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Gene overview

Strategies/Algorithm: proximal Ensembl ID: ENSG00000114859
Gene: CLCN2 Gene type: protein_coding
Strand: - External links:
Genomic region: chr3:184346185-184361650 Genome Browser:

Super-enhancer search result of gene-based

GREAT Download bed
SE ID SE Region Sample ID Tissue type Biosample name SE rank Element Common SNP eQTL Risk SNP TFBS CRISPR Cas9 Gene
SE_02_007300270 chr3:184301433-184332292 Sample_02_0073 Other 90-8TL_DMSO 270 14 825 35 2 429 3528 EIF4G1,SNORD66,PSMD2,CAMK2N2,CHRD,ECE2,POLR2H,FAM131A,THPO,CLCN2
SE_02_109500756 chr3:184305947-184320894 Sample_02_1095 Blood CD34 Erythroid cells_Don002 756 3 356 12 0 225 1554 PSMD2,EIF4G1,POLR2H,CLCN2,CAMK2N2,FAM131A,ECE2,SNORD66
SE_02_022800164 chr3:184313022-184330265 Sample_02_0228 Oesophagus KYSE510 164 1 468 21 2 314 2430 EIF4G1,SNORD66,CHRD,ECE2,POLR2H,FAM131A,THPO,PSMD2,CLCN2
SE_02_040300326 chr3:184313260-184324505 Sample_02_0403 Mammary gland T-47D_untreat 326 1 277 8 0 258 1710 EIF4G1,SNORD66,ECE2,FAM131A,POLR2H,PSMD2,CLCN2
SE_02_051700235 chr3:184313765-184322736 Sample_02_0517 Esophagus TE5 235 1 224 7 0 199 1424 EIF4G1,POLR2H,CLCN2,PSMD2,FAM131A,ECE2,SNORD66
SE_02_029300359 chr3:184313777-184317924 Sample_02_0293 Pancreatic L3-6_4SC-202 359 1 84 1 0 130 787 EIF4G1,SNORD66,ECE2,FAM131A,POLR2H,PSMD2,CLCN2
SE_02_050600237 chr3:184313782-184322736 Sample_02_0506 Esophagus TE5_1 237 1 222 7 0 199 1424 EIF4G1,POLR2H,CLCN2,PSMD2,FAM131A,ECE2,SNORD66
SE_02_080900351 chr3:184313862-184320983 Sample_02_0809 Mammary gland T47D Serum 351 1 159 3 0 177 1109 EIF4G1,POLR2H,CLCN2,PSMD2,FAM131A,ECE2,SNORD66
SE_02_051600568 chr3:184313892-184318152 Sample_02_0516 Esophagus KYSE70 568 1 86 2 0 130 799 EIF4G1,POLR2H,CLCN2,PSMD2,FAM131A,ECE2,SNORD66
SE_02_050500569 chr3:184313897-184318152 Sample_02_0505 Esophagus KYSE70_1 569 1 86 2 0 130 799 EIF4G1,POLR2H,CLCN2,PSMD2,FAM131A,ECE2,SNORD66
SE_02_147000717 chr3:184313915-184317892 Sample_02_1470 Umbilical Vein H441 717 1 78 1 0 130 781 EIF4G1,POLR2H,CLCN2,PSMD2,FAM131A,ECE2,SNORD66
SE_02_088601596 chr3:184313915-184323271 Sample_02_0886 Skin foreskin_ p63KLF4 1596 1 228 7 0 227 1523 EIF4G1,POLR2H,CLCN2,PSMD2,FAM131A,ECE2,SNORD66
SE_02_108700467 chr3:184313935-184318142 Sample_02_1087 Mammary gland T47D_shCtrl_shRING1B_0 467 1 85 2 0 130 799 EIF4G1,POLR2H,CLCN2,PSMD2,FAM131A,ECE2,SNORD66
SE_02_039601643 chr3:184314126-184317929 Sample_02_0396 Skin NHEK-D 1643 1 75 1 0 130 788 EIF4G1,SNORD66,ECE2,FAM131A,POLR2H,PSMD2,CLCN2
SE_02_050400516 chr3:184314603-184318558 Sample_02_0504 Esophagus KYSE510_1 516 2 83 2 0 105 733 EIF4G1,POLR2H,CLCN2,PSMD2,FAM131A,ECE2,SNORD66
SE_02_142700977 chr3:184322370-184339627 Sample_02_1427 Shoulder fibroblast_343 977 6 491 23 2 236 2107 EIF4G1,SNORD66,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,ECE2
SE_02_142500764 chr3:184322494-184339534 Sample_02_1425 Shoulder fibroblast_384 764 7 487 22 2 235 2070 EIF4G1,SNORD66,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,ECE2
SE_02_112900900 chr3:184323126-184339095 Sample_02_1129 Adipose visceral adipose_CTL_HCTR13 900 3 453 21 2 222 1911 EIF4G1,SNORD66,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,ECE2
SE_02_021100935 chr3:184327281-184348444 Sample_02_0211 Lung MRC-5_NFD_1DPT 935 4 613 39 2 215 2546 CLCN2,FAM131A,EIF4G1,SNORD66,CHRD,POLR2H,THPO,PSMD2
SE_02_146900617 chr3:184327835-184345992 Sample_02_1469 Umbilical Vein HUVEC 617 5 513 31 2 188 2197 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_147200547 chr3:184328966-184339357 Sample_02_1472 Fetal lung IMR-90 547 3 284 12 0 117 1044 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_137801378 chr3:184329680-184340035 Sample_02_1378 Pancreas Pancreatic_tumor_associated_fibroblasts_CAF08_untreated 1378 7 284 14 0 117 1107 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_011200518 chr3:184330075-184337984 Sample_02_0112 Connective tissue HT1080_untreated 518 1 215 8 0 93 732 EIF4G1,FAM131A,SNORD66,CHRD,POLR2H,THPO,PSMD2,CLCN2
SE_02_131900253 chr3:184330113-184340768 Sample_02_1319 Connective Tissue HT1080_DDIT3 253 5 292 15 0 117 1226 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_088601147 chr3:184330165-184339189 Sample_02_0886 Skin foreskin_ p63KLF4 1147 1 244 10 0 117 978 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_145200825 chr3:184330246-184339267 Sample_02_1452 Arter pulmonary arterial smooth muscle cells_PAH2_sictrl 825 2 244 10 0 117 995 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_00_003101211 chr3:184330636-184337760 Sample_00_0031 Placenta placenta 1211 1 193 6 0 93 706 EIF4G1,FAM131A,SNORD66,CHRD,POLR2H,THPO,PSMD2,CLCN2
SE_02_147100317 chr3:184330706-184341379 Sample_02_1471 Blood Outgrowth Endothelia BOEC 317 1 287 15 0 117 1338 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_039601665 chr3:184330725-184337811 Sample_02_0396 Skin NHEK-D 1665 1 189 6 0 93 712 EIF4G1,FAM131A,SNORD66,CHRD,POLR2H,THPO,PSMD2,CLCN2
SE_02_072700965 chr3:184330787-184338676 Sample_02_0727 Fetal lung IMR90_Etoposide 965 1 208 8 0 99 852 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_004700605 chr3:184330800-184342284 Sample_02_0047 Pancreatic endoderm IIDP/donor790 605 1 314 16 0 138 1515 EIF4G1,FAM131A,SNORD66,CHRD,POLR2H,THPO,PSMD2,CLCN2
SE_02_015800699 chr3:184330800-184346208 Sample_02_0158 Brain U87_EGFRvIII_erlotinib 699 2 421 23 0 180 2039 CLCN2,FAM131A,EIF4G1,SNORD66,CHRD,POLR2H,THPO,PSMD2
SE_02_125801024 chr3:184330854-184342886 Sample_02_1258 Liver Pancreatic cancer cells derived from liver metastasis 1024 4 332 17 0 140 1593 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_095001310 chr3:184330867-184341105 Sample_02_0950 Umbilical vein HUVEC_WT 1310 7 278 15 0 117 1283 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_00_003300493 chr3:184330923-184339389 Sample_00_0033 Psoas muscle psoas-muscle_3y 493 1 223 9 0 117 1008 EIF4G1,FAM131A,SNORD66,CHRD,POLR2H,THPO,PSMD2,CLCN2
SE_02_122800725 chr3:184330999-184334457 Sample_02_1228 Mammary gland MDA-MB-231_2 725 1 84 4 0 12 206 EIF4G1,THPO,CHRD,POLR2H,CLCN2,PSMD2,FAM131A,SNORD66
SE_02_011300486 chr3:184331051-184337514 Sample_02_0113 Connective tissue HT1080_DOX5d 486 1 174 6 0 83 664 EIF4G1,FAM131A,SNORD66,CHRD,POLR2H,THPO,PSMD2,CLCN2
SE_02_113900865 chr3:184331107-184337689 Sample_02_1139 Retinal Pigmented Epithelial RPE1-anaphase/telophase 865 1 178 6 0 90 687 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_132100345 chr3:184331113-184345771 Sample_02_1321 Connective Tissue HT1080_FUS-DDIT3 345 3 399 20 0 179 1949 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_113701431 chr3:184331222-184341488 Sample_02_1137 Retinal Pigmented Epithelial RPE1-interphase 1431 3 277 15 0 117 1340 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_01_007700784 chr3:184331272-184340316 Sample_01_0077 Gastroesophageal sphincter gastroesophageal-sphincter 784 1 244 12 0 116 1128 EIF4G1,FAM131A,SNORD66,CHRD,POLR2H,THPO,PSMD2,CLCN2
SE_02_132200340 chr3:184331322-184341375 Sample_02_1322 Connective Tissue HT1080_WT 340 2 272 15 0 115 1299 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_113801122 chr3:184331512-184337705 Sample_02_1138 Retinal Pigmented Epithelial RPE1-prometaphase 1122 1 167 5 0 86 623 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_125400436 chr3:184331754-184337088 Sample_02_1254 Bladder Bladder tumor Basal1 436 1 146 5 0 69 477 FAM131A,EIF4G1,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_126800355 chr3:184331756-184345430 Sample_02_1268 Bone Im-GCT-4072_G34W unedited_U3 355 3 370 19 0 173 1761 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_137700661 chr3:184331772-184341052 Sample_02_1377 Pancreas Pancreatic_tumor_associated_fibroblasts_BF1_untreated 661 3 248 14 0 111 1153 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_145500854 chr3:184331934-184339340 Sample_02_1455 Arter pulmonary arterial smooth muscle cells_PAH2_sialdh1a3 854 3 195 8 0 109 848 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_145100543 chr3:184331943-184339330 Sample_02_1451 Arter pulmonary arterial smooth muscle cells_PAH1_sictrl 543 1 194 8 0 109 847 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_01_011700417 chr3:184332009-184339425 Sample_01_0117 Lung fibroblast of lung 417 2 194 9 0 109 857 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_01_007800966 chr3:184332038-184340057 Sample_01_0078 Heart left ventricle heart-left-ventricle 966 1 213 11 0 109 949 EIF4G1,FAM131A,SNORD66,CHRD,POLR2H,THPO,PSMD2,CLCN2
SE_02_135301024 chr3:184332049-184337318 Sample_02_1353 Mammary gland MDA-MB-231-Erbeta_TNFa 1024 1 140 5 0 68 463 FAM131A,EIF4G1,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_03_000300319 chr3:184332182-184339661 Sample_03_0003 Foreskin foreskin-keratinocyte-calcium5.5day 319 2 196 10 0 106 851 EIF4G1,FAM131A,SNORD66,CHRD,POLR2H,THPO,PSMD2,CLCN2
SE_00_000301403 chr3:184332387-184339468 Sample_00_0003 Adrenal gland adrenal-gland_97d 1403 1 183 9 0 105 815 EIF4G1,FAM131A,SNORD66,CHRD,POLR2H,THPO,PSMD2,CLCN2
SE_02_021600997 chr3:184332646-184353893 Sample_02_0216 Skin NHEK_scramble 997 4 622 46 1 233 2493 CLCN2,FAM131A,EIF4G1,SNORD66,CHRD,POLR2H,THPO,PSMD2
SE_02_003300978 chr3:184332666-184372355 Sample_02_0033 Pancreas pancreatic-islets-F 978 5 1088 59 1 393 4076 POLR2H,CLCN2,THPO,FAM131A,EIF4G1,SNORD66,CHRD,PSMD2
SE_02_003201085 chr3:184333589-184339997 Sample_02_0032 Pancreas pancreatic-islets-M 1085 1 181 11 0 105 899 EIF4G1,FAM131A,SNORD66,CHRD,POLR2H,THPO,PSMD2,CLCN2
SE_00_004300147 chr3:184333741-184379865 Sample_00_0043 Stomach stomach_96d 147 7 1283 78 3 481 4691 POLR2H,CLCN2,THPO,FAM131A,EIF4G1,SNORD66,CHRD,PSMD2
SE_02_120501230 chr3:184334115-184339935 Sample_02_1205 Brain NB3 1230 1 171 9 0 105 895 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_00_003500276 chr3:184334437-184364081 Sample_00_0035 Sigmoid colon sigmoid-colon 276 4 857 51 1 369 3798 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,CHRD,THPO,PSMD2
SE_02_003900873 chr3:184334447-184363969 Sample_02_0039 Embryo AFG 873 5 853 51 1 369 3798 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,CHRD,THPO,PSMD2
SE_02_120000925 chr3:184334538-184339949 Sample_02_1200 Brain GBM36 925 1 159 8 0 105 895 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_119700338 chr3:184334582-184340036 Sample_02_1197 Brain GBM33 338 1 156 8 0 105 896 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_00_001000316 chr3:184334608-184363736 Sample_00_0010 Embryo endodermal-cell 316 5 840 51 1 368 3785 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,CHRD,THPO,PSMD2
SE_02_119301053 chr3:184334624-184340213 Sample_02_1193 Brain GBM27 1053 1 158 8 0 105 923 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_119900768 chr3:184334634-184339975 Sample_02_1199 Brain GBM35 768 1 154 7 0 105 884 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_02_035000203 chr3:184334706-184363924 Sample_02_0350 Dorsolateral prefrontal cortex dorsolateral-prefrontal-cortex 203 7 843 50 1 369 3766 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,CHRD,THPO,PSMD2
SE_02_120200562 chr3:184334733-184339963 Sample_02_1202 Brain GBM38 562 1 151 7 0 105 861 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_00_003600524 chr3:184334787-184367607 Sample_00_0036 Small intestine small-intestine_108days 524 6 925 53 1 368 3872 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,CHRD,THPO,PSMD2
SE_00_002000768 chr3:184334800-184367634 Sample_00_0020 Large intestine large-intestine_108d 768 5 925 53 1 367 3871 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,CHRD,THPO,PSMD2
SE_02_119601281 chr3:184335122-184339956 Sample_02_1196 Brain GBM32 1281 1 136 7 0 89 771 EIF4G1,FAM131A,THPO,CHRD,POLR2H,CLCN2,PSMD2,SNORD66
SE_00_003401138 chr3:184335125-184346645 Sample_00_0034 Right cardiac atrium right-cardiac-atrium 1138 2 322 18 0 156 1792 CLCN2,FAM131A,EIF4G1,SNORD66,CHRD,POLR2H,THPO,PSMD2
SE_00_002900096 chr3:184335149-184379825 Sample_00_0029 Ovary ovary 96 10 1240 74 3 465 4561 POLR2H,CLCN2,THPO,FAM131A,EIF4G1,SNORD66,CHRD,PSMD2
SE_02_004800405 chr3:184335164-184380357 Sample_02_0048 Embryo endodermal CyT49_HE 405 8 1243 74 3 489 4734 POLR2H,CHRD,CLCN2,THPO,FAM131A,EIF4G1,SNORD66,PSMD2
SE_02_001900269 chr3:184335179-184364119 Sample_02_0019 Embryo Neural crest cells 269 10 834 50 1 351 3660 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,CHRD,THPO,PSMD2
SE_02_001600400 chr3:184344504-184355331 Sample_02_0016 Blood erythroblasts 400 1 347 30 1 114 1387 FAM131A,CLCN2,SNORD66,CHRD,EIF4G1,POLR2H,THPO,PSMD2
SE_02_023700646 chr3:184345268-184364411 Sample_02_0237 Colon V389 646 3 558 35 1 203 2160 FAM131A,POLR2H,CLCN2,SNORD66,CHRD,EIF4G1,THPO,PSMD2
SE_02_024100795 chr3:184351618-184363932 Sample_02_0241 Colon V456 795 2 358 12 1 165 1767 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,THPO,CHRD
SE_02_001500676 chr3:184354220-184364069 Sample_02_0015 Liver HepG2_shNS 676 2 259 7 0 132 1221 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,THPO,CHRD
SE_02_022800302 chr3:184356536-184365705 Sample_02_0228 Oesophagus KYSE510 302 1 213 7 0 115 896 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,THPO,CHRD
SE_02_003200875 chr3:184358494-184364469 Sample_02_0032 Pancreas pancreatic-islets-M 875 1 140 3 0 80 469 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,THPO,CHRD
SE_02_029300289 chr3:184358857-184364472 Sample_02_0293 Pancreatic L3-6_4SC-202 289 1 131 3 0 79 400 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,THPO,CHRD
SE_02_035800602 chr3:184359841-184364521 Sample_02_0358 Colon LS180 602 1 102 2 0 58 288 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,THPO,CHRD
SE_02_039601122 chr3:184360098-184364096 Sample_02_0396 Skin NHEK-D 1122 1 85 2 0 50 288 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,THPO,CHRD
SE_02_040300306 chr3:184360267-184365562 Sample_02_0403 Mammary gland T-47D_untreat 306 1 106 3 0 53 350 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,THPO,CHRD
SE_01_007900989 chr3:184360500-184364391 Sample_01_0079 Peyers patch Peyers-patch 989 1 80 2 0 49 288 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,THPO,CHRD
SE_01_002200272 chr3:184360580-184364133 Sample_01_0022 Prostate C4-2B 272 1 75 2 0 49 288 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,THPO,CHRD
SE_01_003700953 chr3:184360839-184364544 Sample_01_0037 Liver hepatocyte 953 1 79 2 0 43 288 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,THPO,CHRD
SE_02_010600484 chr3:184361056-184363665 Sample_02_0106 Skin NHEK_M 484 1 52 2 0 42 269 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,THPO,CHRD
SE_02_001400372 chr3:184361066-184363801 Sample_02_0014 Liver HepG2_shBRG1 372 1 54 2 0 43 288 POLR2H,CLCN2,FAM131A,EIF4G1,SNORD66,THPO,CHRD
SE_02_104601225 chr3:184372488-184426908 Sample_02_1046 Peripheral blood CD4+ cells_CTCL1145 1225 20 1601 68 2 312 2631 CHRD,THPO,FAM131A,POLR2H,CLCN2,SNORD66
Genomic distribution of SEs associated with CLCN2
Genome Browser

The strength of the tissue affected by the gene

Expression of CLCN2

Cell line (ENCODE) Primary cell (ENCODE)Tissue (NCBI) Normal tissue (GTEx) Cell line (CCLE)