AT3G52860

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0001747
Physical Location & Seq
Reverse (-)
19591848 .. 19592768
921 bp
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UTR
Exon/CDS
Intron
AT3G52860.1

Sequence Viewer

Length: 471 bp
ATGGATTATCAGCAAAAGCCGCCGCAGTCTTCTGACCCTTCGCCGTCACCGCCTGACCGTCCACCGGGAATCAGATCACCGGAGACCCCCTCGAACAATCAGAATAATGACATAGAGGACATTATGGCTTGCGTCACAGCCTTGGAAGCTGCTCTGTTACCATGTTTGCCGGCGAGAGAGCTTCAGGCCATCGATCGCTCTCCTCACCCTTCTCATCAAATTGATGTGGAGCGGCACGCCAGAGATTTCATGGAAGCTGCGAAAAAGCTTCAGCTTTACTTCATGGGACTAAAGCGAGAAGATCGCGCGCCCTCGAGAGCTGAAAGCCTTAAGAAGGATATTGCAGTAATGGAGGAAGAGCTTAAGACAAAAGATGAGCTTATAAAGAAGCACATGAGGCTTTTCCAAGAGTCGCAGAAGCTTGTGAAAGAACAGATTGAGAAACACAGAGATGAGCTGGAGAAAGTTTAA

Protein Analysis

156

Amino Acids

17.96

Weight (kDa)

5.78

Isoelectric Point (pI)

72.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med28 PF11594 44 - 141 2e-23 Mediator complex subunit 28
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 383
AccBSI CCGCTC 1 cut(s) 232
AccII CGCG 2 cut(s) 306, 308
AciI CCGC 4 cut(s) 20, 23, 50, 232
AcuI CTGAAG 2 cut(s) 167, 254
AfiI CCNNNNNNNGG 2 cut(s) 64, 334
AflII CTTAAG 2 cut(s) 329, 362
Alw26I GTCTC 1 cut(s) 77
Ama87I CYCGRG 1 cut(s) 313
AoxI GGCC 1 cut(s) 186
ApeKI GCWGC 2 cut(s) 149, 257
AspLEI GCGC 2 cut(s) 308, 310
AsuC2I CCSGG 1 cut(s) 66
AsuHPI GGTGA 3 cut(s) 39, 69, 197
AvaI CYCGRG 1 cut(s) 313
BbsI GAAGAC 1 cut(s) 21
BbvI GCAGC 2 cut(s) 136, 244
BccI CCATC 1 cut(s) 197
BceAI ACGGC 1 cut(s) 28
BcnI CCSGG 1 cut(s) 66
BcoDI GTCTC 1 cut(s) 77
BfrI CTTAAG 2 cut(s) 329, 362
BisI GCNGC 5 cut(s) 20, 23, 150, 233, 258
BlsI GCNGC 5 cut(s) 21, 24, 151, 234, 259
Bme1390I CCNGG 1 cut(s) 66
BmeT110I CYCGRG 1 cut(s) 313
BmrFI CCNGG 1 cut(s) 66
BpiI GAAGAC 1 cut(s) 21
BplI GAGNNNNNCTC 2 cut(s) 74, 106
BpuMI CCSGG 1 cut(s) 66
Bsa29I ATCGAT 1 cut(s) 192
BsaI GGTCTC 1 cut(s) 77
BsaJI CCNNGG 1 cut(s) 141
BsaWI WCCGGW 1 cut(s) 79
Bsc4I CCNNNNNNNGG 2 cut(s) 64, 334
Bse118I RCCGGY 1 cut(s) 169
BseCI ATCGAT 1 cut(s) 192
BseDI CCNNGG 1 cut(s) 141
BseLI CCNNNNNNNGG 2 cut(s) 64, 334
BsePI GCGCGC 1 cut(s) 306
BseRI GAGGAG 1 cut(s) 192
BseXI GCAGC 2 cut(s) 136, 244
Bsh1236I CGCG 2 cut(s) 306, 308
Bsh1285I CGRYCG 1 cut(s) 196
BshFI GGCC 1 cut(s) 188
BshVI ATCGAT 1 cut(s) 192
BsiEI CGRYCG 1 cut(s) 196
BsiHKCI CYCGRG 1 cut(s) 313
BsiSI CCGG 3 cut(s) 65, 80, 170
BslFI GGGAC 1 cut(s) 300
BslI CCNNNNNNNGG 2 cut(s) 64, 334
BsmAI GTCTC 1 cut(s) 77
BsmFI GGGAC 1 cut(s) 300
BsnI GGCC 1 cut(s) 188
Bso31I GGTCTC 1 cut(s) 77
BsoBI CYCGRG 1 cut(s) 313
Bsp143I GATC 3 cut(s) 74, 193, 301
BspACI CCGC 4 cut(s) 20, 23, 50, 232
BspANI GGCC 1 cut(s) 188
BspDI ATCGAT 1 cut(s) 192
BspFNI CGCG 2 cut(s) 306, 308
BspQI GCTCTTC 1 cut(s) 351
BspTI CTTAAG 2 cut(s) 329, 362
BspTNI GGTCTC 1 cut(s) 77
BsrBI CCGCTC 1 cut(s) 232
BsrFI RCCGGY 1 cut(s) 169
BssAI RCCGGY 1 cut(s) 169
BssECI CCNNGG 1 cut(s) 141
BssHII GCGCGC 1 cut(s) 306
BssMI GATC 3 cut(s) 74, 193, 301
BssT1I CCWWGG 1 cut(s) 141
Bst4CI ACNGT 1 cut(s) 59
Bst6I CTCTTC 1 cut(s) 351
BstAFI CTTAAG 2 cut(s) 329, 362
BstC8I GCNNGC 4 cut(s) 130, 171, 237, 308
BstENI CCTNNNNNAGG 1 cut(s) 332
BstFNI CGCG 2 cut(s) 306, 308
BstHHI GCGC 2 cut(s) 308, 310
BstKTI GATC 3 cut(s) 77, 196, 304
BstMAI GTCTC 1 cut(s) 77
BstMBI GATC 3 cut(s) 74, 193, 301
BstMCI CGRYCG 1 cut(s) 196
BstMWI GCNNNNNNNGC 4 cut(s) 19, 49, 146, 397
BstSCI CCNGG 1 cut(s) 64
BstUI CGCG 2 cut(s) 306, 308
BstV1I GCAGC 2 cut(s) 136, 244
BstV2I GAAGAC 1 cut(s) 21
Bsu15I ATCGAT 1 cut(s) 192
BsuRI GGCC 1 cut(s) 188
BsuTUI ATCGAT 1 cut(s) 192
Cac8I GCNNGC 4 cut(s) 130, 171, 237, 308
CfoI GCGC 2 cut(s) 308, 310
Cfr10I RCCGGY 1 cut(s) 169
ClaI ATCGAT 1 cut(s) 192
CseI GACGC 1 cut(s) 121
CviAII CATG 4 cut(s) 162, 250, 283, 394
DpnI GATC 3 cut(s) 76, 195, 303
DpnII GATC 3 cut(s) 74, 193, 301
Eam1104I CTCTTC 1 cut(s) 351
EarI CTCTTC 1 cut(s) 351
Eco130I CCWWGG 1 cut(s) 141
Eco31I GGTCTC 1 cut(s) 77
Eco57I CTGAAG 2 cut(s) 167, 254
Eco88I CYCGRG 1 cut(s) 313
EcoNI CCTNNNNNAGG 1 cut(s) 332
EcoT14I CCWWGG 1 cut(s) 141
ErhI CCWWGG 1 cut(s) 141
FaeI CATG 4 cut(s) 165, 253, 286, 397
FaiI YATR 7 cut(s) 113, 125, 163, 251, 284, 383, 395
FalI AAGNNNNNCTT 2 cut(s) 363, 395
FaqI GGGAC 1 cut(s) 300
FatI CATG 4 cut(s) 161, 249, 282, 393
Fnu4HI GCNGC 5 cut(s) 20, 23, 150, 233, 258
Fsp4HI GCNGC 5 cut(s) 20, 23, 150, 233, 258
GlaI GCGC 2 cut(s) 307, 309
GluI GCNGC 5 cut(s) 20, 23, 150, 233, 258
HaeIII GGCC 1 cut(s) 188
HapII CCGG 3 cut(s) 65, 80, 170
HgaI GACGC 1 cut(s) 121
HhaI GCGC 2 cut(s) 308, 310
Hin1II CATG 4 cut(s) 165, 253, 286, 397
Hin6I GCGC 2 cut(s) 306, 308
HinP1I GCGC 2 cut(s) 306, 308
HindIII AAGCTT 2 cut(s) 266, 419
HinfI GANTC 2 cut(s) 69, 410
HpaII CCGG 3 cut(s) 65, 80, 170
HphI GGTGA 3 cut(s) 39, 69, 197
Hpy166II GTNNAC 1 cut(s) 62
Hpy188I TCNGA 3 cut(s) 34, 74, 102
Hpy188III TCNNGA 1 cut(s) 315
Hpy8I GTNNAC 1 cut(s) 62
HpyAV CCTTC 3 cut(s) 48, 219, 328
HpyCH4III ACNGT 1 cut(s) 59
HpyCH4V TGCA 1 cut(s) 344
HpyF10VI GCNNNNNNNGC 4 cut(s) 19, 49, 146, 397
Hsp92II CATG 4 cut(s) 165, 253, 286, 397
HspAI GCGC 2 cut(s) 306, 308
KroI GCCGGC 1 cut(s) 169
KroNI GCCGGC 1 cut(s) 171
Kzo9I GATC 3 cut(s) 74, 193, 301
LguI GCTCTTC 1 cut(s) 351
LmnI GCTCC 1 cut(s) 229
LpnPI CCDG 7 cut(s) 66, 78, 93, 170, 183, 253, 443
Lsp1109I GCAGC 2 cut(s) 136, 244
MaeIII GTNAC 3 cut(s) 45, 133, 156
MalI GATC 3 cut(s) 76, 195, 303
MbiI CCGCTC 1 cut(s) 232
MboI GATC 3 cut(s) 74, 193, 301
MboII GAAGA 3 cut(s) 21, 311, 368
MluCI AATT 1 cut(s) 219
MlyI GAGTC 1 cut(s) 419
MnlI CCTC 6 cut(s) 100, 109, 213, 322, 346, 390
MroNI GCCGGC 1 cut(s) 169
MseI TTAA 3 cut(s) 330, 363, 469
MslI CAYNNNNRTG 1 cut(s) 450
MspCI CTTAAG 2 cut(s) 329, 362
MspI CCGG 3 cut(s) 65, 80, 170
MspR9I CCNGG 1 cut(s) 66
MvnI CGCG 2 cut(s) 306, 308
MwoI GCNNNNNNNGC 4 cut(s) 19, 49, 146, 397
NaeI GCCGGC 1 cut(s) 171
NciI CCSGG 1 cut(s) 66
NdeII GATC 3 cut(s) 74, 193, 301
NgoMIV GCCGGC 1 cut(s) 169
NlaIII CATG 4 cut(s) 165, 253, 286, 397
NmuCI GTSAC 2 cut(s) 45, 133
PaeR7I CTCGAG 1 cut(s) 313
PauI GCGCGC 1 cut(s) 306
PciSI GCTCTTC 1 cut(s) 351
PdiI GCCGGC 1 cut(s) 171
PfeI GAWTC 1 cut(s) 69
PkrI GCNGC 5 cut(s) 21, 24, 151, 234, 259
Ple19I CGATCG 1 cut(s) 196
PleI GAGTC 1 cut(s) 418
PpsI GAGTC 1 cut(s) 418
PsiI TTATAA 1 cut(s) 383
PteI GCGCGC 1 cut(s) 306
PvuI CGATCG 1 cut(s) 196
RseI CAYNNNNRTG 1 cut(s) 450
SapI GCTCTTC 1 cut(s) 351
SaqAI TTAA 3 cut(s) 330, 363, 469
SatI GCNGC 5 cut(s) 20, 23, 150, 233, 258
Sau3AI GATC 3 cut(s) 74, 193, 301
SchI GAGTC 1 cut(s) 419
ScrFI CCNGG 1 cut(s) 66
Sfr274I CTCGAG 1 cut(s) 313
SlaI CTCGAG 1 cut(s) 313
SmiMI CAYNNNNRTG 1 cut(s) 450
SmlI CTYRAG 3 cut(s) 313, 329, 362
SmoI CTYRAG 3 cut(s) 313, 329, 362
Sse9I AATT 1 cut(s) 219
SsiI CCGC 4 cut(s) 20, 23, 50, 232
StyD4I CCNGG 1 cut(s) 64
StyI CCWWGG 1 cut(s) 141
TaaI ACNGT 1 cut(s) 59
TaqI TCGA 3 cut(s) 92, 192, 314
TasI AATT 1 cut(s) 219
TauI GCSGC 3 cut(s) 22, 25, 235
TfiI GAWTC 1 cut(s) 69
Tru1I TTAA 3 cut(s) 330, 363, 469
Tru9I TTAA 3 cut(s) 330, 363, 469
TseFI GTSAC 2 cut(s) 45, 133
TseI GCWGC 2 cut(s) 149, 257
Tsp45I GTSAC 2 cut(s) 45, 133
TspDTI ATGAA 2 cut(s) 238, 271
Vha464I CTTAAG 2 cut(s) 329, 362
XagI CCTNNNNNAGG 1 cut(s) 332
XcmI CCANNNNNNNNNTGG 1 cut(s) 247
XhoI CTCGAG 1 cut(s) 313
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.