Rorug05G0485600

Component of the Mediator complex, a coactivator involved in regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0003788
Physical Location & Seq
Forward (+)
66948317 .. 66949102
786 bp
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UTR
Exon/CDS
Intron
Rorug05G0485600.1

Sequence Viewer

Length: 423 bp
ATGGATATATCTTTCGATTTGGCAGGAAGAGTGATGCCAGAAAGTTTGATTTACAACTTTGGGACCTTACTGCTTGATCTGCTTAGAGGCAGGCATACCCCAGCAAACCATGCTGTTGAACTAATACGCGATCAAAATTTCCTGATGCTGATGGACTCAAGCTTGGTGGGTCATTTCTCAAATGATGATGGAACTGAGCTGCTGCGGTACCAGGAAGGTTCCCGTATATCATCTCATGTAGTGTTTTTGCAGGTTCCATCACACGTTTTGATGGATATTCCACATGGGAATGTGCCTCCGAAACAGTTGTCACCTCTAGGTGAAGCTTGCTCGAAATTGGATCTTACTGCAATTCATGAAATATTGGAGATGACTGGATACAAAGCTGACGTTAAGAAGGAAGTTAGTTGCCCTCAATCCTAA

Protein Analysis

140

Amino Acids

15.57

Weight (kDa)

5.36

Isoelectric Point (pI)

46.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_BSK1_C PF25575 108 - 136 1.2e-06 Serine/threonine-protein kinase BSK1-like, TPR repeats
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)
Acc36I ACCTGC 1 cut(s) 241
Acc65I GGTACC 1 cut(s) 207
AccB1I GGYRCC 1 cut(s) 207
AccII CGCG 1 cut(s) 129
AciI CCGC 1 cut(s) 205
AclWI GGATC 1 cut(s) 348
AcsI RAATTY 1 cut(s) 136
AfaI GTAC 1 cut(s) 209
AflIII ACRYGT 1 cut(s) 262
AgsI TTSAA 1 cut(s) 119
AjnI CCWGG 1 cut(s) 210
AluBI AGCT 4 cut(s) 162, 199, 326, 386
AluI AGCT 4 cut(s) 162, 199, 326, 386
AlwI GGATC 1 cut(s) 348
ApeKI GCWGC 2 cut(s) 199, 202
ApoI RAATTY 1 cut(s) 136
ArsI GACNNNNNNTTYG 2 cut(s) 293, 325
Asp718I GGTACC 1 cut(s) 207
AspS9I GGNCC 1 cut(s) 63
AsuHPI GGTGA 2 cut(s) 303, 332
AvaII GGWCC 1 cut(s) 63
BanI GGYRCC 1 cut(s) 207
BbvI GCAGC 2 cut(s) 186, 189
BccI CCATC 4 cut(s) 145, 182, 265, 265
BciT130I CCWGG 1 cut(s) 212
BciVI GTATCC 1 cut(s) 371
BfaI CTAG 1 cut(s) 317
BfuAI ACCTGC 1 cut(s) 241
BfuI GTATCC 1 cut(s) 371
BisI GCNGC 2 cut(s) 200, 203
BlsI GCNGC 2 cut(s) 201, 204
Bme1390I CCNGG 1 cut(s) 212
Bme18I GGWCC 1 cut(s) 63
BmgT120I GGNCC 1 cut(s) 63
BmiI GGNNCC 4 cut(s) 64, 209, 220, 255
BmrFI CCNGG 1 cut(s) 212
BmsI GCATC 2 cut(s) 24, 135
BpuEI CTTGAG 1 cut(s) 142
Bse1I ACTGG 1 cut(s) 379
BseBI CCWGG 1 cut(s) 212
BseMII CTCAG 1 cut(s) 186
BseNI ACTGG 1 cut(s) 379
BseXI GCAGC 2 cut(s) 186, 189
BseYI CCCAGC 1 cut(s) 100
Bsh1236I CGCG 1 cut(s) 129
BshNI GGYRCC 1 cut(s) 207
BslFI GGGAC 1 cut(s) 76
BsmFI GGGAC 1 cut(s) 76
Bsp143I GATC 3 cut(s) 76, 130, 340
BspACI CCGC 1 cut(s) 205
BspCNI CTCAG 1 cut(s) 187
BspFNI CGCG 1 cut(s) 129
BspHI TCATGA 1 cut(s) 355
BspLI GGNNCC 4 cut(s) 64, 209, 220, 255
BspMI ACCTGC 1 cut(s) 241
BspPI GGATC 1 cut(s) 348
BspT107I GGYRCC 1 cut(s) 207
BsrI ACTGG 1 cut(s) 379
BssMI GATC 3 cut(s) 76, 130, 340
Bst2UI CCWGG 1 cut(s) 212
Bst4CI ACNGT 1 cut(s) 306
Bst6I CTCTTC 1 cut(s) 22
BstAPI GCANNNNNTGC 1 cut(s) 110
BstC8I GCNNGC 2 cut(s) 92, 328
BstDEI CTNAG 2 cut(s) 83, 195
BstFNI CGCG 1 cut(s) 129
BstKTI GATC 3 cut(s) 79, 133, 343
BstMBI GATC 3 cut(s) 76, 130, 340
BstMWI GCNNNNNNNGC 2 cut(s) 79, 110
BstNI CCWGG 1 cut(s) 212
BstSCI CCNGG 1 cut(s) 210
BstUI CGCG 1 cut(s) 129
BstV1I GCAGC 2 cut(s) 186, 189
BstX2I RGATCY 1 cut(s) 340
BstYI RGATCY 1 cut(s) 340
BsuI GTATCC 1 cut(s) 371
BveI ACCTGC 1 cut(s) 241
Cac8I GCNNGC 2 cut(s) 92, 328
CciI TCATGA 1 cut(s) 355
Cfr13I GGNCC 1 cut(s) 63
Csp6I GTAC 1 cut(s) 208
CspCI CAANNNNNGTGG 2 cut(s) 147, 182
CviAII CATG 4 cut(s) 110, 236, 284, 356
CviJI RGCY 4 cut(s) 162, 199, 326, 386
CviKI_1 RGCY 4 cut(s) 162, 199, 326, 386
CviQI GTAC 1 cut(s) 208
DdeI CTNAG 2 cut(s) 83, 195
DpnI GATC 3 cut(s) 78, 132, 342
DpnII GATC 3 cut(s) 76, 130, 340
Eam1104I CTCTTC 1 cut(s) 22
EarI CTCTTC 1 cut(s) 22
Eco47I GGWCC 1 cut(s) 63
EcoO109I RGGNCCY 1 cut(s) 63
EcoRII CCWGG 1 cut(s) 210
FaeI CATG 4 cut(s) 113, 239, 287, 359
FaiI YATR 7 cut(s) 8, 96, 111, 227, 237, 285, 357
FaqI GGGAC 1 cut(s) 76
FatI CATG 4 cut(s) 109, 235, 283, 355
Fnu4HI GCNGC 2 cut(s) 200, 203
Fsp4HI GCNGC 2 cut(s) 200, 203
FspBI CTAG 1 cut(s) 317
GluI GCNGC 2 cut(s) 200, 203
GsaI CCCAGC 1 cut(s) 104
Hin1II CATG 4 cut(s) 113, 239, 287, 359
HindIII AAGCTT 2 cut(s) 160, 324
HinfI GANTC 1 cut(s) 155
HphI GGTGA 2 cut(s) 303, 332
Hpy188I TCNGA 1 cut(s) 300
Hpy188III TCNNGA 2 cut(s) 142, 356
HpyAV CCTTC 2 cut(s) 209, 391
HpyCH4III ACNGT 1 cut(s) 306
HpyCH4IV ACGT 2 cut(s) 264, 390
HpyCH4V TGCA 2 cut(s) 250, 350
HpyF10VI GCNNNNNNNGC 2 cut(s) 79, 110
HpyF3I CTNAG 2 cut(s) 83, 195
HpySE526I ACGT 2 cut(s) 264, 390
Hsp92II CATG 4 cut(s) 113, 239, 287, 359
KpnI GGTACC 1 cut(s) 211
Kzo9I GATC 3 cut(s) 76, 130, 340
LpnPI CCDG 9 cut(s) 9, 51, 76, 114, 155, 197, 224, 236, 360
Lsp1109I GCAGC 2 cut(s) 186, 189
LweI GCATC 2 cut(s) 24, 135
MaeI CTAG 1 cut(s) 317
MaeII ACGT 2 cut(s) 264, 390
MaeIII GTNAC 1 cut(s) 309
MalI GATC 3 cut(s) 78, 132, 342
MboI GATC 3 cut(s) 76, 130, 340
MboII GAAGA 1 cut(s) 39
MflI RGATCY 1 cut(s) 340
MluCI AATT 3 cut(s) 136, 335, 351
MlyI GAGTC 1 cut(s) 149
MnlI CCTC 4 cut(s) 80, 306, 324, 423
MseI TTAA 1 cut(s) 393
MslI CAYNNNNRTG 1 cut(s) 288
MspR9I CCNGG 1 cut(s) 212
MvaI CCWGG 1 cut(s) 212
MvnI CGCG 1 cut(s) 129
MwoI GCNNNNNNNGC 2 cut(s) 79, 110
NdeII GATC 3 cut(s) 76, 130, 340
NlaIII CATG 4 cut(s) 113, 239, 287, 359
NlaIV GGNNCC 4 cut(s) 64, 209, 220, 255
NmuCI GTSAC 1 cut(s) 309
PagI TCATGA 1 cut(s) 355
PkrI GCNGC 2 cut(s) 201, 204
PleI GAGTC 1 cut(s) 149
PpsI GAGTC 1 cut(s) 149
PpuMI RGGWCCY 1 cut(s) 63
Psp5II RGGWCCY 1 cut(s) 63
Psp6I CCWGG 1 cut(s) 210
PspFI CCCAGC 1 cut(s) 100
PspGI CCWGG 1 cut(s) 210
PspN4I GGNNCC 4 cut(s) 64, 209, 220, 255
PspPI GGNCC 1 cut(s) 63
PspPPI RGGWCCY 1 cut(s) 63
PsuI RGATCY 1 cut(s) 340
RsaI GTAC 1 cut(s) 209
RsaNI GTAC 1 cut(s) 208
RseI CAYNNNNRTG 1 cut(s) 288
SaqAI TTAA 1 cut(s) 393
SatI GCNGC 2 cut(s) 200, 203
Sau3AI GATC 3 cut(s) 76, 130, 340
Sau96I GGNCC 1 cut(s) 63
SchI GAGTC 1 cut(s) 149
ScrFI CCNGG 1 cut(s) 212
SfaNI GCATC 2 cut(s) 24, 135
SinI GGWCC 1 cut(s) 63
SmiMI CAYNNNNRTG 1 cut(s) 288
SmlI CTYRAG 1 cut(s) 157
SmoI CTYRAG 1 cut(s) 157
Sse9I AATT 3 cut(s) 136, 335, 351
SsiI CCGC 1 cut(s) 205
SspI AATATT 1 cut(s) 363
SspMI CTAG 1 cut(s) 317
StyD4I CCNGG 1 cut(s) 210
TaaI ACNGT 1 cut(s) 306
TaiI ACGT 2 cut(s) 267, 393
TaqI TCGA 2 cut(s) 15, 332
TasI AATT 3 cut(s) 136, 335, 351
Tru1I TTAA 1 cut(s) 393
Tru9I TTAA 1 cut(s) 393
TseFI GTSAC 1 cut(s) 309
TseI GCWGC 2 cut(s) 199, 202
Tsp45I GTSAC 1 cut(s) 309
TspDTI ATGAA 2 cut(s) 344, 372
VpaK11BI GGWCC 1 cut(s) 63
XapI RAATTY 1 cut(s) 136
XspI CTAG 1 cut(s) 317
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.