_MA0496.1_MAFK.sga MA0496.1|MAFK MAFK -
164 genomic_hit_MA0497.1_MEF2C.sga MA0497.1|MEF2C MEF2C -
165 genomic_hit_MA0498.1_Meis1.sga MA0498.1|Meis1 Meis1 -
166 genomic_hit_MA0499.1_Myod1.sga MA0499.1|Myod1 Myod1 -
167 genomic_hit_MA0500.1_Myog.sga MA0500.1|Myog Myog -
168 genomic_hit_MA0501.1_NFE2.sga MA0501.1|NFE2 NFE2 -
169 genomic_hit_MA0502.1_NFYB.sga MA0502.1|NFYB NFYB -
170 genomic_hit_MA0503.1_Nkx2-5.sga MA0503.1|Nkx2-5 Nkx2-5 -
171 genomic_hit_MA0504.1_NR2C2.sga MA0504.1|NR2C2 NR2C2 -
172 genomic_hit_MA0505.1_Nr5a2.sga MA0505.1|Nr5a2 Nr5a2 -
173 genomic_hit_MA0506.1_NRF1.sga MA0506.1|NRF1 NRF1 -
174 genomic_hit_MA0507.1_POU2F2.sga MA0507.1|POU2F2 POU2F2 -
175 genomic_hit_MA0508.1_PRDM1.sga MA0508.1|PRDM1 PRDM1 -
176 genomic_hit_MA0509.1_Rfx1.sga MA0509.1|Rfx1 Rfx1 -
177 genomic_hit_MA0510.1_RFX5.sga MA0510.1|RFX5 RFX5 -
178 genomic_hit_MA0511.1_RUNX2.sga MA0511.1|RUNX2 RUNX2 -
179 genomic_hit_MA0512.1_Rxra.sga MA0512.1|Rxra Rxra -
180 genomic_hit_MA0513.1_SMAD2.sga MA0513.1|SMAD2 SMAD2 -
181 genomic_hit_MA0514.1_Sox3.sga MA0514.1|Sox3 Sox3 -
182 genomic_hit_MA0515.1_Sox6.sga MA0515.1|Sox6 Sox6 -
183 genomic_hit_MA0516.1_SP2.sga MA0516.1|SP2 SP2 -
184 genomic_hit_MA0517.1_STAT2.sga MA0517.1|STAT2 STAT2 -
185 genomic_hit_MA0518.1_Stat4.sga MA0518.1|Stat4 Stat4 -
186 genomic_hit_MA0519.1_Stat5a.sga MA0519.1|Stat5a Stat5a -
187 genomic_hit_MA0520.1_Stat6.sga MA0520.1|Stat6 Stat6 -
188 genomic_hit_MA0521.1_Tcf12.sga MA0521.1|Tcf12 Tcf12 -
189 genomic_hit_MA0522.1_Tcf3.sga MA0522.1|Tcf3 Tcf3 -
190 genomic_hit_MA0523.1_TCF7L2.sga MA0523.1|TCF7L2 TCF7L2 -
191 genomic_hit_MA0524.1_TFAP2C.sga MA0524.1|TFAP2C TFAP2C -
192 genomic_hit_MA0525.1_TP63.sga MA0525.1|TP63 TP63 -
193 genomic_hit_MA0526.1_USF2.sga MA0526.1|USF2 USF2 -
194 genomic_hit_MA0527.1_ZBTB33.sga MA0527.1|ZBTB33 ZBTB33 -
195 genomic_hit_MA0528.1_ZNF263.sga MA0528.1|ZNF263 ZNF263 -
196 genomic_hit_MA0591.1_Bach1.sga MA0591.1|Bach1 Bach1 -
197 genomic_hit_MA0592.1_ESRRA.sga MA0592.1|ESRRA ESRRA -
198 genomic_hit_MA0593.1_FOXP2.sga MA0593.1|FOXP2 FOXP2 -
199 genomic_hit_MA0594.1_Hoxa9.sga MA0594.1|Hoxa9 Hoxa9 -
200 genomic_hit_MA0595.1_SREBF1.sga MA0595.1|SREBF1 SREBF1 -
201 genomic_hit_MA0596.1_SREBF2.sga MA0596.1|SREBF2 SREBF2 -
202 genomic_hit_MA0597.1_THAP1.sga MA0597.1|THAP1 THAP1 -
203 genomic_hit_MA0598.1_EHF.sga MA0598.1|EHF EHF -
204 genomic_hit_MA0599.1_KLF5.sga MA0599.1|KLF5 KLF5 -
205 genomic_hit_MA0600.1_RFX2.sga MA0600.1|RFX2 RFX2 -

Notes on samples nomenclature:

The sample description is composed of the PWM ID as reported in the original collection together with the factor name.

Technical Notes

hg19 genome assembly was scanned with each log-odd PWM independently using PWMScan using a pvalue threshold of 0.00001 and background frequencies of 0.29,0.21,0.21,0.29 for A,C,G,T respectively. Motif instance coordinates were then converted to sga format by considering the middle position of each hit as the motif coordinate.

References