Rorug06G0226000

DNA-directed RNA polymerase II

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0004175
Physical Location & Seq
Forward (+)
36284813 .. 36287244
2432 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0226000.1

Sequence Viewer

Length: 870 bp
ATGCTTGACCCTCACACAAACGACCACCCTTTTCTTTTTAACCCAGAAAACACGAGCGAAACTACTTACGGTACTTGGCAACCTATCAACTACTCTTCCCGGGCTCAGAAAACAGCTCAGAACTACAAGAGCTGGAAGAGCATGGGCGCTCTTCGTTTTAATGCCGCCGAGGAGGAGTCCCCCTCCGGCGTTTGCTCCCCGCCTCTGTGGAAAACCACCACCAGCCCCCCGAAAAGCCCGAACCGGCTTGTGAACAATTACCGGAGTCTTTCGCCGGCTTCTCGGACTCAGGCCATTGCCAGAGGACAGAGAGAGCTGATGGAAATGGTGCGCAACATGCCCGAGTCGTGTTACGAGCTTTCGCTCAAGGATCTTGTGGAGAGGCCAAGAATGGTGGAGGTTGAGGTTGATGAAGATGATGCGAGCACTGAAGCTTTGGTGAGAAGGGAAGATGGGAAGGTGAAGAAGAATAATGATAGGAAGAAGCCAATGGTGGTGAGGAGTGGGAGTTTTGACAGTGGGGGGTTTCTGTTGAAGATGGTGTTTCCAATTTCGTTGGGGTCCAATAAGAAGAATAAGACGGTGATGATCAATAAGAATAAGAAGAACAAGAGTGATTCTGTGGAGGGAGATAGTACTACTGCAAAGGTTTCTCCCAGGCCTAGTGTGGATAAGGATTGGTGGAAGAAAAGAGTTTCTTCTTCAGGAGGATCGGGGAGAAGTGAAAGCGGTGTTTCGAGTATTATTAGTGGAAGCATCAAAAGTAGTAGTGGTAGCAGCACCAGCAGTTGTAGCAGCAGAAGCAGCAGCAGGCGCAAGACTGGTGGCTGCTGGTCGTTCATCCTGCTCAAGAAGAAGAGGCAGGATTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000291 GO:0000428 GO:0000932 GO:0000956 GO:0003674 GO:0003676 GO:0003677 GO:0003697 GO:0003723 GO:0003727 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005737 GO:0006139 GO:0006351 GO:0006352 GO:0006366 GO:0006367 GO:0006401 GO:0006402 GO:0006417 GO:0006446 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009892 GO:0009893 GO:0009894 GO:0009896 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010629 GO:0016070 GO:0016071 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0019439 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031329 GO:0031331 GO:0031369 GO:0031974 GO:0031981 GO:0032268 GO:0032270 GO:0032774 GO:0032991 GO:0034248 GO:0034250 GO:0034641 GO:0034645 GO:0034654 GO:0034655 GO:0035770 GO:0036464 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044248 GO:0044249 GO:0044260 GO:0044265 GO:0044270 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045727 GO:0045935 GO:0045948 GO:0046483 GO:0046700 GO:0048518 GO:0048519 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0051252 GO:0051254 GO:0055029 GO:0060211 GO:0060213 GO:0060255 GO:0061013 GO:0061014 GO:0061695 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0097659 GO:1900151 GO:1900153 GO:1901360 GO:1901361 GO:1901362 GO:1901363 GO:1901575 GO:1901576 GO:1902494 GO:1903311 GO:1903313 GO:1990234 GO:1990904 GO:2000112
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169
Pfam Domains
Protein Families
S1 SHS2_Rpb7-N

Protein Analysis

289

Amino Acids

32.08

Weight (kDa)

9.83

Isoelectric Point (pI)

65.12

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 332
AciI CCGC 3 cut(s) 165, 200, 729
AclWI GGATC 2 cut(s) 378, 718
AcuI CTGAAG 2 cut(s) 450, 687
AfaI GTAC 2 cut(s) 73, 637
AgsI TTSAA 1 cut(s) 535
AjnI CCWGG 1 cut(s) 656
AluBI AGCT 5 cut(s) 116, 132, 316, 358, 434
AluI AGCT 5 cut(s) 116, 132, 316, 358, 434
Alw21I GWGCWC 1 cut(s) 428
AlwI GGATC 2 cut(s) 378, 718
Ama87I CYCGRG 2 cut(s) 99, 341
AoxI GGCC 3 cut(s) 291, 383, 659
ApeKI GCWGC 5 cut(s) 777, 795, 804, 807, 828
AspLEI GCGC 3 cut(s) 149, 333, 816
AspS9I GGNCC 1 cut(s) 561
AsuC2I CCSGG 2 cut(s) 100, 101
AsuHPI GGTGA 4 cut(s) 451, 472, 508, 595
AvaI CYCGRG 2 cut(s) 99, 341
AvaII GGWCC 1 cut(s) 561
BanII GRGCYC 1 cut(s) 106
BauI CACGAG 1 cut(s) 52
Bbv12I GWGCWC 1 cut(s) 428
BbvI GCAGC 5 cut(s) 789, 807, 815, 816, 819
BccI CCATC 3 cut(s) 313, 446, 532
BciT130I CCWGG 1 cut(s) 658
BclI TGATCA 1 cut(s) 588
BcnI CCSGG 2 cut(s) 100, 101
BfaI CTAG 1 cut(s) 663
BfoI RGCGCY 1 cut(s) 150
BisI GCNGC 6 cut(s) 165, 778, 796, 805, 808, 829
BlsI GCNGC 6 cut(s) 166, 779, 797, 806, 809, 830
BmcAI AGTACT 1 cut(s) 637
Bme1390I CCNGG 3 cut(s) 100, 101, 658
Bme18I GGWCC 1 cut(s) 561
BmeT110I CYCGRG 2 cut(s) 99, 341
BmgT120I GGNCC 1 cut(s) 561
BmiI GGNNCC 1 cut(s) 562
BmrFI CCNGG 3 cut(s) 100, 101, 658
BmsI GCATC 2 cut(s) 409, 765
BplI GAGNNNNNCTC 2 cut(s) 167, 199
BpuEI CTTGAG 2 cut(s) 350, 833
BpuMI CCSGG 2 cut(s) 100, 101
BsaJI CCNNGG 3 cut(s) 99, 168, 656
BsaWI WCCGGW 1 cut(s) 261
BsaXI ACNNNNNCTCC 2 cut(s) 493, 523
Bse118I RCCGGY 2 cut(s) 243, 274
Bse1I ACTGG 1 cut(s) 826
Bse3DI GCAATG 1 cut(s) 294
BseBI CCWGG 1 cut(s) 658
BseDI CCNNGG 3 cut(s) 99, 168, 656
BseGI GGATG 1 cut(s) 840
BseMI GCAATG 1 cut(s) 294
BseMII CTCAG 3 cut(s) 119, 131, 302
BseNI ACTGG 1 cut(s) 826
BseRI GAGGAG 3 cut(s) 185, 188, 514
BseXI GCAGC 5 cut(s) 789, 807, 815, 816, 819
BshFI GGCC 3 cut(s) 293, 385, 661
BsiHKAI GWGCWC 1 cut(s) 428
BsiHKCI CYCGRG 2 cut(s) 99, 341
BsiSI CCGG 5 cut(s) 100, 186, 244, 262, 275
BslFI GGGAC 1 cut(s) 163
BsmFI GGGAC 1 cut(s) 163
BsnI GGCC 3 cut(s) 293, 385, 661
BsoBI CYCGRG 2 cut(s) 99, 341
Bsp1286I GDGCHC 2 cut(s) 106, 428
Bsp143I GATC 3 cut(s) 370, 588, 710
BspACI CCGC 3 cut(s) 165, 200, 729
BspANI GGCC 3 cut(s) 293, 385, 661
BspCNI CTCAG 3 cut(s) 118, 130, 301
BspLI GGNNCC 1 cut(s) 562
BspPI GGATC 2 cut(s) 378, 718
BspQI GCTCTTC 2 cut(s) 131, 156
BsrDI GCAATG 1 cut(s) 294
BsrFI RCCGGY 2 cut(s) 243, 274
BsrI ACTGG 1 cut(s) 826
BssAI RCCGGY 2 cut(s) 243, 274
BssECI CCNNGG 3 cut(s) 99, 168, 656
BssMI GATC 3 cut(s) 370, 588, 710
BssSI CACGAG 1 cut(s) 52
Bst2BI CACGAG 1 cut(s) 52
Bst2UI CCWGG 1 cut(s) 658
Bst4CI ACNGT 3 cut(s) 71, 518, 583
Bst6I CTCTTC 4 cut(s) 100, 131, 156, 851
BstC8I GCNNGC 3 cut(s) 276, 424, 812
BstDEI CTNAG 3 cut(s) 105, 117, 288
BstF5I GGATG 1 cut(s) 840
BstH2I RGCGCY 1 cut(s) 150
BstHHI GCGC 3 cut(s) 149, 333, 816
BstKTI GATC 3 cut(s) 373, 591, 713
BstMBI GATC 3 cut(s) 370, 588, 710
BstMWI GCNNNNNNNGC 7 cut(s) 138, 337, 783, 792, 801, 804, 813
BstNI CCWGG 1 cut(s) 658
BstNSI RCATGY 1 cut(s) 340
BstSCI CCNGG 3 cut(s) 98, 99, 656
BstV1I GCAGC 5 cut(s) 789, 807, 815, 816, 819
BstX2I RGATCY 1 cut(s) 370
BstYI RGATCY 1 cut(s) 370
BsuRI GGCC 3 cut(s) 293, 385, 661
BtsCI GGATG 1 cut(s) 840
BtsIMutI CAGTG 2 cut(s) 426, 523
Cac8I GCNNGC 3 cut(s) 276, 424, 812
CfoI GCGC 3 cut(s) 149, 333, 816
Cfr10I RCCGGY 2 cut(s) 243, 274
Cfr13I GGNCC 1 cut(s) 561
Cfr9I CCCGGG 1 cut(s) 99
Csp6I GTAC 2 cut(s) 72, 636
CspCI CAANNNNNGTGG 4 cut(s) 375, 410, 805, 840
CviAII CATG 2 cut(s) 142, 337
CviQI GTAC 2 cut(s) 72, 636
DdeI CTNAG 3 cut(s) 105, 117, 288
DpnI GATC 3 cut(s) 372, 590, 712
DpnII GATC 3 cut(s) 370, 588, 710
Eam1104I CTCTTC 4 cut(s) 100, 131, 156, 851
EarI CTCTTC 4 cut(s) 100, 131, 156, 851
Eco147I AGGCCT 1 cut(s) 661
Eco24I GRGCYC 1 cut(s) 106
Eco47I GGWCC 1 cut(s) 561
Eco57I CTGAAG 2 cut(s) 450, 687
Eco88I CYCGRG 2 cut(s) 99, 341
EcoRII CCWGG 1 cut(s) 656
EcoT38I GRGCYC 1 cut(s) 106
FaeI CATG 2 cut(s) 145, 340
FaiI YATR 2 cut(s) 143, 338
FalI AAGNNNNNCTT 2 cut(s) 682, 714
FaqI GGGAC 1 cut(s) 163
FatI CATG 2 cut(s) 141, 336
FauI CCCGC 1 cut(s) 207
FbaI TGATCA 1 cut(s) 588
Fnu4HI GCNGC 6 cut(s) 165, 778, 796, 805, 808, 829
FokI GGATG 1 cut(s) 827
FriOI GRGCYC 1 cut(s) 106
Fsp4HI GCNGC 6 cut(s) 165, 778, 796, 805, 808, 829
FspBI CTAG 1 cut(s) 663
FspI TGCGCA 1 cut(s) 332
GlaI GCGC 3 cut(s) 148, 332, 815
GluI GCNGC 6 cut(s) 165, 778, 796, 805, 808, 829
HaeII RGCGCY 1 cut(s) 150
HaeIII GGCC 3 cut(s) 293, 385, 661
HapII CCGG 5 cut(s) 100, 186, 244, 262, 275
HhaI GCGC 3 cut(s) 149, 333, 816
Hin1II CATG 2 cut(s) 145, 340
Hin6I GCGC 3 cut(s) 147, 331, 814
HinP1I GCGC 3 cut(s) 147, 331, 814
HindIII AAGCTT 1 cut(s) 432
HinfI GANTC 5 cut(s) 176, 265, 286, 344, 617
HpaII CCGG 5 cut(s) 100, 186, 244, 262, 275
HphI GGTGA 4 cut(s) 451, 472, 508, 595
Hpy166II GTNNAC 1 cut(s) 253
Hpy188I TCNGA 3 cut(s) 108, 120, 285
Hpy188III TCNNGA 2 cut(s) 705, 850
Hpy8I GTNNAC 1 cut(s) 253
HpyAV CCTTC 2 cut(s) 438, 451
HpyCH4III ACNGT 3 cut(s) 71, 518, 583
HpyCH4V TGCA 1 cut(s) 644
HpyF10VI GCNNNNNNNGC 7 cut(s) 138, 337, 783, 792, 801, 804, 813
HpyF3I CTNAG 3 cut(s) 105, 117, 288
Hsp92II CATG 2 cut(s) 145, 340
HspAI GCGC 3 cut(s) 147, 331, 814
KroI GCCGGC 1 cut(s) 274
KroNI GCCGGC 1 cut(s) 276
Ksp22I TGATCA 1 cut(s) 588
Kzo9I GATC 3 cut(s) 370, 588, 710
LguI GCTCTTC 2 cut(s) 131, 156
LmnI GCTCC 1 cut(s) 200
Lsp1109I GCAGC 5 cut(s) 789, 807, 815, 816, 819
LweI GCATC 2 cut(s) 409, 765
MaeI CTAG 1 cut(s) 663
MaeIII GTNAC 1 cut(s) 350
MalI GATC 3 cut(s) 372, 590, 712
MboI GATC 3 cut(s) 370, 588, 710
MflI RGATCY 1 cut(s) 370
MhlI GDGCHC 2 cut(s) 106, 428
MluCI AATT 2 cut(s) 256, 549
MlyI GAGTC 4 cut(s) 185, 274, 280, 353
MroNI GCCGGC 1 cut(s) 274
MseI TTAA 2 cut(s) 39, 159
MspI CCGG 5 cut(s) 100, 186, 244, 262, 275
MspR9I CCNGG 3 cut(s) 100, 101, 658
MvaI CCWGG 1 cut(s) 658
MwoI GCNNNNNNNGC 7 cut(s) 138, 337, 783, 792, 801, 804, 813
NaeI GCCGGC 1 cut(s) 276
NciI CCSGG 2 cut(s) 100, 101
NdeII GATC 3 cut(s) 370, 588, 710
NgoMIV GCCGGC 1 cut(s) 274
NlaIII CATG 2 cut(s) 145, 340
NlaIV GGNNCC 1 cut(s) 562
NmeAIII GCCGAG 1 cut(s) 193
NsbI TGCGCA 1 cut(s) 332
NspI RCATGY 1 cut(s) 340
PceI AGGCCT 1 cut(s) 661
PciSI GCTCTTC 2 cut(s) 131, 156
PdiI GCCGGC 1 cut(s) 276
PfeI GAWTC 1 cut(s) 617
PkrI GCNGC 6 cut(s) 166, 779, 797, 806, 809, 830
PleI GAGTC 4 cut(s) 184, 273, 280, 352
PpsI GAGTC 4 cut(s) 184, 273, 280, 352
Psp6I CCWGG 1 cut(s) 656
PspGI CCWGG 1 cut(s) 656
PspN4I GGNNCC 1 cut(s) 562
PspPI GGNCC 1 cut(s) 561
PsuI RGATCY 1 cut(s) 370
RsaI GTAC 2 cut(s) 73, 637
RsaNI GTAC 2 cut(s) 72, 636
SapI GCTCTTC 2 cut(s) 131, 156
SaqAI TTAA 2 cut(s) 39, 159
SatI GCNGC 6 cut(s) 165, 778, 796, 805, 808, 829
Sau3AI GATC 3 cut(s) 370, 588, 710
Sau96I GGNCC 1 cut(s) 561
ScaI AGTACT 1 cut(s) 637
SchI GAGTC 4 cut(s) 185, 274, 280, 353
ScrFI CCNGG 3 cut(s) 100, 101, 658
SduI GDGCHC 2 cut(s) 106, 428
SfaNI GCATC 2 cut(s) 409, 765
SinI GGWCC 1 cut(s) 561
SmaI CCCGGG 1 cut(s) 101
SmlI CTYRAG 2 cut(s) 365, 848
SmoI CTYRAG 2 cut(s) 365, 848
Sse9I AATT 2 cut(s) 256, 549
SseBI AGGCCT 1 cut(s) 661
SsiI CCGC 3 cut(s) 165, 200, 729
SspMI CTAG 1 cut(s) 663
StuI AGGCCT 1 cut(s) 661
StyD4I CCNGG 3 cut(s) 98, 99, 656
TaaI ACNGT 3 cut(s) 71, 518, 583
TaqI TCGA 1 cut(s) 737
TasI AATT 2 cut(s) 256, 549
TatI WGTACW 1 cut(s) 635
TauI GCSGC 1 cut(s) 167
TfiI GAWTC 1 cut(s) 617
Tru1I TTAA 2 cut(s) 39, 159
Tru9I TTAA 2 cut(s) 39, 159
TscAI CASTG 2 cut(s) 433, 523
TseI GCWGC 5 cut(s) 777, 795, 804, 807, 828
TspDTI ATGAA 2 cut(s) 426, 829
TspMI CCCGGG 1 cut(s) 99
TspRI CASTG 2 cut(s) 433, 523
VpaK11BI GGWCC 1 cut(s) 561
XceI RCATGY 1 cut(s) 340
XcmI CCANNNNNNNNNTGG 1 cut(s) 664
XmaI CCCGGG 1 cut(s) 99
XspI CTAG 1 cut(s) 663
ZrmI AGTACT 1 cut(s) 637
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.