Rroxscaffold_2G00082470

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0003744
Physical Location & Seq
Forward (+)
5288446 .. 5290833
2388 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00082470.1

Sequence Viewer

Length: 1107 bp
ATGAAGGTCAGTTTAGTGCTGTTTATGTGCTCATTCTGCGTAATACTGCCATGCCTAAAAGCGGGCGCAGATTCTGACAATAGCACAATTGCGGTGTTCGATCCTGTCCTTAAGGAGCGGGAGCATCAGGCCGAGGTAGCTGCCCTCCAGGCCTATCAACCCAACCCCGAAGCAGTTGCAGATGACCTATTTCAAGATGTTGAAACGACGTTGGAAGGGACCAACACCACAAGGAGGCATCTTGGGCATAAGTACAAAGGCCCATGCACGGCCACAAACCCTATTGACCGGTGCTGGAGGTGCAATAGCGAATGGTCCAAGAACCGGAAGCAGCTCGCCGGTTGCGTGAAAGGGTTCGGGCACAGGACCCGCGGAGGAAAGCGTGGTCCCATCTACGTCGTCACCGACTCCTCCGACGACGACATGGCAAACCCCAAGCCAGGAACTCTCCGCCACGCCGTGATCCAAACTGGCCCACTCTGGATCATCTTCAAACACAGCATGACCATCAAGTTGAATAAGGAGCTACTTGTGACCAGCCACAAGACCATCGACGGCCGTGGCGCCAACGTGATGCTTTTCGGAGCAAGCGATATATTTGAAGGCGACAAGATCATGCAAATCACGGTGGCGTTCAACCACTTCGGGAAGGGCTTGATCCAGAGAATGCCAAGGTGCAGACACGGCTTCTTCCACGTTGTGAACAACGACTACACCCACTGGCTCATGTACGCCATCGGAGGCAGCTCACACCCGACCATCATCAGCCAGGGCAACCGCTACGTGGCCCCACCAAACCCTGCAGCAAAGGAGATCACAAACAGAAACTACGCAACAGAGGACGTGTGGATGACATGGCAATGGAGATCGGAAGGTGATCTAATGGAGAACGGAGCCTACTTCCGGGAATCTGGAGTGCCGAGAACGGGCGGAGAGTTCAGCCGCCATGACATGATGAAGGCAAAGCCAGGCACATTCGTGAGGAGGCTCACACGCTTTGCGGGTTCTCTTGGATGCAAGGACCGGAGACGGAATGGGTTGTGGTGCACCAATGACAGTGAAGAGCATGGTGGAGACGCTCTGCTTCTGGTTGGGATATCAAAGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00040 ko02024 map00040 map02024
Pfam Domains
Protein Families
Pec_lyase_C Pec_lyase_N

Protein Analysis

368

Amino Acids

41.19

Weight (kDa)

9.03

Isoelectric Point (pI)

33.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pec_lyase_N PF04431 30 - 81 6e-15 Pectate lyase, N terminus
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)
AccB1I GGYRCC 1 cut(s) 563
AccBSI CCGCTC 1 cut(s) 118
AccII CGCG 1 cut(s) 372
AclWI GGATC 4 cut(s) 95, 457, 491, 652
AcoI YGGCCR 2 cut(s) 270, 556
AcyI GRCGYC 1 cut(s) 564
AdeI CACNNNGTG 2 cut(s) 460, 700
AfaI GTAC 2 cut(s) 254, 731
AfiI CCNNNNNNNGG 8 cut(s) 61, 234, 268, 324, 440, 784, 903, 926
AflII CTTAAG 1 cut(s) 110
AflIII ACRYGT 1 cut(s) 843
AgeI ACCGGT 1 cut(s) 288
AgsI TTSAA 6 cut(s) 194, 203, 493, 517, 602, 637
AjiI CACGTC 1 cut(s) 844
AjnI CCWGG 4 cut(s) 147, 439, 768, 967
AleI CACNNNNGTG 1 cut(s) 977
AluBI AGCT 4 cut(s) 140, 334, 526, 747
AluI AGCT 4 cut(s) 140, 334, 526, 747
Alw21I GWGCWC 2 cut(s) 32, 1049
Alw26I GTCTC 2 cut(s) 1021, 1068
Alw44I GTGCAC 1 cut(s) 1045
AlwI GGATC 4 cut(s) 95, 457, 491, 652
AlwNI CAGNNNCTG 1 cut(s) 74
AoxI GGCC 7 cut(s) 129, 150, 259, 270, 472, 556, 786
ApaLI GTGCAC 1 cut(s) 1045
ApeKI GCWGC 4 cut(s) 140, 331, 744, 803
AsiGI ACCGGT 1 cut(s) 288
Asp700I GAANNNNTTC 1 cut(s) 353
AspLEI GCGC 2 cut(s) 68, 566
AspS9I GGNCC 8 cut(s) 219, 260, 315, 366, 386, 473, 787, 1021
AsuC2I CCSGG 1 cut(s) 905
AsuHPI GGTGA 2 cut(s) 394, 887
AvaII GGWCC 5 cut(s) 219, 315, 366, 386, 1021
BaeGI GKGCMC 2 cut(s) 363, 1049
BanI GGYRCC 1 cut(s) 563
Bbv12I GWGCWC 2 cut(s) 32, 1049
BbvI GCAGC 4 cut(s) 127, 343, 756, 815
BccI CCATC 5 cut(s) 398, 515, 557, 743, 767
BceAI ACGGC 5 cut(s) 285, 443, 543, 571, 700
BcgI CGANNNNNNTGC 4 cut(s) 122, 156, 158, 192
BciT130I CCWGG 4 cut(s) 149, 441, 770, 969
BcnI CCSGG 1 cut(s) 905
BcoDI GTCTC 2 cut(s) 1021, 1068
BfmI CTRYAG 1 cut(s) 801
BfoI RGCGCY 1 cut(s) 567
BfrI CTTAAG 1 cut(s) 110
BglI GCCNNNNNGGC 1 cut(s) 149
BisI GCNGC 5 cut(s) 141, 332, 745, 804, 943
BlsI GCNGC 5 cut(s) 142, 333, 746, 805, 944
Bme1390I CCNGG 5 cut(s) 149, 441, 770, 905, 969
Bme18I GGWCC 5 cut(s) 219, 315, 366, 386, 1021
BmgBI CACGTC 1 cut(s) 844
BmgT120I GGNCC 8 cut(s) 219, 260, 315, 366, 386, 473, 787, 1021
BmiI GGNNCC 6 cut(s) 220, 368, 388, 565, 789, 895
BmrFI CCNGG 5 cut(s) 149, 441, 770, 905, 969
BmsI GCATC 4 cut(s) 133, 247, 564, 1004
BpmI CTGGAG 3 cut(s) 131, 316, 933
BpuMI CCSGG 1 cut(s) 905
BsaAI YACGTR 1 cut(s) 784
BsaHI GRCGYC 1 cut(s) 564
BsaJI CCNNGG 5 cut(s) 132, 370, 559, 671, 769
BsaWI WCCGGW 3 cut(s) 288, 324, 1023
Bsc4I CCNNNNNNNGG 8 cut(s) 61, 234, 268, 324, 440, 784, 903, 926
Bse118I RCCGGY 2 cut(s) 288, 338
Bse1I ACTGG 2 cut(s) 475, 725
Bse3DI GCAATG 1 cut(s) 866
BseBI CCWGG 4 cut(s) 149, 441, 770, 969
BseDI CCNNGG 5 cut(s) 132, 370, 559, 671, 769
BseGI GGATG 2 cut(s) 855, 1019
BseLI CCNNNNNNNGG 8 cut(s) 61, 234, 268, 324, 440, 784, 903, 926
BseMI GCAATG 1 cut(s) 866
BseNI ACTGG 2 cut(s) 475, 725
BseRI GAGGAG 2 cut(s) 400, 997
BseSI GKGCMC 2 cut(s) 363, 1049
BseX3I CGGCCG 1 cut(s) 556
BseXI GCAGC 4 cut(s) 127, 343, 756, 815
BsgI GTGCAG 1 cut(s) 697
Bsh1236I CGCG 1 cut(s) 372
Bsh1285I CGRYCG 1 cut(s) 559
BshFI GGCC 7 cut(s) 131, 152, 261, 272, 474, 558, 788
BshNI GGYRCC 1 cut(s) 563
BshTI ACCGGT 1 cut(s) 288
BsiEI CGRYCG 1 cut(s) 559
BsiHKAI GWGCWC 2 cut(s) 32, 1049
BsiSI CCGG 5 cut(s) 289, 325, 339, 904, 1024
BslFI GGGAC 2 cut(s) 232, 372
BslI CCNNNNNNNGG 8 cut(s) 61, 234, 268, 324, 440, 784, 903, 926
BsmAI GTCTC 2 cut(s) 1021, 1068
BsmBI CGTCTC 2 cut(s) 1021, 1068
BsmFI GGGAC 2 cut(s) 232, 372
BsmI GAATGC 1 cut(s) 672
BsnI GGCC 7 cut(s) 131, 152, 261, 272, 474, 558, 788
Bsp1286I GDGCHC 3 cut(s) 32, 363, 1049
Bsp143I GATC 8 cut(s) 100, 462, 483, 612, 657, 813, 866, 877
BspANI GGCC 7 cut(s) 131, 152, 261, 272, 474, 558, 788
BspFNI CGCG 1 cut(s) 372
BspLI GGNNCC 6 cut(s) 220, 368, 388, 565, 789, 895
BspMAI CTGCAG 1 cut(s) 805
BspPI GGATC 4 cut(s) 95, 457, 491, 652
BspQI GCTCTTC 1 cut(s) 1056
BspT107I GGYRCC 1 cut(s) 563
BspTI CTTAAG 1 cut(s) 110
BsrBI CCGCTC 1 cut(s) 118
BsrDI GCAATG 1 cut(s) 866
BsrFI RCCGGY 2 cut(s) 288, 338
BsrI ACTGG 2 cut(s) 475, 725
BssAI RCCGGY 2 cut(s) 288, 338
BssECI CCNNGG 5 cut(s) 132, 370, 559, 671, 769
BssMI GATC 8 cut(s) 100, 462, 483, 612, 657, 813, 866, 877
BssNI GRCGYC 1 cut(s) 564
BssT1I CCWWGG 1 cut(s) 671
Bst2UI CCWGG 4 cut(s) 149, 441, 770, 969
Bst4CI ACNGT 2 cut(s) 628, 1058
Bst6I CTCTTC 1 cut(s) 1056
BstACI GRCGYC 1 cut(s) 564
BstAFI CTTAAG 1 cut(s) 110
BstBAI YACGTR 1 cut(s) 784
BstC8I GCNNGC 3 cut(s) 64, 336, 589
BstDSI CCRYGG 2 cut(s) 370, 559
BstF5I GGATG 2 cut(s) 855, 1019
BstFNI CGCG 1 cut(s) 372
BstH2I RGCGCY 1 cut(s) 567
BstHHI GCGC 2 cut(s) 68, 566
BstKTI GATC 8 cut(s) 103, 465, 486, 615, 660, 816, 869, 880
BstMAI GTCTC 2 cut(s) 1021, 1068
BstMBI GATC 8 cut(s) 100, 462, 483, 612, 657, 813, 866, 877
BstMCI CGRYCG 1 cut(s) 559
BstMWI GCNNNNNNNGC 6 cut(s) 36, 137, 149, 244, 300, 684
BstNI CCWGG 4 cut(s) 149, 441, 770, 969
BstSCI CCNGG 5 cut(s) 147, 439, 768, 903, 967
BstSFI CTRYAG 1 cut(s) 801
BstSLI GKGCMC 2 cut(s) 363, 1049
BstUI CGCG 1 cut(s) 372
BstV1I GCAGC 4 cut(s) 127, 343, 756, 815
BstZI CGGCCG 1 cut(s) 556
BsuRI GGCC 7 cut(s) 131, 152, 261, 272, 474, 558, 788
BtgI CCRYGG 2 cut(s) 370, 559
BtrI CACGTC 1 cut(s) 844
BtsCI GGATG 2 cut(s) 855, 1019
BtsIMutI CAGTG 2 cut(s) 718, 1063
Cac8I GCNNGC 3 cut(s) 64, 336, 589
CaiI CAGNNNCTG 1 cut(s) 74
CfoI GCGC 2 cut(s) 68, 566
Cfr10I RCCGGY 2 cut(s) 288, 338
Cfr13I GGNCC 8 cut(s) 219, 260, 315, 366, 386, 473, 787, 1021
Cfr42I CCGCGG 1 cut(s) 373
CseI GACGC 1 cut(s) 1085
Csp6I GTAC 2 cut(s) 253, 730
CspAI ACCGGT 1 cut(s) 288
CviQI GTAC 2 cut(s) 253, 730
DinI GGCGCC 1 cut(s) 565
DpnI GATC 8 cut(s) 102, 464, 485, 614, 659, 815, 868, 879
DpnII GATC 8 cut(s) 100, 462, 483, 612, 657, 813, 866, 877
DraIII CACNNNGTG 2 cut(s) 460, 700
EaeI YGGCCR 2 cut(s) 270, 556
EagI CGGCCG 1 cut(s) 556
Eam1104I CTCTTC 1 cut(s) 1056
EarI CTCTTC 1 cut(s) 1056
EciI GGCGGA 2 cut(s) 440, 945
EclXI CGGCCG 1 cut(s) 556
Eco130I CCWWGG 1 cut(s) 671
Eco147I AGGCCT 1 cut(s) 152
Eco32I GATATC 1 cut(s) 1098
Eco47I GGWCC 5 cut(s) 219, 315, 366, 386, 1021
Eco52I CGGCCG 1 cut(s) 556
EcoO109I RGGNCCY 1 cut(s) 366
EcoRII CCWGG 4 cut(s) 147, 439, 768, 967
EcoRV GATATC 1 cut(s) 1098
EcoT14I CCWWGG 1 cut(s) 671
EgeI GGCGCC 1 cut(s) 565
EheI GGCGCC 1 cut(s) 565
ErhI CCWWGG 1 cut(s) 671
Esp3I CGTCTC 2 cut(s) 1021, 1068
FaqI GGGAC 2 cut(s) 232, 372
FauI CCCGC 4 cut(s) 55, 111, 377, 994
Fnu4HI GCNGC 5 cut(s) 141, 332, 745, 804, 943
FokI GGATG 2 cut(s) 862, 1026
Fsp4HI GCNGC 5 cut(s) 141, 332, 745, 804, 943
GlaI GCGC 2 cut(s) 67, 565
GluI GCNGC 5 cut(s) 141, 332, 745, 804, 943
GsuI CTGGAG 3 cut(s) 131, 316, 933
HaeII RGCGCY 1 cut(s) 567
HaeIII GGCC 7 cut(s) 131, 152, 261, 272, 474, 558, 788
HapII CCGG 5 cut(s) 289, 325, 339, 904, 1024
HgaI GACGC 1 cut(s) 1085
HhaI GCGC 2 cut(s) 68, 566
Hin1I GRCGYC 1 cut(s) 564
Hin6I GCGC 2 cut(s) 66, 564
HinP1I GCGC 2 cut(s) 66, 564
HinfI GANTC 3 cut(s) 71, 407, 908
HpaII CCGG 5 cut(s) 289, 325, 339, 904, 1024
HphI GGTGA 2 cut(s) 394, 887
Hpy166II GTNNAC 2 cut(s) 703, 1047
Hpy188I TCNGA 5 cut(s) 76, 415, 584, 740, 871
Hpy188III TCNNGA 6 cut(s) 194, 481, 646, 661, 912, 979
Hpy8I GTNNAC 2 cut(s) 703, 1047
Hpy99I CGWCG 5 cut(s) 211, 401, 419, 422, 557
HpyAV CCTTC 5 cut(s) 209, 596, 643, 866, 952
HpyCH4III ACNGT 2 cut(s) 628, 1058
HpyCH4IV ACGT 6 cut(s) 209, 396, 570, 696, 783, 843
HpyCH4V TGCA 8 cut(s) 179, 267, 303, 619, 678, 803, 1017, 1047
HpyF10VI GCNNNNNNNGC 6 cut(s) 36, 137, 149, 244, 300, 684
HpySE526I ACGT 6 cut(s) 209, 396, 570, 696, 783, 843
Hsp92I GRCGYC 1 cut(s) 564
HspAI GCGC 2 cut(s) 66, 564
KasI GGCGCC 1 cut(s) 563
KspI CCGCGG 1 cut(s) 373
Kzo9I GATC 8 cut(s) 100, 462, 483, 612, 657, 813, 866, 877
LguI GCTCTTC 1 cut(s) 1056
LmnI GCTCC 5 cut(s) 115, 121, 523, 584, 893
Lsp1109I GCAGC 4 cut(s) 127, 343, 756, 815
LweI GCATC 4 cut(s) 133, 247, 564, 1004
MaeII ACGT 6 cut(s) 209, 396, 570, 696, 783, 843
MaeIII GTNAC 2 cut(s) 400, 532
MalI GATC 8 cut(s) 102, 464, 485, 614, 659, 815, 868, 879
MbiI CCGCTC 1 cut(s) 118
MboI GATC 8 cut(s) 100, 462, 483, 612, 657, 813, 866, 877
MboII GAAGA 3 cut(s) 481, 682, 1073
MfeI CAATTG 1 cut(s) 87
MhlI GDGCHC 3 cut(s) 32, 363, 1049
MluCI AATT 1 cut(s) 87
Mly113I GGCGCC 1 cut(s) 564
MlyI GAGTC 1 cut(s) 401
MmeI TCCRAC 2 cut(s) 192, 438
MroXI GAANNNNTTC 1 cut(s) 353
MseI TTAA 1 cut(s) 111
MslI CAYNNNNRTG 2 cut(s) 859, 977
MspA1I CMGCKG 1 cut(s) 372
MspCI CTTAAG 1 cut(s) 110
MspI CCGG 5 cut(s) 289, 325, 339, 904, 1024
MspR9I CCNGG 5 cut(s) 149, 441, 770, 905, 969
MunI CAATTG 1 cut(s) 87
Mva1269I GAATGC 1 cut(s) 672
MvaI CCWGG 4 cut(s) 149, 441, 770, 969
MvnI CGCG 1 cut(s) 372
MwoI GCNNNNNNNGC 6 cut(s) 36, 137, 149, 244, 300, 684
NarI GGCGCC 1 cut(s) 564
NciI CCSGG 1 cut(s) 905
NdeII GATC 8 cut(s) 100, 462, 483, 612, 657, 813, 866, 877
NlaIV GGNNCC 6 cut(s) 220, 368, 388, 565, 789, 895
NmeAIII GCCGAG 2 cut(s) 157, 945
NmuCI GTSAC 2 cut(s) 400, 532
OliI CACNNNNGTG 1 cut(s) 977
PceI AGGCCT 1 cut(s) 152
PciSI GCTCTTC 1 cut(s) 1056
PcsI WCGNNNNNNNCGW 3 cut(s) 342, 402, 588
PctI GAATGC 1 cut(s) 672
PdmI GAANNNNTTC 1 cut(s) 353
PfeI GAWTC 2 cut(s) 71, 908
PfoI TCCNGGA 1 cut(s) 903
PinAI ACCGGT 1 cut(s) 288
PkrI GCNGC 5 cut(s) 142, 333, 746, 805, 944
PleI GAGTC 1 cut(s) 401
PluTI GGCGCC 1 cut(s) 567
PpsI GAGTC 1 cut(s) 401
Ppu21I YACGTR 1 cut(s) 784
PpuMI RGGWCCY 1 cut(s) 366
Psp5II RGGWCCY 1 cut(s) 366
Psp6I CCWGG 4 cut(s) 147, 439, 768, 967
PspGI CCWGG 4 cut(s) 147, 439, 768, 967
PspN4I GGNNCC 6 cut(s) 220, 368, 388, 565, 789, 895
PspPI GGNCC 8 cut(s) 219, 260, 315, 366, 386, 473, 787, 1021
PspPPI RGGWCCY 1 cut(s) 366
PsrI GAACNNNNNNTAC 4 cut(s) 695, 727, 881, 913
PstI CTGCAG 1 cut(s) 805
PstNI CAGNNNCTG 1 cut(s) 74
RsaI GTAC 2 cut(s) 254, 731
RsaNI GTAC 2 cut(s) 253, 730
RseI CAYNNNNRTG 2 cut(s) 859, 977
SacII CCGCGG 1 cut(s) 373
SapI GCTCTTC 1 cut(s) 1056
SaqAI TTAA 1 cut(s) 111
SatI GCNGC 5 cut(s) 141, 332, 745, 804, 943
Sau3AI GATC 8 cut(s) 100, 462, 483, 612, 657, 813, 866, 877
Sau96I GGNCC 8 cut(s) 219, 260, 315, 366, 386, 473, 787, 1021
SchI GAGTC 1 cut(s) 401
ScrFI CCNGG 5 cut(s) 149, 441, 770, 905, 969
SduI GDGCHC 3 cut(s) 32, 363, 1049
SfaNI GCATC 4 cut(s) 133, 247, 564, 1004
SfcI CTRYAG 1 cut(s) 801
SfoI GGCGCC 1 cut(s) 565
Sfr303I CCGCGG 1 cut(s) 373
SgrBI CCGCGG 1 cut(s) 373
SinI GGWCC 5 cut(s) 219, 315, 366, 386, 1021
SmiMI CAYNNNNRTG 2 cut(s) 859, 977
SmlI CTYRAG 1 cut(s) 110
SmoI CTYRAG 1 cut(s) 110
Sse9I AATT 1 cut(s) 87
SseBI AGGCCT 1 cut(s) 152
SspDI GGCGCC 1 cut(s) 563
StuI AGGCCT 1 cut(s) 152
StyD4I CCNGG 5 cut(s) 147, 439, 768, 903, 967
StyI CCWWGG 1 cut(s) 671
TaaI ACNGT 2 cut(s) 628, 1058
TaiI ACGT 6 cut(s) 212, 399, 573, 699, 786, 846
TaqI TCGA 2 cut(s) 99, 552
TasI AATT 1 cut(s) 87
TatI WGTACW 1 cut(s) 252
TauI GCSGC 1 cut(s) 945
TfiI GAWTC 2 cut(s) 71, 908
Tru1I TTAA 1 cut(s) 111
Tru9I TTAA 1 cut(s) 111
TscAI CASTG 2 cut(s) 725, 1063
TseFI GTSAC 2 cut(s) 400, 532
TseI GCWGC 4 cut(s) 140, 331, 744, 803
Tsp45I GTSAC 2 cut(s) 400, 532
TspDTI ATGAA 2 cut(s) 17, 971
TspGWI ACGGA 2 cut(s) 906, 1045
TspRI CASTG 2 cut(s) 725, 1063
Vha464I CTTAAG 1 cut(s) 110
VneI GTGCAC 1 cut(s) 1045
VpaK11BI GGWCC 5 cut(s) 219, 315, 366, 386, 1021
XmnI GAANNNNTTC 1 cut(s) 353
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.