SEdb 2.0
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Gene overview

Strategies/Algorithm: closest_active Ensembl ID: ENSG00000135097
Gene: MSI1 Gene type: protein_coding
Strand: - External links:
Genomic region: chr12:120341330-120369164 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_003200148 chr12:120316026-120414663 Sample_02_0032 Pancreas pancreatic-islets-M 148 20 2476 239 6 414 2209 PLA2G1B,MSI1,GATC,TRIAP1,SIRT4,COX6A1
SE_01_009500130 chr12:120341251-120414658 Sample_01_0095 Embryo neuroepithelial stem cell stably expressing HES5 originated from H9 130 17 1862 180 3 383 1884 MSI1,SIRT4,RNU4-1,COX6A1,TRIAP1,PLA2G1B,GATC,RNU4-2
SE_02_001900068 chr12:120341448-120370802 Sample_02_0019 Embryo Neural crest cells 68 7 700 72 2 281 1864 MSI1,PLA2G1B,SIRT4
SE_02_027800110 chr12:120341642-120372239 Sample_02_0278 Retina FW24 110 3 736 77 2 281 1834 MSI1,PLA2G1B,SIRT4
SE_02_101700254 chr12:120341811-120414749 Sample_02_1017 Embryo H9_Mesendoderm 24h_Hydroxyurea 254 13 1854 179 3 380 1807 MSI1,SIRT4,RNU4-1,COX6A1,TRIAP1,PLA2G1B,GATC,RNU4-2
SE_02_143301057 chr12:120342279-120364267 Sample_02_1433 Bone A673 STAG2 null 1057 5 549 60 2 175 1183 MSI1,SIRT4,RNU4-1,PLA2G1B
SE_02_004700655 chr12:120347125-120377922 Sample_02_0047 Pancreatic endoderm IIDP/donor790 655 6 732 73 2 248 1174 MSI1,PLA2G1B,SIRT4
SE_02_003300758 chr12:120350443-120430962 Sample_02_0033 Pancreas pancreatic-islets-F 758 12 2034 211 1 338 1076 MSI1,GATC,SIRT4,SRSF9,TRIAP1,PLA2G1B,DYNLL1,COX6A1
SE_02_118100831 chr12:120351107-120368984 Sample_02_1181 Brain GBM10 831 6 419 35 0 213 933 MSI1,SIRT4,PLA2G1B
SE_02_085400573 chr12:120351164-120369838 Sample_02_0854 Glioblastoma Glioblastoma neurosphere cell_HF-2354 573 6 425 36 0 224 1067 MSI1,SIRT4,PLA2G1B
SE_02_143201407 chr12:120351182-120364664 Sample_02_1432 Bone A673 STAG2 WT 1407 6 328 29 0 125 582 MSI1,SIRT4,PLA2G1B
SE_02_117600310 chr12:120351212-120370051 Sample_02_1176 Brain GBM04 310 3 427 35 0 223 1055 MSI1,SIRT4,PLA2G1B
SE_02_121000287 chr12:120351324-120369872 Sample_02_1210 Brain GBM17 287 4 420 35 0 222 1027 MSI1,SIRT4,PLA2G1B
SE_02_096600563 chr12:120351334-120370147 Sample_02_0966 Brain H3.3K27M_JN29-BS3 563 6 427 35 0 223 1024 MSI1,SIRT4,PLA2G1B
SE_02_077500029 chr12:120351680-120435010 Sample_02_0775 Pancreas EndoC-BH1_SE 29 47 2089 224 1 328 967 MSI1,SIRT4,DYNLL1,GATC,COX6A1,SRSF9,TRIAP1,PLA2G1B
SE_02_097200147 chr12:120355905-120414652 Sample_02_0972 Brain H3.3K27M-KO_BT245-D2p8-Rx_R1_cells 147 12 1494 137 1 306 855 MSI1,TRIAP1,PLA2G1B,COX6A1,GATC
SE_02_096300243 chr12:120356198-120414833 Sample_02_0963 Brain H3.3K27M_Tumor-derived cell-line_G477p6_cells 243 7 1496 137 1 304 855 MSI1,TRIAP1,PLA2G1B,COX6A1,GATC
SE_02_108200201 chr12:120356504-120414763 Sample_02_1082 Retina retina 201 14 1488 137 1 304 855 MSI1,TRIAP1,PLA2G1B,COX6A1,GATC
SE_02_059400694 chr12:120356656-120414666 Sample_02_0594 iPSC-derived neural progenitors 694 8 1484 137 1 304 855 MSI1,TRIAP1,PLA2G1B,COX6A1,GATC,SIRT4
SE_02_003800770 chr12:120356672-120372089 Sample_02_0038 Embryo DE 770 5 360 35 0 203 855 MSI1,PLA2G1B
SE_02_108300184 chr12:120356681-120407457 Sample_02_1083 Macula macula 184 12 1273 114 1 295 855 MSI1,TRIAP1,PLA2G1B,COX6A1,GATC
SE_02_027500284 chr12:120356754-120370788 Sample_02_0275 Retina FW14 284 1 324 29 0 203 840 MSI1,PLA2G1B
SE_02_096200469 chr12:120356758-120370078 Sample_02_0962 Brain H3.3K27M_Tumor-derived cell-line_DIPGXIIIp11_cells 469 5 303 27 0 203 838 MSI1,PLA2G1B
SE_02_119300600 chr12:120356766-120370099 Sample_02_1193 Brain GBM27 600 6 304 27 0 203 836 MSI1,PLA2G1B
SE_02_093500333 chr12:120356774-120369687 Sample_02_0935 Retinal Pigmented Epithelial RPE188_Con 333 4 298 27 0 201 833 MSI1,PLA2G1B
SE_02_118300520 chr12:120356797-120370299 Sample_02_1183 Brain GBM12 520 6 313 28 0 203 826 MSI1,PLA2G1B
SE_02_097100404 chr12:120356807-120370160 Sample_02_0971 Brain H3.3K27M_XPS124018_xenograft 404 5 309 27 0 203 824 MSI1,PLA2G1B
SE_02_120200637 chr12:120356815-120369821 Sample_02_1202 Brain GBM38 637 5 299 27 0 201 823 MSI1,PLA2G1B
SE_02_097000424 chr12:120356815-120370313 Sample_02_0970 Brain H3.3K27M_XHSJ019-X1-1-Rx_xenograft 424 4 315 28 0 203 823 MSI1,PLA2G1B
SE_02_120000649 chr12:120356842-120369941 Sample_02_1200 Brain GBM36 649 4 301 27 0 203 816 MSI1,PLA2G1B
SE_02_101600184 chr12:120356843-120414586 Sample_02_1016 Embryo H9_Mesendoderm_24h 184 11 1482 137 1 304 816 MSI1,TRIAP1,PLA2G1B,COX6A1,GATC
SE_02_093100074 chr12:120356845-120370250 Sample_02_0931 Embryo H9 UTXKO 74 4 313 28 0 203 815 MSI1,PLA2G1B
SE_00_001000207 chr12:120356865-120369120 Sample_00_0010 Embryo endodermal-cell 207 4 293 25 0 190 722 MSI1,PLA2G1B
SE_02_040800579 chr12:120356896-120377127 Sample_02_0408 Kidney G401_Dox 579 4 477 42 0 204 811 MSI1,PLA2G1B
SE_02_132500115 chr12:120356902-120369800 Sample_02_1325 Hindbrain Hindbrain derived neural stem cells_NS19_H3.3K27M_WT 115 7 292 26 0 198 809 MSI1,PLA2G1B
SE_02_119101138 chr12:120356917-120370131 Sample_02_1191 Brain GBM25 1138 5 299 26 0 200 805 MSI1,PLA2G1B
SE_02_085700587 chr12:120356957-120415009 Sample_02_0857 Glioblastoma Glioblastoma neurosphere cell_HF-3035 587 11 1486 136 1 298 798 MSI1,TRIAP1,PLA2G1B,COX6A1,GATC
SE_02_132700198 chr12:120356981-120367224 Sample_02_1327 Hindbrain Hindbrain derived neural stem cells_NS13_H3.3K27M_WT 198 7 251 23 0 128 351 MSI1,PLA2G1B
SE_02_074300355 chr12:120357295-120367190 Sample_02_0743 Embryo ES derived mesoderm_day2 355 7 242 23 0 128 326 MSI1,PLA2G1B
SE_02_027700149 chr12:120357834-120371841 Sample_02_0277 Retina FW18 149 1 323 34 0 191 731 MSI1,PLA2G1B
SE_02_030400460 chr12:120357927-120370142 Sample_02_0304 Neuroblastoma N206 460 2 272 26 0 191 718 MSI1,PLA2G1B
SE_02_025200053 chr12:120357975-120370698 Sample_02_0252 Neuroblastoma IMR5-75-shMYCN-MYCN_high 53 1 286 28 0 191 711 MSI1,PLA2G1B
SE_02_027600198 chr12:120358008-120370749 Sample_02_0276 Retina FW15 198 2 285 28 0 190 706 MSI1,PLA2G1B
SE_02_030200138 chr12:120358112-120369174 Sample_02_0302 Neuroblastoma IMR32 138 1 252 25 0 177 619 MSI1,PLA2G1B
SE_02_055600183 chr12:120358114-120369035 Sample_02_0556 iPSCs BOFS hiPSC cl1 183 3 251 25 0 177 576 MSI1,PLA2G1B
SE_02_003900288 chr12:120358135-120414774 Sample_02_0039 Embryo AFG 288 10 1444 136 1 291 697 MSI1,GATC,PLA2G1B,COX6A1,TRIAP1
SE_02_093400091 chr12:120358291-120370229 Sample_02_0934 Embryo H7-WT 91 7 267 27 0 190 697 MSI1,PLA2G1B
SE_02_093200109 chr12:120358403-120370506 Sample_02_0932 Embryo H9 WT_1 109 3 270 27 0 190 697 MSI1,PLA2G1B
SE_02_101500218 chr12:120358434-120416805 Sample_02_1015 Embryo H9_ Undifferentiated 218 11 1487 139 1 291 697 MSI1,TRIAP1,PLA2G1B,COX6A1,GATC
SE_02_074600998 chr12:120358445-120389190 Sample_02_0746 Embryo ES derived primitive cardiomyocite_day15 998 8 753 71 1 217 697 MSI1,COX6A1,PLA2G1B
SE_02_052400301 chr12:120358541-120398294 Sample_02_0524 Pancreas iPS derived pancreatic precursor cells_Lane2 301 12 979 88 1 254 697 MSI1,TRIAP1,PLA2G1B,COX6A1,GATC
SE_02_004000531 chr12:120358554-120414978 Sample_02_0040 Embryo PFG 531 9 1440 134 1 291 697 MSI1,GATC,PLA2G1B,COX6A1,TRIAP1
SE_02_142000378 chr12:120358564-120369673 Sample_02_1420 Brain DIPG007 378 3 244 24 0 188 697 MSI1,PLA2G1B
SE_02_052500730 chr12:120358579-120367187 Sample_02_0525 Pancreas iPS derived pancreatic precursor cells_Lane1 730 5 204 21 0 124 258 MSI1,PLA2G1B
SE_02_027900118 chr12:120358776-120367370 Sample_02_0279 Retina RB 118 8 202 19 0 125 258 MSI1,PLA2G1B
SE_02_138400264 chr12:120358800-120376097 Sample_02_1384 Other induced pluripotent stem cell derived Neuronal progenitor cell 264 3 388 37 0 191 697 MSI1,PLA2G1B
SE_02_083800486 chr12:120358805-120366942 Sample_02_0838 Embryo hNPCs_WT 486 4 188 19 0 113 257 MSI1,PLA2G1B
SE_02_075501369 chr12:120358826-120371777 Sample_02_0755 Embryo ES-derived progenitors_DE FOXA2 -/- 1369 5 284 27 0 190 695 MSI1,PLA2G1B
SE_02_025400081 chr12:120359338-120370337 Sample_02_0254 Neuroblastoma IMR5-75 81 2 236 19 0 179 603 MSI1,PLA2G1B
SE_02_119200646 chr12:120359850-120370388 Sample_02_1192 Brain GBM26 646 3 223 19 0 172 603 MSI1,PLA2G1B
SE_01_002100860 chr12:120360824-120369148 Sample_01_0021 Skin bipolar-neuron 860 2 175 15 0 159 520 MSI1,PLA2G1B
SE_02_049400287 chr12:120360904-120399126 Sample_02_0494 Islets differentiated hESCs Late pancreatic progenitor cells 287 8 945 82 1 246 603 MSI1,TRIAP1,PLA2G1B,COX6A1,GATC
SE_02_118900396 chr12:120360966-120369972 Sample_02_1189 Brain GBM22 396 3 181 16 0 172 603 MSI1,PLA2G1B
SE_02_107800507 chr12:120361046-120369119 Sample_02_1078 Muscle RMS235_PAX3-NCOA1 507 3 171 15 0 159 511 MSI1,PLA2G1B
SE_02_074501023 chr12:120361078-120367148 Sample_02_0745 Embryo ES derived cardiac progenitor cells_day7 1023 5 136 13 0 105 164 MSI1,PLA2G1B
SE_02_055500590 chr12:120361078-120370169 Sample_02_0555 Other HAP1_WT 590 2 185 16 0 172 603 MSI1,PLA2G1B
SE_02_049500501 chr12:120361096-120369200 Sample_02_0495 Islets differentiated hESCs Early LSD1 inhibition PP2 501 4 170 15 0 159 533 MSI1,PLA2G1B
SE_02_097800511 chr12:120361179-120369816 Sample_02_0978 Brain 2168_IDH1 511 3 174 16 0 170 603 MSI1,PLA2G1B
SE_02_105100599 chr12:120361326-120369822 Sample_02_1051 Esophagus Eso26 599 3 171 16 0 165 603 MSI1,PLA2G1B
SE_02_003601184 chr12:120388360-120414808 Sample_02_0036 Embryo H7 1184 5 697 65 0 77 0 GATC,MSI1,COX6A1,TRIAP1
SE_00_001000404 chr12:120388361-120414866 Sample_00_0010 Embryo endodermal-cell 404 5 700 65 0 77 0 GATC,MSI1,COX6A1,TRIAP1
SE_02_001800519 chr12:120388380-120414856 Sample_02_0018 Embryo NEC 519 5 699 65 0 77 0 GATC,MSI1,COX6A1,TRIAP1
SE_00_001200392 chr12:120388429-120414818 Sample_00_0012 Embryo H1-hESC 392 4 696 65 0 77 0 GATC,MSI1,COX6A1,TRIAP1
SE_02_093100173 chr12:120388442-120416834 Sample_02_0931 Embryo H9 UTXKO 173 12 746 70 0 77 0 MSI1,TRIAP1,COX6A1,GATC,PLA2G1B
SE_02_067900280 chr12:120388466-120414283 Sample_02_0679 Embryo H1 hESC-derived neural progenitor cells_Smad_24hr 280 9 684 65 0 77 0 MSI1,TRIAP1,COX6A1,GATC,SIRT4
SE_02_027600336 chr12:120388475-120414758 Sample_02_0276 Retina FW15 336 5 693 65 0 77 0 GATC,MSI1,COX6A1,TRIAP1
SE_02_157001176 chr12:120388528-120414800 Sample_02_1570 iPSCs EiPSC 1176 4 692 64 0 77 0 MSI1,TRIAP1,COX6A1,GATC
SE_02_001900696 chr12:120388561-120414833 Sample_02_0019 Embryo Neural crest cells 696 5 692 64 0 76 0 GATC,MSI1,COX6A1,TRIAP1
SE_02_093400087 chr12:120388563-120416327 Sample_02_0934 Embryo H7-WT 87 8 724 68 0 76 0 MSI1,TRIAP1,COX6A1,GATC
SE_00_004800188 chr12:120388610-120414600 Sample_00_0048 Embryo neuronal stem cell originated from H1 188 7 683 64 0 76 0 MSI1,TRIAP1,COX6A1,GATC
SE_02_093300153 chr12:120388659-120414717 Sample_02_0933 Embryo H7 UTXKO 153 7 687 64 0 76 0 MSI1,TRIAP1,COX6A1,GATC
SE_02_068100482 chr12:120388732-120398252 Sample_02_0681 Embryo H1 hESC-derived neural progenitor cells_Smad_72hr 482 7 228 17 0 35 0 MSI1,TRIAP1,COX6A1,GATC,SIRT4
SE_02_083800483 chr12:120388757-120414115 Sample_02_0838 Embryo hNPCs_WT 483 6 673 64 0 68 0 MSI1,TRIAP1,COX6A1,GATC,SIRT4
SE_02_055901007 chr12:120388761-120414446 Sample_02_0559 iPSCs FX52 iPSCs dC-T 1007 4 679 64 0 76 0 MSI1,TRIAP1,COX6A1,GATC
SE_02_138400599 chr12:120388811-120416562 Sample_02_1384 Other induced pluripotent stem cell derived Neuronal progenitor cell 599 10 730 68 0 76 0 MSI1,TRIAP1,COX6A1,GATC
SE_02_041700311 chr12:120388925-120402402 Sample_02_0417 Embryo H9_Null 311 3 352 28 0 61 0 GATC,MSI1,COX6A1,TRIAP1
Genomic distribution of SEs associated with MSI1
Genome Browser

The strength of the tissue affected by the gene

Expression of MSI1

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