SEdb 2.0
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  2. Super-enhancer search result of gene-based

Gene overview

Strategies/Algorithm: closest_active Ensembl ID: ENSG00000231428
Gene: LINC00396 Gene type: lncRNA
Strand: + External links:
Genomic region: chr13:110053285-110054952 Genome Browser:

Super-enhancer search result of gene-based

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SE ID SE Region Sample ID Tissue type Biosample name SE rank Element Common SNP eQTL Risk SNP TFBS CRISPR Cas9 Gene
SE_02_113600382 chr13:109241630-109274831 Sample_02_1136 Bone U2OS-anaphase/telophase 382 11 1039 121 5 47 0 MYO16-AS1,LINC00396
SE_02_073000356 chr13:109962684-109985773 Sample_02_0730 Lymphoma J4_Mantle cell lymphoma tissue_DMSO 356 4 748 43 1 16 0 LINC00396
SE_02_073200293 chr13:109962815-110007910 Sample_02_0732 Lymphoma L20_Mantle cell lymphoma tissue_DMSO 293 7 1534 84 5 34 0 LINC00396
SE_02_073500273 chr13:109962875-109985298 Sample_02_0735 Lymphoma PAR_Mantle cell lymphoma tissue_THZ1 273 3 722 43 1 16 0 LINC00396
SE_02_073300330 chr13:109962955-109986148 Sample_02_0733 Lymphoma L20_Mantle cell lymphoma tissue_THZ1 330 5 756 45 1 16 0 LINC00396
SE_02_073400260 chr13:109963158-109985255 Sample_02_0734 Lymphoma PAR_Mantle cell lymphoma tissue_DMSO 260 3 714 43 1 16 0 LINC00396
SE_02_073100381 chr13:109963234-109985853 Sample_02_0731 Lymphoma J4_Mantle cell lymphoma tissue_THZ1 381 6 735 43 1 15 0 LINC00396
SE_02_076300110 chr13:109973919-110021928 Sample_02_0763 Podocyte podocyte_DEX 110 5 1595 118 4 42 0 LINC00396
SE_02_067300412 chr13:109982875-110017371 Sample_02_0673 Prostate LNCAP_FA 412 6 1171 75 4 37 0 LINC00396
SE_02_077200101 chr13:109983951-110016621 Sample_02_0772 Prostate 22Rv1_delSite1_Clone11/12-F6 101 6 1119 72 4 35 0 LINC00396
SE_02_077600726 chr13:109985054-110026568 Sample_02_0776 Pancreas EndoC-BH1 726 7 1388 113 4 33 0 LINC00396
SE_02_154800376 chr13:109985173-110025094 Sample_02_1548 Gastrointestinal Stromal GIST-226 376 18 1331 103 4 33 0 LINC00396
SE_02_158200099 chr13:109985736-110019047 Sample_02_1582 Renal OS-RC-2 99 10 1122 77 4 33 0 LINC00396,IRS2
SE_02_158100079 chr13:109985818-110019106 Sample_02_1581 Renal OS-LM1 79 10 1121 77 4 33 0 LINC00396
SE_02_099200489 chr13:109989059-110020252 Sample_02_0992 Mammary gland MDA-MB-231_Par 489 8 1047 79 4 31 0 LINC00396
SE_02_157900067 chr13:109989081-110019394 Sample_02_1579 Renal 786-M1A 67 5 1022 75 4 31 0 LINC00396
SE_02_143800808 chr13:109989325-110024985 Sample_02_1438 Liver LSEC 808 11 1188 97 4 31 0 LINC00396
SE_02_143701027 chr13:109989441-110020427 Sample_02_1437 Liver LSEC-TNF 1027 10 1042 78 4 31 0 LINC00396
SE_02_060501239 chr13:109989441-110024527 Sample_02_0605 Skin Skin Fibroblast_DMSO 1239 11 1173 94 4 31 0 LINC00396
SE_02_153600533 chr13:109989588-110018931 Sample_02_1536 Mammary gland MDA-MB-231_ER?_L540Q_0min 533 8 987 71 4 31 0 LINC00396
SE_02_099100441 chr13:109990339-110019600 Sample_02_0991 Breast cancer cell line lung metastatic variant MDA-MB-231 LM2 441 9 993 74 4 23 0 LINC00396
SE_02_143600836 chr13:109990417-110024608 Sample_02_1436 Liver LSEC-Ctrl 836 10 1144 93 4 20 0 LINC00396
SE_02_047500167 chr13:109997608-110024485 Sample_02_0475 Induced hepatocyte-like cells hepatocyte-like cells 167 6 892 82 4 19 0 LINC00396
SE_02_116900447 chr13:109997705-110019389 Sample_02_1169 Biliary H69_TGF beta_16h_2 447 12 727 62 4 19 0 LINC00396
SE_02_151500227 chr13:109997798-110020325 Sample_02_1515 Non-transformed mammary epithelial IMEC WT 227 9 751 66 4 19 0 LINC00396
SE_02_116600414 chr13:109997897-110019402 Sample_02_1166 Biliary H69_TGF beta_16h_1 414 12 717 62 4 19 0 LINC00396
SE_02_151600212 chr13:109997991-110019035 Sample_02_1516 Non-transformed mammary epithelial IMEC MYC 212 10 699 59 4 19 0 LINC00396
SE_02_154000619 chr13:109998046-110019091 Sample_02_1540 Nasopharyngeal HK1 619 9 698 59 4 19 0 LINC00396
SE_02_152100041 chr13:109998108-110030407 Sample_02_1521 Skin A375 DMSO 41 9 1079 119 7 24 0 LINC00396
SE_02_047401584 chr13:109998617-110018902 Sample_02_0474 Fibroblast umbilical cord Fibroblast 1584 10 668 57 4 19 0 LINC00396
SE_02_149300502 chr13:109998979-110030710 Sample_02_1493 Skin SK-MEL-5_DMSO_6h 502 7 1049 119 7 24 0 LINC00396
SE_02_152200054 chr13:109999073-110039320 Sample_02_1522 Skin A375 RTKi 54 13 1307 141 9 32 0 LINC00396
SE_02_135900614 chr13:109999161-110018990 Sample_02_1359 Other IC8-deltaEGF-L1596H_GSI_4h 614 7 640 56 4 19 0 LINC00396
SE_02_057100464 chr13:109999188-110027825 Sample_02_0571 Brain LN229_1mM_glucose_5mM_acetate 464 16 939 104 5 19 0 LINC00396
SE_02_095300244 chr13:109999381-110059493 Sample_02_0953 Brain H3.3K27M_1840 244 18 1913 161 9 36 0 LINC00396
SE_02_113600817 chr13:110001273-110018873 Sample_02_1136 Bone U2OS-anaphase/telophase 817 8 571 52 3 19 0 LINC00396
SE_02_077502402 chr13:110003151-110025066 Sample_02_0775 Pancreas EndoC-BH1_SE 2402 5 697 72 2 16 0 LINC00396
SE_02_118700538 chr13:110006330-110074364 Sample_02_1187 Brain GBM16 538 13 2169 157 8 67 0 LINC00396
SE_02_046700159 chr13:110006717-110018237 Sample_02_0467 Kidney 786-O_control 159 5 359 35 1 15 0 LINC00396
SE_02_079300401 chr13:110010360-110018565 Sample_02_0793 Brain MES20 401 4 254 30 0 2 0 LINC00396
SE_02_071600618 chr13:110010690-110018403 Sample_02_0716 Pancreas SUIT2_GFP 618 6 239 30 0 2 0 LINC00396
SE_02_071500583 chr13:110010927-110018849 Sample_02_0715 Pancreas SUIT2_TP63dN 583 4 241 29 0 2 0 LINC00396
SE_02_071901071 chr13:110011256-110018243 Sample_02_0719 Pancreas SUIT2_TP63dN_DOX 1071 6 214 27 0 2 0 LINC00396
SE_02_158600354 chr13:110023475-110047911 Sample_02_1586 Blood SupB15 ACY1035 354 8 753 77 5 15 0 LINC00396
SE_02_158500358 chr13:110023827-110047840 Sample_02_1585 Blood SupB15 DMSO 358 9 737 77 5 15 0 LINC00396
SE_02_122700417 chr13:110030000-110063734 Sample_02_1227 Bone marrow U266 417 11 1041 49 4 12 0 LINC00396
SE_02_095700044 chr13:110047182-110058630 Sample_02_0957 Brain 429_Tumor_H3.3K27WT 44 3 380 6 0 2 0 LINC00396
SE_02_149300248 chr13:110089233-110110391 Sample_02_1493 Skin SK-MEL-5_DMSO_6h 248 8 613 17 2 3 0 LINC00396
SE_02_152200145 chr13:110089271-110138816 Sample_02_1522 Skin A375 RTKi 145 8 1456 39 4 27 0 LINC00396
SE_02_152100210 chr13:110089733-110138938 Sample_02_1521 Skin A375 DMSO 210 11 1450 39 4 27 0 LINC00396
SE_02_085700022 chr13:110090364-110188848 Sample_02_0857 Glioblastoma Glioblastoma neurosphere cell_HF-3035 22 15 2981 60 15 207 2114 COL4A1,LINC00396
SE_02_095600342 chr13:110091655-110138674 Sample_02_0956 Brain IDH1_2658 342 14 1378 38 4 27 0 LINC00396
SE_02_095700001 chr13:110091903-110158073 Sample_02_0957 Brain 429_Tumor_H3.3K27WT 1 9 1962 47 7 63 338 COL4A1,LINC00396
SE_02_096800036 chr13:110092033-110157186 Sample_02_0968 Brain H3.3K27M_pcGBM2p18_cells 36 7 1931 45 7 61 338 COL4A1,LINC00396
SE_02_141000071 chr13:110092065-110139097 Sample_02_1410 Brain GSC6 71 9 1379 39 4 27 0 LINC00396
SE_02_118200053 chr13:110092097-110157513 Sample_02_1182 Brain GBM11 53 18 1941 45 7 62 338 COL4A1,LINC00396
SE_02_078900001 chr13:110092121-110139122 Sample_02_0789 Brain 3752 1 15 1378 39 4 27 0 LINC00396
SE_02_095300036 chr13:110092125-110139542 Sample_02_0953 Brain H3.3K27M_1840 36 10 1386 39 4 27 0 LINC00396
SE_02_085600088 chr13:110092142-110139016 Sample_02_0856 Glioblastoma Glioblastoma neurosphere cell_HF-3016 88 6 1376 38 4 27 0 LINC00396
SE_02_121000038 chr13:110092165-110157789 Sample_02_1210 Brain GBM17 38 19 1947 46 7 62 338 COL4A1,LINC00396
SE_02_118900075 chr13:110092168-110158535 Sample_02_1189 Brain GBM22 75 17 1969 50 7 63 338 COL4A1,LINC00396
SE_02_118700031 chr13:110092181-110139534 Sample_02_1187 Brain GBM16 31 10 1384 39 4 27 0 LINC00396
SE_02_119300050 chr13:110092753-110139294 Sample_02_1193 Brain GBM27 50 11 1367 39 4 27 0 LINC00396
SE_02_118600231 chr13:110092830-110139156 Sample_02_1186 Brain GBM15 231 9 1360 39 4 27 0 LINC00396
SE_02_119700064 chr13:110092849-110169927 Sample_02_1197 Brain GBM33 64 23 2325 58 9 102 801 COL4A1,LINC00396
SE_02_118300018 chr13:110092853-110201637 Sample_02_1183 Brain GBM12 18 28 3353 72 24 232 2512 COL4A1,LINC00396
SE_02_119800086 chr13:110092877-110139209 Sample_02_1198 Brain GBM34 86 20 1361 39 4 27 0 LINC00396
SE_02_118000040 chr13:110092904-110139350 Sample_02_1180 Brain GBM09 40 17 1364 39 4 27 0 LINC00396
SE_02_157900635 chr13:110092957-110138946 Sample_02_1579 Renal 786-M1A 635 11 1353 37 4 27 0 LINC00396
SE_02_078800033 chr13:110093012-110139123 Sample_02_0788 Brain 3565 33 14 1355 38 4 27 0 LINC00396
SE_02_121100086 chr13:110093049-110139180 Sample_02_1211 Brain GBM21 86 15 1357 38 4 27 0 LINC00396
SE_02_154000277 chr13:110093619-110139264 Sample_02_1540 Nasopharyngeal HK1 277 11 1344 38 4 27 0 LINC00396
SE_02_079400032 chr13:110093712-110139099 Sample_02_0794 Brain 1552 32 11 1333 38 4 27 0 LINC00396
SE_02_097700096 chr13:110093726-110139214 Sample_02_0977 Brain 2089_H3.3K27WT 96 12 1336 38 4 27 0 LINC00396
SE_02_099200640 chr13:110093781-110139299 Sample_02_0992 Mammary gland MDA-MB-231_Par 640 8 1337 38 4 27 0 LINC00396
SE_02_076300914 chr13:110093829-110139151 Sample_02_0763 Podocyte podocyte_DEX 914 9 1332 38 4 27 0 LINC00396
SE_02_158100475 chr13:110094127-110139223 Sample_02_1581 Renal OS-LM1 475 16 1329 38 4 27 0 LINC00396
SE_02_141900273 chr13:110094339-110138618 Sample_02_1419 Brain hNSC 273 9 1306 37 4 27 0 LINC00396
SE_02_109700261 chr13:110106740-110139264 Sample_02_1097 Haematopoietic and lymphoid tissue 697 261 21 951 26 2 24 0 LINC00396
SE_02_136001016 chr13:110108611-110139229 Sample_02_1360 Bladder UMUC1_sonic_pSIN-puro_EV 1016 10 888 25 2 24 0 LINC00396
SE_02_158600198 chr13:110108788-110138875 Sample_02_1586 Blood SupB15 ACY1035 198 12 874 24 2 24 0 LINC00396
SE_02_085500079 chr13:110109129-110152001 Sample_02_0855 Glioblastoma Glioblastoma neurosphere cell_HF-2927 79 6 1256 29 4 47 164 COL4A1,LINC00396
SE_02_079300017 chr13:110109139-110139164 Sample_02_0793 Brain MES20 17 9 879 25 2 24 0 LINC00396
SE_02_047500704 chr13:110109250-110139413 Sample_02_0475 Induced hepatocyte-like cells hepatocyte-like cells 704 12 882 24 2 24 0 LINC00396
SE_02_080200163 chr13:110109445-110139022 Sample_02_0802 Brain 3094 163 8 870 23 2 24 0 LINC00396
SE_02_099100575 chr13:110109623-110139190 Sample_02_0991 Breast cancer cell line lung metastatic variant MDA-MB-231 LM2 575 6 871 24 2 24 0 LINC00396
SE_02_057100750 chr13:110110135-110138455 Sample_02_0571 Brain LN229_1mM_glucose_5mM_acetate 750 9 841 22 2 24 0 LINC00396
SE_02_141700023 chr13:110120328-110138144 Sample_02_1417 Brain SF7761 23 3 557 14 2 12 0 LINC00396
SE_02_129500104 chr13:110122372-110138090 Sample_02_1295 Lung JHU-LX48-SCLC PDX 104 4 495 13 2 12 0 LINC00396
SE_02_094200265 chr13:110122499-110138597 Sample_02_0942 Brain LN229 265 5 503 13 2 22 0 LINC00396
SE_02_132600093 chr13:110122575-110126093 Sample_02_1326 Hindbrain Hindbrain derived neural stem cells_NS13_H3.3K27M 93 3 106 0 0 1 0 LINC00396
SE_02_158500540 chr13:110124785-110138881 Sample_02_1585 Blood SupB15 DMSO 540 6 438 13 2 21 0 LINC00396
Genomic distribution of SEs associated with LINC00396
Genome Browser

The strength of the tissue affected by the gene

Expression of LINC00396

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