SEdb 2.0
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Gene overview

Strategies/Algorithm: closest_active Ensembl ID: ENSG00000204410
Gene: MSH5 Gene type: protein_coding
Strand: + External links:
Genomic region: chr6:31739677-31762676 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_003900088 chr6:31713413-31777559 Sample_02_0039 Embryo AFG 88 10 1454 138 31 470 6913 MSH5,C6ORF26,LY6G6E,LY6G6D,CLIC1,C6ORF25,C6ORF27,VARS,DDAH2,LY6G6C,BAT5,LY6G5B,GPANK1,LY6G5C,LSM2,HSPA1L,CSNK2B,HSPA1A,LY6G6F
SE_02_004500050 chr6:31728679-31750905 Sample_02_0045 Embryo endodermal CyT49_ES_D7 50 4 490 56 8 137 1706 CLIC1,MSH5,DDAH2,VARS,BAT5,C6ORF26,LY6G5C,LY6G6C,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_003800996 chr6:31729129-31763867 Sample_02_0038 Embryo DE 996 7 742 76 19 199 3054 CLIC1,MSH5,C6ORF26,DDAH2,VARS,BAT5,LY6G5C,LY6G6C,C6ORF25,LY6G6D,LSM2,LY6G6F,LY6G6E,C6ORF27
SE_00_002300814 chr6:31729223-31751015 Sample_00_0023 Embryo mesenchymal-stem-cell 814 4 483 57 8 118 1573 CLIC1,MSH5,DDAH2,VARS,BAT5,C6ORF26,LY6G5C,LY6G6C,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_039800340 chr6:31732274-31748174 Sample_02_0398 Mammary gland MDA-MB-231-MCF-7 340 3 364 42 6 114 1088 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_005400532 chr6:31732419-31753604 Sample_02_0054 Lung IMR-90_DMSO_1 532 4 474 52 8 123 1138 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_015000343 chr6:31732649-31753669 Sample_02_0150 Mammary gland MDA-MB-231_GATA3 343 4 473 52 8 126 1134 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_032300369 chr6:31732946-31753823 Sample_02_0323 Colon RKO 369 4 471 51 8 126 1158 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_030101051 chr6:31733039-31754036 Sample_02_0301 Neuroblastoma GIMEN 1051 3 469 50 8 126 1159 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_031700771 chr6:31733057-31754291 Sample_02_0317 Neuroblastoma GICAN 771 3 472 50 8 126 1159 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_011200730 chr6:31733064-31754110 Sample_02_0112 Connective tissue HT1080_untreated 730 2 468 50 8 126 1159 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_043300515 chr6:31733067-31753849 Sample_02_0433 Lung NCI-H1299_EGFP-NEO_reporter_cells_DAC 515 2 464 50 8 126 1159 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_025900383 chr6:31733162-31753893 Sample_02_0259 Lung NCI-H1299_EGFP-NEO_reporter_cells_SAHA 383 2 463 50 8 126 1159 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_005500642 chr6:31733281-31753652 Sample_02_0055 Lung IMR-90_Nutlin-3a 642 3 458 50 8 126 1131 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_025800361 chr6:31733322-31753797 Sample_02_0258 Lung NCI-H1299_EGFP-NEO_reporter_cells_DMSO 361 3 460 50 8 126 1155 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_033000302 chr6:31733613-31745651 Sample_02_0330 Endoderm MHG 302 3 278 34 5 101 953 CLIC1,MSH5,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_018200332 chr6:31733622-31753734 Sample_02_0182 melanoma LOX-IMVI 332 4 452 50 8 125 1105 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_01_003800049 chr6:31733749-31748042 Sample_01_0038 Liver HepG2 49 2 334 39 5 106 986 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27,ABHD16A,APO,C6ORF48,GPANK1,LY6G5B,SH5,SAPCD1,VWA7
SE_02_035300320 chr6:31733770-31748047 Sample_02_0353 Colon HT29 320 2 334 39 5 106 984 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_001000977 chr6:31733815-31752669 Sample_02_0010 Kidney A-498_emptyvector 977 6 428 49 7 108 977 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_026800446 chr6:31733817-31753881 Sample_02_0268 Kidney A-498 446 7 452 50 8 125 1083 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_019700201 chr6:31734034-31748015 Sample_02_0197 Stomach SNU1750 201 3 332 39 5 105 928 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
SE_02_020000031 chr6:31734374-31748027 Sample_02_0200 Stomach RERF-GC-1B 31 2 325 39 5 96 864 CLIC1,MSH5,VARS,BAT5,C6ORF26,LY6G6C,DDAH2,C6ORF25,LY6G6D,LY6G6F,LY6G6E,C6ORF27
Genomic distribution of SEs associated with MSH5
Genome Browser

The strength of the tissue affected by the gene

Expression of MSH5

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