Rorug04G0117000

gene silencing by RNA

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
Physical Location & Seq
Forward (+)
18468601 .. 18470681
2081 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0117000.1

Sequence Viewer

Length: 1038 bp
ATGGTGACGGTGGGATTGGGCACACCTAAAAAACAACTTTCGATCGTATTTGACACCGGAAGCGACCTCACTTGGACTCAATGCCAACCTTGTTCTGAATTTTGCTACCCACAAGAGGAGCCCATTTTCGATCCCTCGGCCTCTTCCTCATATACCAACGTTTCCTGTAACAGCACAGAGTGCGTCCAACTCAGGACATCTACGGAATCTGACAAATGCTTAGGAGACACATGCCCATATTCCGTGACGTACGGAGACTCATCTTACACCACTGGATATTTCGCCACAGACAAGCTGACCTTAACTCCTAACGACGTGTTCGATGGGTTCTTCTTCGGCTGCGGCCAAGAAAACGTAGGTTTCCACGACGGCTCGGCCGGTTTACTTGGTCTCTCCCTCAACAAGTTCTCCATCGTCGAACAAACCGCACAAAAGTACAGCCGCTTCTTCTCCTACTGTCTGCCACCAACCGCAAGCTCCACCGGTTACCTCAGCTTCGGCGCACCCAGTAGAGCTTCCAATGCTGCCGTAAAATACACGCGAATCACTAACTTATCCTCGAGCTTAGAGCTTTACTGCCTAGACCTGGTTGGCATCAATGTGAATGGACAAAAGCTCTCAATTCCTGGTTCGGTGTTTTCGTCGCCGGGGACGATCATCGACTCCGGGACCGTCATATCGCGGCTGCCGCCCACCGCGTATACAGCTTTGCGGGACGCATTTCGGGCAGCGATGTTAAGCTATCCGTTAGTTCCGGGGCCGGAAAAGATCCTAGATACATGCTACGACCTTAGTGGCTATCCAACGGTGACGTATCCGAAAATAGAATTTGTGTTCGGCGACGGGGTTACGTTGGAATTGGACGCAACCGGCATTGTCTACCTTTTCGACGGTTCGAATAAGCAGGTTTGCTTGGCTTTTGCTGGGAATGATGATGCTAACGACATTGCGATTTTCGGGAATACTCAGCAGAAGAATATGGAGGTGTTGTATGACGTTGCCGGAGGGAGAGTTGGATTTGCTCCCGGCGGTTGCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.

Protein Analysis

345

Amino Acids

36.95

Weight (kDa)

4.41

Isoelectric Point (pI)

31.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TAXi_N PF14543 2 - 167 2e-51 Xylanase inhibitor N-terminal
Asp PF00026 3 - 342 1.3e-23 Eukaryotic aspartyl protease
TAXi_C PF14541 192 - 341 3.9e-27 Xylanase inhibitor C-terminal
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 895
AccI GTMKAC 2 cut(s) 701, 879
AccII CGCG 3 cut(s) 541, 682, 698
AciI CCGC 9 cut(s) 342, 426, 442, 471, 682, 689, 696, 712, 1029
AclI AACGTT 1 cut(s) 159
AclWI GGATC 2 cut(s) 125, 763
AcoI YGGCCR 2 cut(s) 343, 375
AcsI RAATTY 2 cut(s) 98, 827
AdeI CACNNNGTG 1 cut(s) 180
AfaI GTAC 2 cut(s) 251, 437
AfiI CCNNNNNNNGG 2 cut(s) 115, 586
AflIII ACRYGT 1 cut(s) 315
AgeI ACCGGT 1 cut(s) 482
AjiI CACGTC 1 cut(s) 316
AjnI CCWGG 2 cut(s) 585, 625
AluBI AGCT 9 cut(s) 295, 477, 495, 515, 564, 571, 616, 707, 741
AluI AGCT 9 cut(s) 295, 477, 495, 515, 564, 571, 616, 707, 741
Alw26I GTCTC 3 cut(s) 219, 249, 395
AlwI GGATC 2 cut(s) 125, 763
Ama87I CYCGRG 1 cut(s) 559
AoxI GGCC 4 cut(s) 138, 343, 375, 758
ApeKI GCWGC 4 cut(s) 339, 524, 685, 728
ApoI RAATTY 2 cut(s) 98, 827
AsiGI ACCGGT 1 cut(s) 482
AspLEI GCGC 1 cut(s) 503
AspS9I GGNCC 2 cut(s) 669, 758
AsuC2I CCSGG 4 cut(s) 648, 667, 756, 1026
AsuHPI GGTGA 2 cut(s) 16, 820
AsuII TTCGAA 1 cut(s) 896
AvaI CYCGRG 1 cut(s) 559
AvaII GGWCC 1 cut(s) 669
BaeGI GKGCMC 1 cut(s) 23
BanII GRGCYC 1 cut(s) 123
BarI GAAGNNNNNNTAC 2 cut(s) 428, 460
BbvCI CCTCAGC 1 cut(s) 491
BbvI GCAGC 4 cut(s) 326, 511, 672, 740
BccI CCATC 2 cut(s) 317, 419
BceAI ACGGC 2 cut(s) 385, 512
BciT130I CCWGG 2 cut(s) 587, 627
BciVI GTATCC 1 cut(s) 825
BcnI CCSGG 4 cut(s) 648, 667, 756, 1026
BcoDI GTCTC 3 cut(s) 219, 249, 395
BfaI CTAG 2 cut(s) 581, 773
BfuAI ACCTGC 1 cut(s) 895
BfuI GTATCC 1 cut(s) 825
BisI GCNGC 8 cut(s) 340, 343, 442, 525, 683, 686, 689, 729
BlsI GCNGC 8 cut(s) 341, 344, 443, 526, 684, 687, 690, 730
Bme1390I CCNGG 6 cut(s) 587, 627, 648, 667, 756, 1026
Bme18I GGWCC 1 cut(s) 669
BmeT110I CYCGRG 1 cut(s) 559
BmgBI CACGTC 1 cut(s) 316
BmgT120I GGNCC 2 cut(s) 669, 758
BmiI GGNNCC 3 cut(s) 120, 670, 759
BmrFI CCNGG 6 cut(s) 587, 627, 648, 667, 756, 1026
BmrI ACTGGG 1 cut(s) 501
BmsI GCATC 2 cut(s) 603, 925
BmuI ACTGGG 1 cut(s) 501
Bpu10I CCTNAGC 2 cut(s) 220, 491
Bpu14I TTCGAA 1 cut(s) 896
BpuMI CCSGG 4 cut(s) 648, 667, 756, 1026
BsaI GGTCTC 1 cut(s) 395
BsaJI CCNNGG 3 cut(s) 135, 647, 755
BsaWI WCCGGW 2 cut(s) 56, 482
BsaXI ACNNNNNCTCC 8 cut(s) 289, 319, 392, 422, 974, 996, 1004, 1026
Bsc4I CCNNNNNNNGG 2 cut(s) 115, 586
Bse118I RCCGGY 3 cut(s) 377, 482, 869
Bse1I ACTGG 2 cut(s) 277, 507
Bse3DI GCAATG 1 cut(s) 945
BseBI CCWGG 2 cut(s) 587, 627
BseDI CCNNGG 3 cut(s) 135, 647, 755
BseLI CCNNNNNNNGG 2 cut(s) 115, 586
BseMI GCAATG 1 cut(s) 945
BseMII CTCAG 3 cut(s) 205, 505, 980
BseNI ACTGG 2 cut(s) 277, 507
BseRI GAGGAG 1 cut(s) 131
BseSI GKGCMC 1 cut(s) 23
BseX3I CGGCCG 1 cut(s) 375
BseXI GCAGC 4 cut(s) 326, 511, 672, 740
BseYI CCCAGC 1 cut(s) 923
Bsh1236I CGCG 3 cut(s) 541, 682, 698
Bsh1285I CGRYCG 2 cut(s) 45, 378
BshFI GGCC 4 cut(s) 140, 345, 377, 760
BshTI ACCGGT 1 cut(s) 482
BsiEI CGRYCG 2 cut(s) 45, 378
BsiHKCI CYCGRG 1 cut(s) 559
BsiWI CGTACG 1 cut(s) 249
BslFI GGGAC 3 cut(s) 664, 682, 728
BslI CCNNNNNNNGG 2 cut(s) 115, 586
BsmAI GTCTC 3 cut(s) 219, 249, 395
BsmFI GGGAC 3 cut(s) 664, 682, 728
BsnI GGCC 4 cut(s) 140, 345, 377, 760
Bso31I GGTCTC 1 cut(s) 395
BsoBI CYCGRG 1 cut(s) 559
Bsp119I TTCGAA 1 cut(s) 896
Bsp1286I GDGCHC 2 cut(s) 23, 123
Bsp143I GATC 4 cut(s) 42, 130, 654, 768
BspACI CCGC 9 cut(s) 342, 426, 442, 471, 682, 689, 696, 712, 1029
BspANI GGCC 4 cut(s) 140, 345, 377, 760
BspCNI CTCAG 3 cut(s) 204, 504, 979
BspFNI CGCG 3 cut(s) 541, 682, 698
BspLI GGNNCC 3 cut(s) 120, 670, 759
BspMI ACCTGC 1 cut(s) 895
BspPI GGATC 2 cut(s) 125, 763
BspT104I TTCGAA 1 cut(s) 896
BspTNI GGTCTC 1 cut(s) 395
BsrDI GCAATG 1 cut(s) 945
BsrFI RCCGGY 3 cut(s) 377, 482, 869
BsrI ACTGG 2 cut(s) 277, 507
BssAI RCCGGY 3 cut(s) 377, 482, 869
BssECI CCNNGG 3 cut(s) 135, 647, 755
BssMI GATC 4 cut(s) 42, 130, 654, 768
BssNAI GTATAC 1 cut(s) 702
Bst1107I GTATAC 1 cut(s) 702
Bst2UI CCWGG 2 cut(s) 587, 627
Bst4CI ACNGT 5 cut(s) 10, 458, 673, 808, 893
Bst6I CTCTTC 1 cut(s) 148
BstAPI GCANNNNNTGC 1 cut(s) 180
BstBI TTCGAA 1 cut(s) 896
BstC8I GCNNGC 1 cut(s) 475
BstDEI CTNAG 6 cut(s) 191, 220, 491, 565, 791, 966
BstEII GGTNACC 1 cut(s) 485
BstFNI CGCG 3 cut(s) 541, 682, 698
BstHHI GCGC 1 cut(s) 503
BstKTI GATC 4 cut(s) 45, 133, 657, 771
BstMAI GTCTC 3 cut(s) 219, 249, 395
BstMBI GATC 4 cut(s) 42, 130, 654, 768
BstMCI CGRYCG 2 cut(s) 45, 378
BstMWI GCNNNNNNNGC 5 cut(s) 180, 521, 688, 704, 725
BstNI CCWGG 2 cut(s) 587, 627
BstNSI RCATGY 2 cut(s) 234, 783
BstPI GGTNACC 1 cut(s) 485
BstSCI CCNGG 6 cut(s) 585, 625, 646, 665, 754, 1024
BstSLI GKGCMC 1 cut(s) 23
BstUI CGCG 3 cut(s) 541, 682, 698
BstV1I GCAGC 4 cut(s) 326, 511, 672, 740
BstX2I RGATCY 1 cut(s) 768
BstYI RGATCY 1 cut(s) 768
BstZ17I GTATAC 1 cut(s) 702
BstZI CGGCCG 1 cut(s) 375
BsuI GTATCC 1 cut(s) 825
BsuRI GGCC 4 cut(s) 140, 345, 377, 760
BtgZI GCGATG 1 cut(s) 746
BtrI CACGTC 1 cut(s) 316
BtsIMutI CAGTG 1 cut(s) 270
BveI ACCTGC 1 cut(s) 895
Cac8I GCNNGC 1 cut(s) 475
CfoI GCGC 1 cut(s) 503
Cfr10I RCCGGY 3 cut(s) 377, 482, 869
Cfr13I GGNCC 2 cut(s) 669, 758
CseI GACGC 3 cut(s) 172, 725, 872
CsiI ACCWGGT 1 cut(s) 585
Csp6I GTAC 2 cut(s) 250, 436
CspAI ACCGGT 1 cut(s) 482
CviAII CATG 2 cut(s) 231, 780
CviQI GTAC 2 cut(s) 250, 436
DdeI CTNAG 6 cut(s) 191, 220, 491, 565, 791, 966
DpnI GATC 4 cut(s) 44, 132, 656, 770
DpnII GATC 4 cut(s) 42, 130, 654, 768
DraIII CACNNNGTG 1 cut(s) 180
EaeI YGGCCR 2 cut(s) 343, 375
EagI CGGCCG 1 cut(s) 375
Eam1104I CTCTTC 1 cut(s) 148
EarI CTCTTC 1 cut(s) 148
EclXI CGGCCG 1 cut(s) 375
Eco24I GRGCYC 1 cut(s) 123
Eco31I GGTCTC 1 cut(s) 395
Eco47I GGWCC 1 cut(s) 669
Eco52I CGGCCG 1 cut(s) 375
Eco88I CYCGRG 1 cut(s) 559
Eco91I GGTNACC 1 cut(s) 485
EcoO65I GGTNACC 1 cut(s) 485
EcoRII CCWGG 2 cut(s) 585, 625
EcoT38I GRGCYC 1 cut(s) 123
FaeI CATG 2 cut(s) 234, 783
FaiI YATR 9 cut(s) 151, 153, 232, 238, 677, 702, 781, 980, 993
FalI AAGNNNNNCTT 2 cut(s) 284, 316
FaqI GGGAC 3 cut(s) 664, 682, 728
FatI CATG 2 cut(s) 230, 779
FauI CCCGC 1 cut(s) 705
FblI GTMKAC 2 cut(s) 701, 879
Fnu4HI GCNGC 8 cut(s) 340, 343, 442, 525, 683, 686, 689, 729
FriOI GRGCYC 1 cut(s) 123
Fsp4HI GCNGC 8 cut(s) 340, 343, 442, 525, 683, 686, 689, 729
FspBI CTAG 2 cut(s) 581, 773
GlaI GCGC 1 cut(s) 502
GluI GCNGC 8 cut(s) 340, 343, 442, 525, 683, 686, 689, 729
GsaI CCCAGC 1 cut(s) 927
HaeIII GGCC 4 cut(s) 140, 345, 377, 760
HgaI GACGC 3 cut(s) 172, 725, 872
HhaI GCGC 1 cut(s) 503
Hin1II CATG 2 cut(s) 234, 783
Hin6I GCGC 1 cut(s) 501
HinP1I GCGC 1 cut(s) 501
HinfI GANTC 5 cut(s) 76, 206, 257, 543, 662
HphI GGTGA 2 cut(s) 16, 820
Hpy166II GTNNAC 3 cut(s) 383, 702, 880
Hpy188I TCNGA 3 cut(s) 97, 211, 819
Hpy188III TCNNGA 2 cut(s) 193, 958
Hpy8I GTNNAC 3 cut(s) 383, 702, 880
Hpy99I CGWCG 6 cut(s) 317, 371, 419, 646, 845, 893
HpyCH4III ACNGT 5 cut(s) 10, 458, 673, 808, 893
HpyCH4IV ACGT 7 cut(s) 159, 248, 315, 354, 812, 851, 996
HpyF10VI GCNNNNNNNGC 5 cut(s) 180, 521, 688, 704, 725
HpyF3I CTNAG 6 cut(s) 191, 220, 491, 565, 791, 966
HpySE526I ACGT 7 cut(s) 159, 248, 315, 354, 812, 851, 996
Hsp92II CATG 2 cut(s) 234, 783
HspAI GCGC 1 cut(s) 501
Kzo9I GATC 4 cut(s) 42, 130, 654, 768
LmnI GCTCC 3 cut(s) 118, 482, 1027
Lsp1109I GCAGC 4 cut(s) 326, 511, 672, 740
LweI GCATC 2 cut(s) 603, 925
MabI ACCWGGT 1 cut(s) 585
MaeI CTAG 2 cut(s) 581, 773
MaeII ACGT 7 cut(s) 159, 248, 315, 354, 812, 851, 996
MaeIII GTNAC 6 cut(s) 4, 167, 244, 485, 808, 847
MalI GATC 4 cut(s) 44, 132, 656, 770
MboI GATC 4 cut(s) 42, 130, 654, 768
MboII GAAGA 5 cut(s) 135, 322, 325, 439, 985
MflI RGATCY 1 cut(s) 768
MhlI GDGCHC 2 cut(s) 23, 123
MluCI AATT 4 cut(s) 98, 621, 827, 857
MlyI GAGTC 3 cut(s) 70, 251, 656
MmeI TCCRAC 4 cut(s) 211, 827, 834, 994
MseI TTAA 2 cut(s) 302, 737
MslI CAYNNNNRTG 1 cut(s) 599
MspR9I CCNGG 6 cut(s) 587, 627, 648, 667, 756, 1026
MvaI CCWGG 2 cut(s) 587, 627
MvnI CGCG 3 cut(s) 541, 682, 698
MwoI GCNNNNNNNGC 5 cut(s) 180, 521, 688, 704, 725
NciI CCSGG 4 cut(s) 648, 667, 756, 1026
NdeII GATC 4 cut(s) 42, 130, 654, 768
NlaIII CATG 2 cut(s) 234, 783
NlaIV GGNNCC 3 cut(s) 120, 670, 759
NmeAIII GCCGAG 2 cut(s) 116, 353
NmuCI GTSAC 3 cut(s) 4, 244, 808
NspI RCATGY 2 cut(s) 234, 783
NspV TTCGAA 1 cut(s) 896
PaeR7I CTCGAG 1 cut(s) 559
PcsI WCGNNNNNNNCGW 3 cut(s) 318, 638, 650
PfeI GAWTC 2 cut(s) 206, 543
Pfl23II CGTACG 1 cut(s) 249
PfoI TCCNGGA 1 cut(s) 665
PinAI ACCGGT 1 cut(s) 482
PkrI GCNGC 8 cut(s) 341, 344, 443, 526, 684, 687, 690, 730
Ple19I CGATCG 1 cut(s) 45
PleI GAGTC 3 cut(s) 70, 251, 656
PpsI GAGTC 3 cut(s) 70, 251, 656
Psp1406I AACGTT 1 cut(s) 159
Psp6I CCWGG 2 cut(s) 585, 625
PspEI GGTNACC 1 cut(s) 485
PspFI CCCAGC 1 cut(s) 923
PspGI CCWGG 2 cut(s) 585, 625
PspLI CGTACG 1 cut(s) 249
PspN4I GGNNCC 3 cut(s) 120, 670, 759
PspPI GGNCC 2 cut(s) 669, 758
PspXI VCTCGAGB 1 cut(s) 559
PsuI RGATCY 1 cut(s) 768
PvuI CGATCG 1 cut(s) 45
RsaI GTAC 2 cut(s) 251, 437
RsaNI GTAC 2 cut(s) 250, 436
RseI CAYNNNNRTG 1 cut(s) 599
SaqAI TTAA 2 cut(s) 302, 737
SatI GCNGC 8 cut(s) 340, 343, 442, 525, 683, 686, 689, 729
Sau3AI GATC 4 cut(s) 42, 130, 654, 768
Sau96I GGNCC 2 cut(s) 669, 758
SchI GAGTC 3 cut(s) 70, 251, 656
ScrFI CCNGG 6 cut(s) 587, 627, 648, 667, 756, 1026
SduI GDGCHC 2 cut(s) 23, 123
SexAI ACCWGGT 1 cut(s) 585
SfaNI GCATC 2 cut(s) 603, 925
Sfr274I CTCGAG 1 cut(s) 559
SfuI TTCGAA 1 cut(s) 896
SinI GGWCC 1 cut(s) 669
SlaI CTCGAG 1 cut(s) 559
SmiMI CAYNNNNRTG 1 cut(s) 599
SmlI CTYRAG 1 cut(s) 559
SmoI CTYRAG 1 cut(s) 559
Sse9I AATT 4 cut(s) 98, 621, 827, 857
SsiI CCGC 9 cut(s) 342, 426, 442, 471, 682, 689, 696, 712, 1029
SspMI CTAG 2 cut(s) 581, 773
StyD4I CCNGG 6 cut(s) 585, 625, 646, 665, 754, 1024
TaaI ACNGT 5 cut(s) 10, 458, 673, 808, 893
TaiI ACGT 7 cut(s) 162, 251, 318, 357, 815, 854, 999
TaqI TCGA 8 cut(s) 41, 129, 321, 417, 560, 660, 888, 896
TasI AATT 4 cut(s) 98, 621, 827, 857
TatI WGTACW 1 cut(s) 435
TauI GCSGC 4 cut(s) 345, 444, 685, 691
TfiI GAWTC 2 cut(s) 206, 543
Tru1I TTAA 2 cut(s) 302, 737
Tru9I TTAA 2 cut(s) 302, 737
TscAI CASTG 1 cut(s) 277
TseFI GTSAC 3 cut(s) 4, 244, 808
TseI GCWGC 4 cut(s) 339, 524, 685, 728
Tsp45I GTSAC 3 cut(s) 4, 244, 808
TspGWI ACGGA 4 cut(s) 218, 232, 267, 735
TspRI CASTG 1 cut(s) 277
VpaK11BI GGWCC 1 cut(s) 669
XapI RAATTY 2 cut(s) 98, 827
XceI RCATGY 2 cut(s) 234, 783
XhoI CTCGAG 1 cut(s) 559
XmiI GTMKAC 2 cut(s) 701, 879
XspI CTAG 2 cut(s) 581, 773
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.