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ENCODE: H3K4me3 ChIP-Seq of primary human cells
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Results for NKX6-3

Z-value: 0.45

Motif logo

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Transcription factors associated with NKX6-3

Gene Symbol Gene ID Gene Info
NKX6-3
ENSG00000165066.11 NK6 homeobox 3

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
chr8_41511279_41511901NKX6-327350.179446-0.694.2e-02Click!
chr8_41503949_41504289NKX6-37590.542759-0.684.4e-02Click!
chr8_41510934_41511242NKX6-322330.206680-0.561.2e-01Click!

Activity of the NKX6-3 motif across conditions

Conditions sorted by the z-value of the NKX6-3 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
chrX_114829080_114829277 0.33 PLS3
 plastin 3
 1313
 0.48
chr7_129933276_129933885 0.26 CPA4
 carboxypeptidase A4
 461
 0.76
chrX_13906420_13906604 0.18 GPM6B
 glycoprotein M6B
 664
 0.81
chr19_58488964_58489115 0.18 C19orf18
 chromosome 19 open reading frame 18
 3137
 0.15
chr5_147285141_147285292 0.18 C5orf46
 chromosome 5 open reading frame 46
 849
 0.57
chr18_60385543_60385694 0.17 PHLPP1
 PH domain and leucine rich repeat protein phosphatase 1
 2935
 0.28
chr10_33798417_33798757 0.17 NRP1
 neuropilin 1
 173397
 0.03
chr7_98970111_98970529 0.16 ARPC1B
 actin related protein 2/3 complex, subunit 1B, 41kDa
 1552
 0.28
chr5_120114861_120115414 0.16 ENSG00000222609
 .
 68602
 0.14
chr5_1883178_1883404 0.15 IRX4
 iroquois homeobox 4
 411
 0.66
chr11_22724799_22724998 0.15 ENSG00000222427
 .
 15001
 0.2
chr6_21227526_21227677 0.15 ENSG00000252046
 .
 233802
 0.02
chr5_97850230_97850381 0.14 ENSG00000223053
 .
 124630
 0.06
chr3_128207705_128209147 0.14 RP11-475N22.4
326
 0.79
chrX_83589461_83589612 0.14 ENSG00000221494
 .
 108700
 0.07
chr19_6087775_6088269 0.14 CTC-232P5.3
20058
 0.13
chr4_90850866_90851017 0.14 MMRN1
 multimerin 1
 27807
 0.23
chr2_110872434_110873339 0.14 MALL
 mal, T-cell differentiation protein-like
 713
 0.63
chr13_24146066_24146217 0.13 TNFRSF19
 tumor necrosis factor receptor superfamily, member 19
 1338
 0.59
chr3_69796924_69797075 0.13 MITF
 microphthalmia-associated transcription factor
 8377
 0.25
chr5_97850046_97850197 0.13 ENSG00000223053
 .
 124814
 0.06
chr14_101867418_101867569 0.13 ENSG00000258498
 .
 159266
 0.02
chr16_64450080_64450292 0.13 CDH11
 cadherin 11, type 2, OB-cadherin (osteoblast)
 643395
 0.0
chr1_82670427_82670613 0.13 LPHN2
 latrophilin 2
 224947
 0.02
chr2_158039761_158039912 0.13 GALNT5
 UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 5 (GalNAc-T5)
 74274
 0.11
chr20_45754385_45754678 0.13 ENSG00000264901
 .
 41078
 0.18
chr6_148831295_148831530 0.12 ENSG00000223322
 .
 13964
 0.3
chr3_54897831_54897982 0.12 CACNA2D3-AS1
 CACNA2D3 antisense RNA 1
 37376
 0.21
chr3_10315639_10315790 0.12 TATDN2
 TatD DNase domain containing 2
 3110
 0.16
chr13_79182716_79183828 0.12 POU4F1
 POU class 4 homeobox 1
 5599
 0.19
chr14_73778052_73778238 0.11 NUMB
 numb homolog (Drosophila)
 12062
 0.17
chr7_4046197_4046504 0.11 SDK1
 sidekick cell adhesion molecule 1
 55798
 0.18
chr9_67293693_67293844 0.11 RP11-236F9.2
8470
 0.29
chr19_19823801_19824098 0.11 ZNF14
 zinc finger protein 14
 19957
 0.13
chr8_93114852_93115389 0.11 RUNX1T1
 runt-related transcription factor 1; translocated to, 1 (cyclin D-related)
 334
 0.94
chr7_94025506_94025990 0.11 COL1A2
 collagen, type I, alpha 2
 1875
 0.46
chr10_60401833_60402026 0.10 BICC1
 bicaudal C homolog 1 (Drosophila)
 129029
 0.06
chr14_52123850_52124001 0.10 FRMD6
 FERM domain containing 6
 5227
 0.22
chr6_85823864_85824548 0.10 NT5E
 5'-nucleotidase, ecto (CD73)
 335603
 0.01
chr12_15304261_15304412 0.10 RERG
 RAS-like, estrogen-regulated, growth inhibitor
 13239
 0.23
chr1_198238845_198238996 0.10 NEK7
 NIMA-related kinase 7
 48991
 0.19
chr7_17720120_17720505 0.10 SNX13
 sorting nexin 13
 259779
 0.02
chr5_140989194_140989345 0.10 AC008781.7
8712
 0.11
chr2_101731109_101731260 0.10 ENSG00000265860
 .
 21153
 0.19
chr9_20041214_20041376 0.10 ENSG00000266224
 .
 211544
 0.02
chr5_92922789_92922940 0.10 ENSG00000237187
 .
 1510
 0.41
chr13_45242490_45242715 0.10 ENSG00000238932
 .
 39793
 0.2
chr10_101689203_101689354 0.10 DNMBP
 dynamin binding protein
 1475
 0.38
chr9_132796775_132796926 0.10 FNBP1
 formin binding protein 1
 8591
 0.2
chr2_230138192_230138530 0.10 PID1
 phosphotyrosine interaction domain containing 1
 2360
 0.4
chr6_130180797_130180948 0.10 TMEM244
 transmembrane protein 244
 1544
 0.54
chr2_38828054_38829790 0.10 AC011247.3
182
 0.89
chr12_54473950_54474101 0.10 RP11-834C11.7
47
 0.95
chr3_133020367_133020518 0.10 RP11-402L6.1
44410
 0.17
chr8_41200524_41200675 0.10 SFRP1
 secreted frizzled-related protein 1
 33583
 0.15
chr5_71643973_71644124 0.09 PTCD2
 pentatricopeptide repeat domain 2
 27823
 0.16
chr18_52804048_52804199 0.09 ENSG00000252437
 .
 9753
 0.29
chr16_4424352_4424847 0.09 VASN
 vasorin
 2750
 0.17
chrX_9269682_9269833 0.09 TBL1X
 transducin (beta)-like 1X-linked
 161578
 0.04
chr3_89163237_89163857 0.09 EPHA3
 EPH receptor A3
 6721
 0.35
chr12_78336292_78336638 0.09 NAV3
 neuron navigator 3
 23591
 0.28
chr15_56204998_56205389 0.09 NEDD4
 neural precursor cell expressed, developmentally down-regulated 4, E3 ubiquitin protein ligase
 2659
 0.34
chr5_10551768_10551919 0.09 ANKRD33B
 ankyrin repeat domain 33B
 12737
 0.19
chr5_76134459_76134610 0.09 ENSG00000264391
 .
 1514
 0.35
chr7_92224542_92224693 0.09 FAM133B
 family with sequence similarity 133, member B
 4909
 0.24
chrX_95690881_95691032 0.09 ENSG00000223260
 .
 25175
 0.28
chr6_45536778_45536929 0.09 ENSG00000252738
 .
 76988
 0.11
chr7_92254665_92254816 0.09 FAM133B
 family with sequence similarity 133, member B
 35032
 0.17
chr2_19172713_19172864 0.09 ENSG00000266738
 .
 375402
 0.01
chr6_42284093_42284281 0.09 ENSG00000221252
 .
 95947
 0.06
chr15_73345145_73345907 0.09 NEO1
 neogenin 1
 575
 0.85
chr18_46620789_46620940 0.09 DYM
 dymeclin
 2999
 0.26
chr13_97906946_97907208 0.09 MBNL2
 muscleblind-like splicing regulator 2
 21381
 0.26
chr18_20407102_20407268 0.08 RBBP8
 retinoblastoma binding protein 8
 28961
 0.16
chr10_15368154_15368305 0.08 FAM171A1
 family with sequence similarity 171, member A1
 44829
 0.17
chr17_69531749_69531900 0.08 ENSG00000222563
 .
 224515
 0.02
chr4_53507903_53508112 0.08 USP46
 ubiquitin specific peptidase 46
 14750
 0.2
chr18_42313149_42313495 0.08 SETBP1
 SET binding protein 1
 36193
 0.24
chr9_93557702_93558119 0.08 SYK
 spleen tyrosine kinase
 6159
 0.34
chr12_11850521_11850672 0.08 ETV6
 ets variant 6
 47808
 0.17
chr7_13985407_13985644 0.08 ETV1
 ets variant 1
 40541
 0.2
chr1_51171312_51171463 0.08 ENSG00000252825
 .
 44581
 0.17
chr15_96893541_96893692 0.08 AC087477.1
 Uncharacterized protein
 10871
 0.16
chr1_65005729_65006114 0.08 ENSG00000264470
 .
 39609
 0.19
chr14_77543003_77543154 0.08 CIPC
 CLOCK-interacting pacemaker
 21362
 0.15
chr9_12882212_12882363 0.08 ENSG00000222658
 .
 3033
 0.35
chr4_140808579_140808865 0.08 MAML3
 mastermind-like 3 (Drosophila)
 2484
 0.4
chr18_28779723_28779874 0.08 DSC1
 desmocollin 1
 36979
 0.15
chr13_80658291_80658484 0.08 SPRY2
 sprouty homolog 2 (Drosophila)
 255407
 0.02
chr5_133861629_133862874 0.08 JADE2
 jade family PHD finger 2
 76
 0.97
chr21_36286009_36286160 0.08 RUNX1
 runt-related transcription factor 1
 23997
 0.27
chr13_77897361_77897512 0.08 MYCBP2
 MYC binding protein 2, E3 ubiquitin protein ligase
 3378
 0.37
chr12_64580629_64580780 0.08 ENSG00000212298
 .
 17869
 0.15
chr9_89952337_89952906 0.08 ENSG00000212421
 .
 77256
 0.11
chr5_152602934_152603085 0.08 GRIA1
 glutamate receptor, ionotropic, AMPA 1
 267097
 0.02
chr15_48436377_48436744 0.08 MYEF2
 myelin expression factor 2
 4963
 0.17
chr6_27060216_27060434 0.08 ENSG00000222800
 .
 17434
 0.13
chrX_107685038_107685189 0.08 COL4A5
 collagen, type IV, alpha 5
 2001
 0.34
chr14_93720610_93720761 0.08 UBR7
 ubiquitin protein ligase E3 component n-recognin 7 (putative)
 35658
 0.11
chr7_115967399_115967904 0.08 AC073130.3
299
 0.91
chr6_159514146_159514297 0.08 TAGAP
 T-cell activation RhoGTPase activating protein
 48037
 0.13
chr4_177930341_177930492 0.08 ENSG00000222859
 .
 172180
 0.03
chr3_37363190_37363371 0.07 ENSG00000222208
 .
 19860
 0.18
chr14_88851403_88852544 0.07 SPATA7
 spermatogenesis associated 7
 15
 0.98
chrX_133523066_133523217 0.07 ENSG00000251962
 .
 14271
 0.17
chr4_141866142_141866293 0.07 RNF150
 ring finger protein 150
 51973
 0.17
chr8_116675050_116675578 0.07 TRPS1
 trichorhinophalangeal syndrome I
 1409
 0.6
chr1_215183894_215184045 0.07 KCNK2
 potassium channel, subfamily K, member 2
 4771
 0.37
chr10_69831641_69832005 0.07 HERC4
 HECT and RLD domain containing E3 ubiquitin protein ligase 4
 2071
 0.33
chr2_38295840_38295991 0.07 RMDN2-AS1
 RMDN2 antisense RNA 1
 1731
 0.34
chr15_93362136_93362546 0.07 FAM174B
 family with sequence similarity 174, member B
 9313
 0.17
chr15_50427680_50427831 0.07 ATP8B4
 ATPase, class I, type 8B, member 4
 16336
 0.2
chr6_83094369_83094520 0.07 TPBG
 trophoblast glycoprotein
 20483
 0.28
chr13_36058740_36058891 0.07 NBEA
 neurobeachin
 7929
 0.2
chr10_63812743_63812894 0.07 ARID5B
 AT rich interactive domain 5B (MRF1-like)
 3848
 0.32
chr12_26164349_26164500 0.07 RASSF8
 Ras association (RalGDS/AF-6) domain family (N-terminal) member 8
 245
 0.95
chr6_6005898_6006049 0.07 NRN1
 neuritin 1
 1227
 0.56
chr11_111849006_111849202 0.07 DIXDC1
 DIX domain containing 1
 1071
 0.39
chr7_104854367_104854518 0.07 SRPK2
 SRSF protein kinase 2
 55020
 0.13
chr10_111217087_111217238 0.07 ENSG00000200217
 .
 217765
 0.02
chr2_25978953_25979253 0.07 ASXL2
 additional sex combs like 2 (Drosophila)
 24075
 0.18
chr3_87036535_87037613 0.07 VGLL3
 vestigial like 3 (Drosophila)
 2778
 0.42
chr4_170081571_170081722 0.07 RP11-327O17.2
41299
 0.18
chr11_128600565_128600716 0.07 FLI1
 Fli-1 proto-oncogene, ETS transcription factor
 34045
 0.15
chr7_48210671_48210822 0.07 ABCA13
 ATP-binding cassette, sub-family A (ABC1), member 13
 311
 0.94
chr7_85112676_85112827 0.07 SEMA3D
 sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D
 296580
 0.01
chr6_125684129_125684280 0.07 RP11-735G4.1
11266
 0.27
chr9_100743461_100743673 0.07 ANP32B
 acidic (leucine-rich) nuclear phosphoprotein 32 family, member B
 2076
 0.25
chr7_70201396_70202343 0.07 AUTS2
 autism susceptibility candidate 2
 7744
 0.34
chr10_33670460_33670611 0.07 NRP1
 neuropilin 1
 45345
 0.19
chr12_67041467_67041618 0.07 GRIP1
 glutamate receptor interacting protein 1
 413
 0.92
chr10_34189936_34190141 0.07 ENSG00000199200
 .
 300964
 0.01
chr10_74600201_74600352 0.07 OIT3
 oncoprotein induced transcript 3
 53063
 0.12
chr6_9139698_9139849 0.07 SLC35B3
 solute carrier family 35 (adenosine 3'-phospho 5'-phosphosulfate transporter), member B3
 703979
 0.0
chr14_20895899_20896050 0.07 KLHL33
 kelch-like family member 33
 7827
 0.08
chr8_90742457_90742611 0.07 RIPK2
 receptor-interacting serine-threonine kinase 2
 27441
 0.25
chr7_87720149_87720440 0.07 ADAM22
 ADAM metallopeptidase domain 22
 72052
 0.11
chr3_30553614_30553765 0.07 TGFBR2
 transforming growth factor, beta receptor II (70/80kDa)
 94305
 0.09
chr4_15685369_15685921 0.07 FAM200B
 family with sequence similarity 200, member B
 2216
 0.26
chr17_73348111_73348291 0.07 RP11-16C1.3
7715
 0.11
chr10_24754741_24755189 0.07 KIAA1217
 KIAA1217
 495
 0.84
chr6_143026333_143026484 0.07 RP1-67K17.3
43172
 0.2
chr15_82414957_82415108 0.07 RP11-597K23.2
 Uncharacterized protein
 34000
 0.16
chr10_103442163_103442336 0.07 FBXW4
 F-box and WD repeat domain containing 4
 12767
 0.18
chr4_139143471_139143622 0.07 SLC7A11
 solute carrier family 7 (anionic amino acid transporter light chain, xc- system), member 11
 19957
 0.26
chr5_140420029_140420180 0.07 PCDHB1
 protocadherin beta 1
 10875
 0.12
chr4_14728626_14728777 0.07 ENSG00000202449
 .
 36367
 0.24
chr2_191517520_191517671 0.07 NAB1
 NGFI-A binding protein 1 (EGR1 binding protein 1)
 856
 0.66
chr20_17538596_17539086 0.07 BFSP1
 beaded filament structural protein 1, filensin
 642
 0.72
chr4_81118792_81119547 0.07 PRDM8
 PR domain containing 8
 511
 0.82
chr20_657176_657327 0.07 SCRT2
 scratch family zinc finger 2
 428
 0.66
chr2_189361179_189361330 0.07 GULP1
 GULP, engulfment adaptor PTB domain containing 1
 73511
 0.13
chr1_79297788_79297939 0.06 ELTD1
 EGF, latrophilin and seven transmembrane domain containing 1
 85707
 0.1
chr4_134070427_134071051 0.06 PCDH10
 protocadherin 10
 269
 0.96
chr4_112244997_112245242 0.06 ENSG00000200963
 .
 7449
 0.34
chr4_135119262_135119413 0.06 PABPC4L
 poly(A) binding protein, cytoplasmic 4-like
 3566
 0.39
chr15_77575085_77575236 0.06 PEAK1
 pseudopodium-enriched atypical kinase 1
 27266
 0.24
chr3_44045083_44045345 0.06 ENSG00000252980
 .
 67365
 0.13
chr12_109122720_109122871 0.06 CORO1C
 coronin, actin binding protein, 1C
 1532
 0.34
chr11_36253008_36253159 0.06 COMMD9
 COMM domain containing 9
 57891
 0.13
chr1_8138513_8138990 0.06 ERRFI1
 ERBB receptor feedback inhibitor 1
 52383
 0.13
chr7_95107815_95108198 0.06 ASB4
 ankyrin repeat and SOCS box containing 4
 7207
 0.2
chr5_106805601_106805833 0.06 EFNA5
 ephrin-A5
 200611
 0.03
chr12_12551242_12551393 0.06 LOH12CR1
 loss of heterozygosity, 12, chromosomal region 1
 40965
 0.13
chr20_50384318_50384901 0.06 ATP9A
 ATPase, class II, type 9A
 258
 0.94
chr3_49424014_49424165 0.06 RHOA-IT1
 RHOA intronic transcript 1 (non-protein coding)
 19650
 0.09
chr14_56711281_56711464 0.06 PELI2
 pellino E3 ubiquitin protein ligase family member 2
 125545
 0.06
chr4_119950142_119950384 0.06 SYNPO2
 synaptopodin 2
 5637
 0.3
chr5_103680813_103681290 0.06 ENSG00000239808
 .
 84524
 0.11
chr5_30944702_30944853 0.06 CDH6
 cadherin 6, type 2, K-cadherin (fetal kidney)
 249080
 0.02
chr10_104102183_104102477 0.06 NFKB2
 nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100)
 51537
 0.08
chr8_48282315_48282609 0.06 SPIDR
 scaffolding protein involved in DNA repair
 70501
 0.12
chr21_28640922_28641073 0.06 ADAMTS5
 ADAM metallopeptidase with thrombospondin type 1 motif, 5
 302165
 0.01
chr4_177824622_177824937 0.06 VEGFC
 vascular endothelial growth factor C
 110898
 0.07
chr7_27141205_27141470 0.06 HOXA2
 homeobox A2
 1093
 0.25
chr12_86222890_86223044 0.06 RASSF9
 Ras association (RalGDS/AF-6) domain family (N-terminal) member 9
 7381
 0.28
chr6_56595678_56595829 0.06 DST
 dystonin
 54924
 0.16
chr1_8537218_8537608 0.06 ENSG00000221083
 .
 34565
 0.16
chrX_12908437_12908588 0.06 TLR8
 toll-like receptor 8
 16227
 0.17
chr11_103677106_103677422 0.06 ENSG00000264200
 .
 43370
 0.2
chr12_32635785_32635936 0.06 FGD4
 FYVE, RhoGEF and PH domain containing 4
 3046
 0.28
chr6_111922654_111922805 0.06 C6orf3
1651
 0.34
chr15_51367983_51368134 0.06 RP11-394B5.2
6275
 0.24
chr8_29388025_29388176 0.06 RP4-676L2.1
177413
 0.03
chr2_141580056_141580207 0.06 ENSG00000201892
 .
 169981
 0.04
chr6_19691587_19692480 0.06 ENSG00000200957
 .
 49273
 0.18
chr12_72670200_72670351 0.06 ENSG00000236333
 .
 1588
 0.43
chr21_39807445_39807798 0.06 ERG
 v-ets avian erythroblastosis virus E26 oncogene homolog
 62724
 0.14
chr1_164665790_164665949 0.06 RP11-477H21.2
16547
 0.21
chr12_109118598_109118801 0.06 CORO1C
 coronin, actin binding protein, 1C
 5628
 0.17
chr2_46933523_46933944 0.06 SOCS5
 suppressor of cytokine signaling 5
 7407
 0.22
chr4_119130339_119130490 0.06 ENSG00000269893
 .
 69931
 0.13
chr1_100317573_100317724 0.06 AGL
 amylo-alpha-1, 6-glucosidase, 4-alpha-glucanotransferase
 578
 0.74
chr12_10902988_10903139 0.06 YBX3
 Y box binding protein 3
 27152
 0.13
chr11_126517104_126517255 0.06 RP11-115C10.1
5568
 0.3
chr3_18024994_18025145 0.06 TBC1D5
 TBC1 domain family, member 5
 240925
 0.02
chr17_20388317_20388497 0.06 LGALS9B
 lectin, galactoside-binding, soluble, 9B
 17559
 0.13
chr1_8166685_8166836 0.06 ERRFI1
 ERBB receptor feedback inhibitor 1
 80392
 0.08
chr21_38367175_38367326 0.06 HLCS
 holocarboxylase synthetase (biotin-(proprionyl-CoA-carboxylase (ATP-hydrolysing)) ligase)
 4714
 0.17
chr11_60686819_60686970 0.06 TMEM109
 transmembrane protein 109
 256
 0.81

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.

First level regulatory network of NKX6-3

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:0007221 positive regulation of transcription of Notch receptor target(GO:0007221)
0.0 0.0 GO:0045425 positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process(GO:0045425)
0.0 0.0 GO:0035385 Roundabout signaling pathway(GO:0035385) regulation of negative chemotaxis(GO:0050923)
0.0 0.0 GO:0045627 positive regulation of T-helper 1 cell differentiation(GO:0045627)
0.0 0.1 GO:0070208 protein heterotrimerization(GO:0070208)
0.0 0.0 GO:0030948 negative regulation of vascular endothelial growth factor receptor signaling pathway(GO:0030948)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.1 GO:0003953 NAD+ nucleosidase activity(GO:0003953)
0.0 0.0 GO:0005010 insulin-like growth factor-activated receptor activity(GO:0005010)
0.0 0.0 GO:0051371 muscle alpha-actinin binding(GO:0051371)