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ENCODE: H3K4me3 ChIP-Seq of primary human cells
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CREMA is a free online tool that recognizes most important transcription factors that change the chromatin state across different samples.

Results for RFX5

Z-value: 0.53

Motif logo

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Transcription factors associated with RFX5

Gene Symbol Gene ID Gene Info
ENSG00000143390.13 RFX5

Correlations of motif activity and signal intensity at CREs associated with the motif's TFs:

This plot shows correlation between observed signal intensity of a CRE associated with the transcription factor across all samples and activity of the motif.

For each TF, only the top 5 correlated CREs are shown.

CRE Gene Distance Association probability Pearson corr. coef. P-value Plot
RFX5chr1_151318667_1513188183400.6370330.324.1e-01Click!
RFX5chr1_151318943_151319712210.5926830.156.9e-01Click!
RFX5chr1_151319989_1513204433830.611252-0.127.6e-01Click!

Activity of the RFX5 motif across conditions

Conditions sorted by the z-value of the RFX5 motif activity

Move your cursor over a bar to see sample name and corresponding Z-value.

Top target CREs of the motif:

Cis Regulatory Element (CRE) Target Score Top associated gene Gene Info Distance of CRE to TSS CRE/Gene association probability
chr4_157893196_157893594 0.24 PDGFC
platelet derived growth factor C
849
0.66
chr3_49841438_49841709 0.23 FAM212A
family with sequence similarity 212, member A
886
0.35
chr20_45980431_45980900 0.19 ZMYND8
zinc finger, MYND-type containing 8
44
0.91
chr6_45404317_45404604 0.17 RUNX2
runt-related transcription factor 2
14238
0.21
chr1_153958983_153959396 0.17 RAB13
RAB13, member RAS oncogene family
361
0.72
chr2_165478229_165478434 0.16 GRB14
growth factor receptor-bound protein 14
27
0.99
chr17_67605378_67605727 0.14 MAP2K6
mitogen-activated protein kinase kinase 6
106982
0.08
chr7_101765454_101765681 0.14 ENSG00000252824
.
71877
0.09
chr2_66782749_66783275 0.14 MEIS1
Meis homeobox 1
46953
0.17
chr12_48170565_48170736 0.13 SLC48A1
solute carrier family 48 (heme transporter), member 1
3659
0.16
chr18_77492818_77492969 0.13 RP11-567M16.5

29242
0.2
chr22_37938188_37938339 0.12 RP5-1177I5.3

7770
0.13
chr13_95619763_95620412 0.12 ENSG00000252335
.
51402
0.18
chr14_76072100_76072251 0.11 FLVCR2
feline leukemia virus subgroup C cellular receptor family, member 2
17
0.97
chr20_35483169_35483320 0.11 SOGA1
suppressor of glucose, autophagy associated 1
5032
0.18
chr5_177018982_177019137 0.11 TMED9
transmembrane emp24 protein transport domain containing 9
100
0.95
chr20_45946936_45948261 0.10 AL031666.2
HCG2018772; Uncharacterized protein; cDNA FLJ31609 fis, clone NT2RI2002852
352
0.82
chr2_217702830_217702981 0.10 AC007557.4

16950
0.12
chr13_73633121_73633496 0.10 KLF5
Kruppel-like factor 5 (intestinal)
378
0.89
chr19_49199645_49199859 0.10 FUT2
fucosyltransferase 2 (secretor status included)
520
0.59
chr4_140579390_140579541 0.10 MGST2
microsomal glutathione S-transferase 2
7457
0.21
chr20_35152594_35152745 0.10 RP5-977B1.7

1864
0.29
chr13_100160443_100160594 0.10 TM9SF2
transmembrane 9 superfamily member 2
6847
0.17
chr15_90283484_90283688 0.10 MESP1
mesoderm posterior 1 homolog (mouse)
10955
0.11
chr8_41907411_41908748 0.10 KAT6A
K(lysine) acetyltransferase 6A
1426
0.43
chr17_6735053_6735295 0.10 TEKT1
tektin 1
94
0.96
chr19_50935005_50935230 0.10 MYBPC2
myosin binding protein C, fast type
1043
0.32
chr8_71971726_71971877 0.10 RP11-326E22.1

95891
0.09
chr16_20915372_20915539 0.10 LYRM1
LYR motif containing 1
3029
0.2
chr3_184209968_184210530 0.10 EIF2B5-IT1
EIF2B5 intronic transcript 1 (non-protein coding)
12652
0.18
chr17_60896968_60897294 0.10 MARCH10
membrane-associated ring finger (C3HC4) 10, E3 ubiquitin protein ligase
11426
0.25
chr10_129718407_129718558 0.09 PTPRE
protein tyrosine phosphatase, receptor type, E
13066
0.2
chr1_157013915_157014350 0.09 ARHGEF11
Rho guanine nucleotide exchange factor (GEF) 11
733
0.68
chr7_138719583_138719734 0.09 ZC3HAV1L
zinc finger CCCH-type, antiviral 1-like
1117
0.55
chr9_100836589_100836740 0.09 NANS
N-acetylneuraminic acid synthase
2447
0.27
chr2_150240204_150240355 0.09 LYPD6
LY6/PLAUR domain containing 6
16064
0.29
chr3_150088154_150088521 0.09 TSC22D2
TSC22 domain family, member 2
37785
0.2
chr15_38547811_38548278 0.09 SPRED1
sprouty-related, EVH1 domain containing 1
2662
0.42
chr15_63575130_63575281 0.09 APH1B
APH1B gamma secretase subunit
5388
0.27
chr7_27187795_27188438 0.09 HOXA6
homeobox A6
723
0.31
chr16_50721200_50721351 0.08 SNX20
sorting nexin 20
6011
0.13
chr10_101743145_101743349 0.08 DNMBP
dynamin binding protein
26429
0.16
chr2_178140372_178140777 0.08 NFE2L2
nuclear factor, erythroid 2-like 2
10715
0.11
chr4_182673763_182673929 0.08 ENSG00000251742
.
82415
0.11
chr8_42063953_42065062 0.08 PLAT
plasminogen activator, tissue
576
0.71
chr5_74634021_74634424 0.08 HMGCR
3-hydroxy-3-methylglutaryl-CoA reductase
264
0.89
chr19_19496596_19496747 0.08 GATAD2A
GATA zinc finger domain containing 2A
29
0.97
chr10_29010987_29011704 0.08 ENSG00000201001
.
38387
0.14
chr12_120672889_120673226 0.08 PXN
paxillin
8410
0.12
chr2_203243816_203243967 0.08 BMPR2
bone morphogenetic protein receptor, type II (serine/threonine kinase)
1734
0.33
chr6_44026023_44026284 0.08 RP5-1120P11.1

16236
0.16
chr7_27191813_27192140 0.08 HOXA-AS3
HOXA cluster antisense RNA 3
2305
0.1
chr11_58730865_58731226 0.08 RP11-142C4.6

15713
0.15
chr16_377314_377692 0.07 AXIN1
axin 1
24946
0.09
chr9_135957875_135958026 0.07 CELP
carboxyl ester lipase pseudogene
24
0.96
chr12_27939182_27939333 0.07 RP11-860B13.1

5257
0.13
chr10_105436749_105436937 0.07 SH3PXD2A
SH3 and PX domains 2A
1079
0.5
chr11_57121969_57122157 0.07 ENSG00000266018
.
5133
0.1
chr2_169963812_169963963 0.07 AC007556.3

6634
0.24
chr6_52172375_52172526 0.07 MCM3
minichromosome maintenance complex component 3
22815
0.19
chr12_75723842_75724113 0.07 CAPS2
calcyphosine 2
141
0.96
chr5_39424296_39424549 0.07 DAB2
Dab, mitogen-responsive phosphoprotein, homolog 2 (Drosophila)
548
0.85
chr9_19999361_19999512 0.07 ENSG00000266224
.
169685
0.03
chr6_14743251_14743453 0.07 ENSG00000206960
.
96586
0.09
chr17_81021338_81021489 0.07 B3GNTL1
UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase-like 1
11727
0.21
chr5_57751053_57751204 0.07 PLK2
polo-like kinase 2
4959
0.26
chr9_139513973_139514190 0.07 ENSG00000252440
.
17114
0.1
chr19_54600109_54600278 0.07 OSCAR
osteoclast associated, immunoglobulin-like receptor
3890
0.09
chr2_233703105_233703293 0.06 GIGYF2
GRB10 interacting GYF protein 2
4471
0.17
chr1_24529962_24530113 0.06 IFNLR1
interferon, lambda receptor 1
15588
0.16
chr15_26273691_26273918 0.06 ENSG00000212604
.
19583
0.26
chr11_69213982_69214133 0.06 MYEOV
myeloma overexpressed
152432
0.04
chr3_120067269_120067913 0.06 LRRC58
leucine rich repeat containing 58
595
0.53
chr9_135937365_135937516 0.06 CEL
carboxyl ester lipase
75
0.96
chr6_12291567_12292004 0.06 EDN1
endothelin 1
1189
0.64
chr4_185270855_185271006 0.06 IRF2
interferon regulatory factor 2
68814
0.09
chr16_2203805_2204060 0.06 RAB26
RAB26, member RAS oncogene family
889
0.23
chr4_139939633_139940037 0.06 ENSG00000264953
.
1102
0.42
chr11_34393219_34393432 0.06 ABTB2
ankyrin repeat and BTB (POZ) domain containing 2
13770
0.25
chr20_37076011_37076413 0.06 ENSG00000174365
.
515
0.58
chr1_206831480_206831631 0.06 DYRK3
dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 3
22381
0.12
chr6_44279109_44279260 0.06 AARS2
alanyl-tRNA synthetase 2, mitochondrial
1879
0.23
chr10_104543017_104543364 0.06 WBP1L
WW domain binding protein 1-like
7184
0.15
chr4_139328520_139328671 0.06 SLC7A11
solute carrier family 7 (anionic amino acid transporter light chain, xc- system), member 11
165092
0.04
chr1_167408487_167409140 0.06 RP11-104L21.2

19085
0.19
chr9_90115975_90116126 0.06 DAPK1
death-associated protein kinase 1
2130
0.42
chr7_132299406_132299928 0.06 PLXNA4
plexin A4
33780
0.18
chr7_92466339_92466990 0.06 CDK6
cyclin-dependent kinase 6
756
0.48
chr17_1480739_1481169 0.05 PITPNA
phosphatidylinositol transfer protein, alpha
14844
0.11
chr9_75566785_75567046 0.05 ALDH1A1
aldehyde dehydrogenase 1 family, member A1
1056
0.7
chr9_136602785_136602936 0.05 SARDH
sarcosine dehydrogenase
617
0.78
chr2_143829603_143829754 0.05 ARHGAP15
Rho GTPase activating protein 15
19253
0.25
chr12_125400700_125400851 0.05 ENSG00000265345
.
682
0.48
chr7_41735666_41735856 0.05 INHBA-AS1
INHBA antisense RNA 1
2215
0.31
chr4_160150065_160150216 0.05 RAPGEF2
Rap guanine nucleotide exchange factor (GEF) 2
37893
0.17
chr9_93577500_93577651 0.05 SYK
spleen tyrosine kinase
12195
0.32
chr2_175198249_175198424 0.05 SP9
Sp9 transcription factor
1338
0.39
chr20_47897294_47897664 0.05 ENSG00000212304
.
259
0.71
chr14_69074893_69075044 0.05 CTD-2325P2.4

20194
0.24
chr6_16683747_16684279 0.05 RP1-151F17.1

77356
0.11
chr19_51013968_51014417 0.05 JOSD2
Josephin domain containing 2
153
0.91
chr7_80929142_80929293 0.05 AC005008.2
Uncharacterized protein
112111
0.07
chr1_150480831_150481087 0.05 ECM1
extracellular matrix protein 1
376
0.77
chr4_88939906_88940142 0.05 PKD2
polycystic kidney disease 2 (autosomal dominant)
11204
0.19
chr15_99092145_99092331 0.05 FAM169B
family with sequence similarity 169, member B
34627
0.21
chr4_106631816_106631986 0.05 GSTCD
glutathione S-transferase, C-terminal domain containing
66
0.97
chr19_15753132_15753283 0.05 CYP4F3
cytochrome P450, family 4, subfamily F, polypeptide 3
1088
0.5
chr1_181002765_181003143 0.05 MR1
major histocompatibility complex, class I-related
113
0.96
chr16_67564911_67565176 0.05 FAM65A
family with sequence similarity 65, member A
408
0.7
chrX_115085542_115085858 0.05 ENSG00000266828
.
23400
0.24
chr6_138876582_138876733 0.05 NHSL1
NHS-like 1
9809
0.27
chr18_55438742_55438893 0.05 ENSG00000202159
.
16191
0.19
chr11_86511248_86511444 0.05 PRSS23
protease, serine, 23
64
0.99
chr1_47077616_47077767 0.05 MOB3C
MOB kinase activator 3C
3114
0.19
chr6_114175848_114176208 0.05 MARCKS
myristoylated alanine-rich protein kinase C substrate
2513
0.28
chr3_53195990_53196532 0.05 PRKCD
protein kinase C, delta
724
0.65
chr3_130568062_130568213 0.05 ATP2C1
ATPase, Ca++ transporting, type 2C, member 1
1302
0.48
chr11_58349436_58349587 0.05 ZFP91
ZFP91 zinc finger protein
2927
0.2
chr20_11899797_11899948 0.05 BTBD3
BTB (POZ) domain containing 3
373
0.63
chr10_129052216_129052367 0.05 FAM196A
family with sequence similarity 196, member A
57869
0.16
chr20_3730561_3730712 0.04 C20orf27
chromosome 20 open reading frame 27
8689
0.12
chr18_10131788_10132277 0.04 ENSG00000263630
.
126838
0.05
chr17_2293949_2294100 0.04 RP1-59D14.1

5883
0.11
chr10_127754442_127754593 0.04 FANK1
fibronectin type III and ankyrin repeat domains 1
70531
0.1
chr17_28246226_28246497 0.04 EFCAB5
EF-hand calcium binding domain 5
9857
0.15
chr20_48989399_48989550 0.04 ENSG00000244376
.
56546
0.13
chr17_53829012_53829414 0.04 PCTP
phosphatidylcholine transfer protein
452
0.87
chr9_97632930_97633081 0.04 RP11-49O14.2

29706
0.15
chr11_121460609_121460760 0.04 SORL1
sortilin-related receptor, L(DLR class) A repeats containing
444
0.91
chr4_185235485_185235636 0.04 ENSG00000244512
.
35471
0.16
chr20_17660855_17661298 0.04 RRBP1
ribosome binding protein 1
1629
0.4
chr7_106358902_106359239 0.04 CTB-111H14.1

13825
0.24
chr6_88973705_88973856 0.04 CNR1
cannabinoid receptor 1 (brain)
97702
0.09
chr14_89493302_89493776 0.04 FOXN3
forkhead box N3
153549
0.04
chr22_46443288_46443533 0.04 RP6-109B7.5

5563
0.11
chr8_146053525_146053811 0.04 ZNF7
zinc finger protein 7
665
0.57
chr16_10713609_10713760 0.04 EMP2
epithelial membrane protein 2
39129
0.13
chr15_86076847_86076998 0.04 AKAP13
A kinase (PRKA) anchor protein 13
10349
0.21
chr17_60501297_60502176 0.04 METTL2A
methyltransferase like 2A
508
0.79
chr6_119069398_119069957 0.04 CEP85L
centrosomal protein 85kDa-like
38439
0.19
chr9_85834043_85834730 0.04 RP11-439K3.1

140
0.96
chr2_24232585_24233394 0.04 MFSD2B
major facilitator superfamily domain containing 2B
22
0.97
chr5_10306978_10307734 0.04 CMBL
carboxymethylenebutenolidase homolog (Pseudomonas)
782
0.53
chr1_68153534_68153824 0.04 GADD45A
growth arrest and DNA-damage-inducible, alpha
2795
0.31
chr18_70535912_70536084 0.04 NETO1
neuropilin (NRP) and tolloid (TLL)-like 1
814
0.7
chr2_68954923_68955084 0.04 ARHGAP25
Rho GTPase activating protein 25
6910
0.27
chr5_115297082_115297364 0.04 AQPEP
Aminopeptidase Q
928
0.59
chr17_15732358_15732519 0.04 AC015922.5

245
0.93
chr2_192711472_192711842 0.04 SDPR
serum deprivation response
324
0.55
chr3_188389672_188389823 0.04 ENSG00000207651
.
16822
0.22
chr7_40591526_40591750 0.04 AC004988.1

5111
0.35
chr22_31626244_31626468 0.04 ENSG00000202019
.
198
0.9
chr2_48625526_48625677 0.04 PPP1R21
protein phosphatase 1, regulatory subunit 21
42307
0.15
chr15_62798995_62799233 0.04 TLN2
talin 2
54450
0.15
chr13_92759091_92759242 0.04 ENSG00000252508
.
47069
0.2
chr6_7911720_7911871 0.04 TXNDC5
thioredoxin domain containing 5 (endoplasmic reticulum)
748
0.79
chr3_128152097_128152248 0.04 DNAJB8-AS1
DNAJB8 antisense RNA 1
30265
0.14
chr17_26649609_26649760 0.04 TMEM97
transmembrane protein 97
3203
0.1
chr7_85101266_85101421 0.04 SEMA3D
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D
285172
0.01
chr12_104613717_104613915 0.04 TXNRD1
thioredoxin reductase 1
4257
0.25
chr8_133333355_133333734 0.04 KCNQ3
potassium voltage-gated channel, KQT-like subfamily, member 3
125965
0.06
chr16_89003315_89003466 0.04 RP11-830F9.7

774
0.51
chr22_30268427_30268578 0.04 MTMR3
myotubularin related protein 3
10642
0.16
chr19_2079674_2079825 0.04 MOB3A
MOB kinase activator 3A
1031
0.38
chr10_94448695_94449449 0.04 HHEX
hematopoietically expressed homeobox
1127
0.51
chr17_18575650_18575928 0.04 RP11-815I9.4

3015
0.17
chr12_94207424_94207575 0.04 ENSG00000264978
.
17353
0.19
chr1_79472541_79472704 0.04 ELTD1
EGF, latrophilin and seven transmembrane domain containing 1
219
0.97
chr9_36194632_36194925 0.04 CLTA
clathrin, light chain A
3818
0.22
chr11_94509014_94509165 0.04 AMOTL1
angiomotin like 1
7552
0.24
chr3_152122945_152123096 0.04 MBNL1
muscleblind-like splicing regulator 1
9827
0.23
chr9_92724401_92724683 0.04 ENSG00000263967
.
61275
0.16
chr5_173959397_173959548 0.04 MSX2
msh homeobox 2
192064
0.03
chr5_100113349_100113842 0.04 ENSG00000221263
.
38674
0.19
chr7_22762779_22763152 0.04 IL6
interleukin 6 (interferon, beta 2)
2538
0.27
chr16_78344596_78344747 0.04 RP11-190D6.2

69556
0.13
chr12_32687185_32687743 0.04 FGD4
FYVE, RhoGEF and PH domain containing 4
206
0.96
chr7_129933276_129933885 0.04 CPA4
carboxypeptidase A4
461
0.76
chr7_116167584_116167883 0.04 CAV1
caveolin 1, caveolae protein, 22kDa
1386
0.37
chr11_13238316_13238540 0.04 ARNTL
aryl hydrocarbon receptor nuclear translocator-like
59771
0.15
chr9_110495286_110496024 0.03 AL162389.1
Uncharacterized protein
44764
0.15
chr11_2847450_2848020 0.03 KCNQ1-AS1
KCNQ1 antisense RNA 1
35063
0.12
chr22_30600911_30601062 0.03 RP3-438O4.4

2112
0.23
chr16_88923128_88923365 0.03 GALNS
galactosamine (N-acetyl)-6-sulfate sulfatase
39
0.75
chr7_557703_557916 0.03 PDGFA
platelet-derived growth factor alpha polypeptide
336
0.89
chr6_18260761_18260912 0.03 DEK
DEK oncogene
3603
0.23
chr6_119255807_119256176 0.03 RP11-351A11.1

41
0.71
chr1_204983840_204983991 0.03 NFASC
neurofascin
17603
0.17
chr8_145747471_145747843 0.03 LRRC14
leucine rich repeat containing 14
3528
0.08
chr7_73624408_73624729 0.03 LAT2
linker for activation of T cells family, member 2
215
0.92
chr12_109227226_109227475 0.03 ENSG00000207622
.
3432
0.19
chr10_121419548_121419699 0.03 BAG3
BCL2-associated athanogene 3
3501
0.28
chr20_16031217_16031368 0.03 MACROD2
MACRO domain containing 2
64859
0.15
chr3_44063258_44064101 0.03 ENSG00000252980
.
48900
0.17
chr12_31515445_31515828 0.03 ENSG00000207477
.
3586
0.2
chr5_135527961_135528159 0.03 TRPC7-AS1
TRPC7 antisense RNA 1
21676
0.18
chr5_94957151_94957390 0.03 GPR150
G protein-coupled receptor 150
1488
0.38
chr12_79848122_79848556 0.03 ENSG00000266390
.
7991
0.2
chr6_24666286_24667027 0.03 TDP2
tyrosyl-DNA phosphodiesterase 2
163
0.84
chr14_89833069_89833220 0.03 RP11-356K23.2

11740
0.16

Histogram of CRE-TSS distances for CREs targeted by :

Histogram of

Rank distribution of CRE target scores:

Histogram of target CRE score.

Distribution of target CREs across different genomic regions:

Weighted Piechart of Weighted Piechart of Weighted Piechart of

Network of associatons between targets according to the STRING database.

StringDB image

First level regulatory network of RFX5

PNG image of the network

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.1 GO:0044240 multicellular organism lipid catabolic process(GO:0044240)
0.0 0.0 GO:0060585 regulation of prostaglandin-endoperoxide synthase activity(GO:0060584) positive regulation of prostaglandin-endoperoxide synthase activity(GO:0060585)
0.0 0.1 GO:0015886 heme transport(GO:0015886)
0.0 0.1 GO:0032528 microvillus assembly(GO:0030033) microvillus organization(GO:0032528)
0.0 0.1 GO:0008354 germ cell migration(GO:0008354)
0.0 0.1 GO:2000095 regulation of Wnt signaling pathway, planar cell polarity pathway(GO:2000095)
0.0 0.2 GO:1900077 negative regulation of insulin receptor signaling pathway(GO:0046627) negative regulation of cellular response to insulin stimulus(GO:1900077)
0.0 0.0 GO:0010511 regulation of phosphatidylinositol biosynthetic process(GO:0010511)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.1 GO:0008107 galactoside 2-alpha-L-fucosyltransferase activity(GO:0008107) alpha-(1,2)-fucosyltransferase activity(GO:0031127)
0.0 0.1 GO:0050253 retinyl-palmitate esterase activity(GO:0050253)
0.0 0.1 GO:0015232 heme transporter activity(GO:0015232)
0.0 0.0 GO:0031705 bombesin receptor binding(GO:0031705) endothelin B receptor binding(GO:0031708)
0.0 0.0 GO:0005173 stem cell factor receptor binding(GO:0005173)
0.0 0.0 GO:0001758 retinal dehydrogenase activity(GO:0001758)
0.0 0.2 GO:0005161 platelet-derived growth factor receptor binding(GO:0005161)

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.2 REACTOME VEGF LIGAND RECEPTOR INTERACTIONS Genes involved in VEGF ligand-receptor interactions