RchiOBHm_Chr6g0259461

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0003043
Physical Location & Seq
Forward (+)
14722196 .. 14723498
1303 bp
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UTR
Exon/CDS
Intron
PRQ23265

Sequence Viewer

Length: 489 bp
ATGCAATTCCAACTCTGCAGCCCATTAGCCCAACCCAACAGTACACCCGAACCCGCTTTTCTCTCGTTCTTCTTCTTGGCGACTCTCTGTGCTCACTTATTCTTCAATCCCAGTTCCTCTCTGGTTTCTCAATCAAACGCCATGGATTCTCAGACCCAGAACACGTCGTTGCAGAGGCTTCAAAATGTGGAGAAGAGAATCGTGAAGGTTTTGGAGCTGGCCGGAAGTGTGATGGACGAGCTTGCAAACCCTATTGGTCCCAGGAGGGAGGCCATCAACAACCATGTCCGCGAGTTCATGCAATTGATCAAGGATATTCAAGTGGCATTGCGGGATGAAATCAAAAGTGCGTGTGATTACCGTCCATTTGAGAAGTGTGATTACAGTTCGAGAATAGCTAACGAGATCTGTTGCAAGAAACTGGAATATGTCATGTCACAGTTGGATGGAATGAAAGAAACAATAGATGATTATCATACTGCTGTTTGA

Protein Analysis

162

Amino Acids

18.41

Weight (kDa)

5.37

Isoelectric Point (pI)

46.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med11 PF10280 55 - 156 5.4e-20 Mediator complex protein
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)
AccII CGCG 1 cut(s) 291
AciI CCGC 3 cut(s) 54, 289, 331
AcoI YGGCCR 1 cut(s) 219
AfaI GTAC 1 cut(s) 43
AflIII ACRYGT 1 cut(s) 162
AgsI TTSAA 3 cut(s) 106, 182, 320
AjiI CACGTC 1 cut(s) 165
AjnI CCWGG 1 cut(s) 260
AluBI AGCT 3 cut(s) 217, 241, 398
AluI AGCT 3 cut(s) 217, 241, 398
Alw21I GWGCWC 1 cut(s) 94
AoxI GGCC 2 cut(s) 219, 270
ApeKI GCWGC 1 cut(s) 18
AspS9I GGNCC 1 cut(s) 257
AvaII GGWCC 1 cut(s) 257
BarI GAAGNNNNNNTAC 2 cut(s) 365, 397
Bbv12I GWGCWC 1 cut(s) 94
BbvI GCAGC 1 cut(s) 30
BccI CCATC 3 cut(s) 226, 281, 440
BciT130I CCWGG 1 cut(s) 262
BclI TGATCA 1 cut(s) 306
BfmI CTRYAG 1 cut(s) 16
BglII AGATCT 1 cut(s) 405
BisI GCNGC 1 cut(s) 19
BlsI GCNGC 1 cut(s) 20
Bme1390I CCNGG 1 cut(s) 262
Bme18I GGWCC 1 cut(s) 257
BmgBI CACGTC 1 cut(s) 165
BmgT120I GGNCC 1 cut(s) 257
BmiI GGNNCC 1 cut(s) 259
BmrFI CCNGG 1 cut(s) 262
BmrI ACTGGG 1 cut(s) 105
BmuI ACTGGG 1 cut(s) 105
BsaBI GATNNNNATC 1 cut(s) 471
BsaJI CCNNGG 2 cut(s) 141, 260
Bse1I ACTGG 2 cut(s) 111, 426
Bse3DI GCAATG 1 cut(s) 326
Bse8I GATNNNNATC 1 cut(s) 471
BseBI CCWGG 1 cut(s) 262
BseDI CCNNGG 2 cut(s) 141, 260
BseGI GGATG 2 cut(s) 340, 451
BseJI GATNNNNATC 1 cut(s) 471
BseMI GCAATG 1 cut(s) 326
BseMII CTCAG 1 cut(s) 164
BseNI ACTGG 2 cut(s) 111, 426
BseXI GCAGC 1 cut(s) 30
Bsh1236I CGCG 1 cut(s) 291
BshFI GGCC 2 cut(s) 221, 272
BsiHKAI GWGCWC 1 cut(s) 94
BsiSI CCGG 1 cut(s) 222
BslFI GGGAC 1 cut(s) 243
BsmFI GGGAC 1 cut(s) 243
BsnI GGCC 2 cut(s) 221, 272
Bsp1286I GDGCHC 1 cut(s) 94
Bsp143I GATC 2 cut(s) 306, 405
Bsp19I CCATGG 1 cut(s) 141
BspACI CCGC 3 cut(s) 54, 289, 331
BspANI GGCC 2 cut(s) 221, 272
BspCNI CTCAG 1 cut(s) 163
BspFNI CGCG 1 cut(s) 291
BspLI GGNNCC 1 cut(s) 259
BspMAI CTGCAG 1 cut(s) 20
BsrDI GCAATG 1 cut(s) 326
BsrI ACTGG 2 cut(s) 111, 426
BssECI CCNNGG 2 cut(s) 141, 260
BssMI GATC 2 cut(s) 306, 405
BssT1I CCWWGG 1 cut(s) 141
Bst2UI CCWGG 1 cut(s) 262
Bst4CI ACNGT 4 cut(s) 41, 362, 386, 441
Bst6I CTCTTC 1 cut(s) 188
BstC8I GCNNGC 2 cut(s) 219, 243
BstDEI CTNAG 1 cut(s) 150
BstDSI CCRYGG 1 cut(s) 141
BstF5I GGATG 2 cut(s) 340, 451
BstFNI CGCG 1 cut(s) 291
BstKTI GATC 2 cut(s) 309, 408
BstMBI GATC 2 cut(s) 306, 405
BstNI CCWGG 1 cut(s) 262
BstSCI CCNGG 1 cut(s) 260
BstSFI CTRYAG 1 cut(s) 16
BstUI CGCG 1 cut(s) 291
BstV1I GCAGC 1 cut(s) 30
BstX2I RGATCY 1 cut(s) 405
BstYI RGATCY 1 cut(s) 405
BsuRI GGCC 2 cut(s) 221, 272
BtgI CCRYGG 1 cut(s) 141
BtrI CACGTC 1 cut(s) 165
BtsCI GGATG 2 cut(s) 340, 451
Cac8I GCNNGC 2 cut(s) 219, 243
Cfr13I GGNCC 1 cut(s) 257
Csp6I GTAC 1 cut(s) 42
CviAII CATG 4 cut(s) 142, 284, 298, 433
CviJI RGCY 8 cut(s) 21, 29, 178, 217, 221, 241, 272, 398
CviKI_1 RGCY 8 cut(s) 21, 29, 178, 217, 221, 241, 272, 398
CviQI GTAC 1 cut(s) 42
DdeI CTNAG 1 cut(s) 150
DpnI GATC 2 cut(s) 308, 407
DpnII GATC 2 cut(s) 306, 405
EaeI YGGCCR 1 cut(s) 219
Eam1104I CTCTTC 1 cut(s) 188
EarI CTCTTC 1 cut(s) 188
Eco130I CCWWGG 1 cut(s) 141
Eco47I GGWCC 1 cut(s) 257
EcoRII CCWGG 1 cut(s) 260
EcoT14I CCWWGG 1 cut(s) 141
ErhI CCWWGG 1 cut(s) 141
FaeI CATG 4 cut(s) 145, 287, 301, 436
FaiI YATR 6 cut(s) 143, 285, 299, 429, 434, 477
FaqI GGGAC 1 cut(s) 243
FatI CATG 4 cut(s) 141, 283, 297, 432
FauI CCCGC 2 cut(s) 61, 324
FbaI TGATCA 1 cut(s) 306
Fnu4HI GCNGC 1 cut(s) 19
FokI GGATG 2 cut(s) 347, 458
Fsp4HI GCNGC 1 cut(s) 19
GluI GCNGC 1 cut(s) 19
HaeIII GGCC 2 cut(s) 221, 272
HapII CCGG 1 cut(s) 222
Hin1II CATG 4 cut(s) 145, 287, 301, 436
HinfI GANTC 3 cut(s) 82, 146, 198
HpaII CCGG 1 cut(s) 222
Hpy166II GTNNAC 1 cut(s) 44
Hpy188I TCNGA 1 cut(s) 153
Hpy188III TCNNGA 2 cut(s) 202, 390
Hpy8I GTNNAC 1 cut(s) 44
Hpy99I CGWCG 1 cut(s) 169
HpyAV CCTTC 1 cut(s) 199
HpyCH4III ACNGT 4 cut(s) 41, 362, 386, 441
HpyCH4IV ACGT 1 cut(s) 164
HpyCH4V TGCA 6 cut(s) 4, 18, 172, 245, 301, 414
HpyF3I CTNAG 1 cut(s) 150
HpySE526I ACGT 1 cut(s) 164
Hsp92II CATG 4 cut(s) 145, 287, 301, 436
Ksp22I TGATCA 1 cut(s) 306
Kzo9I GATC 2 cut(s) 306, 405
LmnI GCTCC 1 cut(s) 214
LpnPI CCDG 8 cut(s) 107, 124, 170, 203, 235, 247, 274, 407
Lsp1109I GCAGC 1 cut(s) 30
MaeII ACGT 1 cut(s) 164
MaeIII GTNAC 1 cut(s) 435
MalI GATC 2 cut(s) 308, 407
MboI GATC 2 cut(s) 306, 405
MboII GAAGA 4 cut(s) 61, 64, 94, 205
MfeI CAATTG 1 cut(s) 302
MflI RGATCY 1 cut(s) 405
MhlI GDGCHC 1 cut(s) 94
MluCI AATT 2 cut(s) 5, 302
MlyI GAGTC 1 cut(s) 76
MmeI TCCRAC 2 cut(s) 34, 423
MnlI CCTC 4 cut(s) 127, 168, 258, 262
MspI CCGG 1 cut(s) 222
MspR9I CCNGG 1 cut(s) 262
MunI CAATTG 1 cut(s) 302
MvaI CCWGG 1 cut(s) 262
MvnI CGCG 1 cut(s) 291
NcoI CCATGG 1 cut(s) 141
NdeII GATC 2 cut(s) 306, 405
NlaIII CATG 4 cut(s) 145, 287, 301, 436
NlaIV GGNNCC 1 cut(s) 259
NmuCI GTSAC 1 cut(s) 435
PfeI GAWTC 2 cut(s) 146, 198
PkrI GCNGC 1 cut(s) 20
PleI GAGTC 1 cut(s) 76
PpsI GAGTC 1 cut(s) 76
Psp6I CCWGG 1 cut(s) 260
PspGI CCWGG 1 cut(s) 260
PspN4I GGNNCC 1 cut(s) 259
PspPI GGNCC 1 cut(s) 257
PstI CTGCAG 1 cut(s) 20
PsuI RGATCY 1 cut(s) 405
RsaI GTAC 1 cut(s) 43
RsaNI GTAC 1 cut(s) 42
SatI GCNGC 1 cut(s) 19
Sau3AI GATC 2 cut(s) 306, 405
Sau96I GGNCC 1 cut(s) 257
SchI GAGTC 1 cut(s) 76
ScrFI CCNGG 1 cut(s) 262
SduI GDGCHC 1 cut(s) 94
SetI ASST 5 cut(s) 167, 210, 219, 243, 400
SfcI CTRYAG 1 cut(s) 16
SinI GGWCC 1 cut(s) 257
Sse9I AATT 2 cut(s) 5, 302
SsiI CCGC 3 cut(s) 54, 289, 331
StyD4I CCNGG 1 cut(s) 260
StyI CCWWGG 1 cut(s) 141
TaaI ACNGT 4 cut(s) 41, 362, 386, 441
TaiI ACGT 1 cut(s) 167
TaqI TCGA 1 cut(s) 389
TasI AATT 2 cut(s) 5, 302
TatI WGTACW 1 cut(s) 41
TfiI GAWTC 2 cut(s) 146, 198
TseFI GTSAC 1 cut(s) 435
TseI GCWGC 1 cut(s) 18
Tsp45I GTSAC 1 cut(s) 435
TspDTI ATGAA 3 cut(s) 286, 351, 467
VpaK11BI GGWCC 1 cut(s) 257
XcmI CCANNNNNNNNNTGG 1 cut(s) 118
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.