Rw5G000700

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0010647
Physical Location & Seq
Forward (+)
478873 .. 479964
1092 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G000700.1

Sequence Viewer

Length: 1041 bp
ATGAGGAAGAAGCAAGCCTCATGTAGAACCGGCAATCCCATCGATGACTGTTGGCGTTGTGATCCCAACTGGTTCAACAACCGAAAGCGTCTCGCGGACTGCGCTATTGGTTTTGGCAAAAATGCCATGGGCGGCCGCGATGGACGCTTTTACGTTGTCTCTGACTCGAGTGACAACGATGCTGTAAACCCTAGACCAGGCACTCTCCGCCACGCTGTCATTCAGATCGAGCCTCTGTGGATCGTCTTCGCCAGGGACATGTTGATCACACTGAAGCAGGAGCTGATCATGAATAGCTTCAAGACCATTGACGGCCGCGGAGTCAACGTTCAAATTGCTTACGGAGCAGGCATAACGATCCAATATGTCACAAACATTATAATCCATGGTGTGCATATCCACCACTGCAAGCCCACTGGCAATGCAATGGTGCGAAGCTCCCCATCTCATTTTGGACGGAGAGGAATGGCTGATGGCGATGCCATCTCCATCTTCGGATCTAAAAACATATGGATCGATCACAATTCGCTCTCCAACTGTTACGATGGCCTAGTAGATGTCGTTGAGGCCTCAACTGCTGTCACCGTCTCTAACAATCTGTTTACGGACCACGACAAGGTGATGCTGTTAGGGCACAATGATGCTTATACTCAAGACAAGGTGATGCAAGTGACCGTTGCTTACAACCGTTTCGGACAGGGACTCGGGCAGAGAATGCCTCATTGTAGGCATGGTAGTTTTCACGTCCTGAACAATGACTACCCTAACGGGTGGGGGGTATATGCCATTGGTGGAGCTGCAAACCCTACCATCAACAGCCAAGGTAACAGATTCTATGCTGACGCATCAGAGTGGAAGAGATGGAATTGGCGGTCGTCGGGAGATGTTTTCTTGAATGGTGCTTACTTCGTTCCTTCTGGAGATGCTAGTCGGGCAGCCTATGTCAAGGCCTCGAGCACCTTACCCAAGCCAGCTTACATGGTTGAAGCCATAACGGCTGATGCCGGTGTACTTTCTTGCCGCAGAGACCATGTGTGCTAA
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

Protein Analysis

346

Amino Acids

38.23

Weight (kDa)

8.81

Isoelectric Point (pI)

39.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 94 - 333 1.2e-22 Pectate lyase
Beta_helix PF13229 117 - 271 7.2e-06 Right handed beta helix region
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)
AanI TTATAA 1 cut(s) 380
AccII CGCG 3 cut(s) 95, 138, 318
AciI CCGC 8 cut(s) 95, 132, 136, 208, 316, 318, 871, 1021
AclI AACGTT 1 cut(s) 327
AclWI GGATC 5 cut(s) 56, 248, 352, 505, 521
AcoI YGGCCR 2 cut(s) 133, 313
AcuI CTGAAG 1 cut(s) 293
AfaI GTAC 1 cut(s) 1011
AfiI CCNNNNNNNGG 2 cut(s) 197, 616
AflIII ACRYGT 1 cut(s) 258
AgsI TTSAA 5 cut(s) 76, 301, 332, 895, 986
AjiI CACGTC 1 cut(s) 745
AjnI CCWGG 2 cut(s) 196, 251
AloI GAACNNNNNNTCC 4 cut(s) 19, 51, 312, 344
AluBI AGCT 5 cut(s) 283, 297, 438, 797, 974
AluI AGCT 5 cut(s) 283, 297, 438, 797, 974
Alw21I GWGCWC 1 cut(s) 959
Alw26I GTCTC 4 cut(s) 95, 163, 592, 1020
AlwI GGATC 5 cut(s) 56, 248, 352, 505, 521
AlwNI CAGNNNCTG 1 cut(s) 283
Ama87I CYCGRG 3 cut(s) 166, 704, 952
AoxI GGCC 5 cut(s) 133, 313, 547, 567, 948
ApeKI GCWGC 2 cut(s) 797, 935
Asp700I GAANNNNTTC 1 cut(s) 296
AspLEI GCGC 1 cut(s) 104
AspS9I GGNCC 1 cut(s) 607
AsuHPI GGTGA 3 cut(s) 574, 631, 673
AvaI CYCGRG 3 cut(s) 166, 704, 952
AvaII GGWCC 1 cut(s) 607
BaeGI GKGCMC 1 cut(s) 636
BbsI GAAGAC 1 cut(s) 238
Bbv12I GWGCWC 1 cut(s) 959
BbvI GCAGC 2 cut(s) 784, 947
BccI CCATC 9 cut(s) 47, 134, 451, 467, 491, 497, 539, 818, 855
BceAI ACGGC 2 cut(s) 328, 1011
BcgI CGANNNNNNTGC 2 cut(s) 22, 56
BciT130I CCWGG 2 cut(s) 198, 253
BclI TGATCA 2 cut(s) 264, 285
BcoDI GTCTC 4 cut(s) 95, 163, 592, 1020
BfaI CTAG 3 cut(s) 192, 551, 927
BglI GCCNNNNNGGC 1 cut(s) 995
BisI GCNGC 6 cut(s) 133, 136, 316, 798, 936, 1021
BlsI GCNGC 6 cut(s) 134, 137, 317, 799, 937, 1022
Bme1390I CCNGG 2 cut(s) 198, 253
Bme18I GGWCC 1 cut(s) 607
BmeT110I CYCGRG 3 cut(s) 166, 704, 952
BmgBI CACGTC 1 cut(s) 745
BmgT120I GGNCC 1 cut(s) 607
BmrFI CCNGG 2 cut(s) 198, 253
BmsI GCATC 8 cut(s) 169, 469, 612, 631, 654, 854, 913, 991
BpiI GAAGAC 1 cut(s) 238
BplI GAGNNNNNCTC 2 cut(s) 703, 735
BpmI CTGGAG 1 cut(s) 939
BpuEI CTTGAG 1 cut(s) 636
Bsa29I ATCGAT 2 cut(s) 42, 516
BsaI GGTCTC 1 cut(s) 1020
BsaJI CCNNGG 5 cut(s) 126, 252, 316, 385, 820
BsaXI ACNNNNNCTCC 2 cut(s) 312, 342
Bsc4I CCNNNNNNNGG 2 cut(s) 197, 616
Bse118I RCCGGY 2 cut(s) 29, 1004
Bse1I ACTGG 2 cut(s) 74, 421
Bse3DI GCAATG 2 cut(s) 427, 432
BseBI CCWGG 2 cut(s) 198, 253
BseCI ATCGAT 2 cut(s) 42, 516
BseDI CCNNGG 5 cut(s) 126, 252, 316, 385, 820
BseLI CCNNNNNNNGG 2 cut(s) 197, 616
BseMI GCAATG 2 cut(s) 427, 432
BseNI ACTGG 2 cut(s) 74, 421
BseSI GKGCMC 1 cut(s) 636
BseX3I CGGCCG 2 cut(s) 133, 313
BseXI GCAGC 2 cut(s) 784, 947
Bsh1236I CGCG 3 cut(s) 95, 138, 318
Bsh1285I CGRYCG 3 cut(s) 136, 316, 875
BshFI GGCC 5 cut(s) 135, 315, 549, 569, 950
BshVI ATCGAT 2 cut(s) 42, 516
BsiEI CGRYCG 3 cut(s) 136, 316, 875
BsiHKAI GWGCWC 1 cut(s) 959
BsiHKCI CYCGRG 3 cut(s) 166, 704, 952
BsiSI CCGG 2 cut(s) 30, 1005
BslFI GGGAC 2 cut(s) 269, 714
BslI CCNNNNNNNGG 2 cut(s) 197, 616
BsmAI GTCTC 4 cut(s) 95, 163, 592, 1020
BsmBI CGTCTC 2 cut(s) 95, 592
BsmFI GGGAC 2 cut(s) 269, 714
BsmI GAATGC 1 cut(s) 720
BsnI GGCC 5 cut(s) 135, 315, 549, 569, 950
Bso31I GGTCTC 1 cut(s) 1020
BsoBI CYCGRG 3 cut(s) 166, 704, 952
Bsp1286I GDGCHC 2 cut(s) 636, 959
Bsp143I GATC 9 cut(s) 61, 225, 240, 264, 285, 357, 497, 513, 517
Bsp19I CCATGG 2 cut(s) 126, 385
BspACI CCGC 8 cut(s) 95, 132, 136, 208, 316, 318, 871, 1021
BspANI GGCC 5 cut(s) 135, 315, 549, 569, 950
BspDI ATCGAT 2 cut(s) 42, 516
BspFNI CGCG 3 cut(s) 95, 138, 318
BspHI TCATGA 1 cut(s) 288
BspPI GGATC 5 cut(s) 56, 248, 352, 505, 521
BspTNI GGTCTC 1 cut(s) 1020
BsrDI GCAATG 2 cut(s) 427, 432
BsrFI RCCGGY 2 cut(s) 29, 1004
BsrI ACTGG 2 cut(s) 74, 421
BssAI RCCGGY 2 cut(s) 29, 1004
BssECI CCNNGG 5 cut(s) 126, 252, 316, 385, 820
BssMI GATC 9 cut(s) 61, 225, 240, 264, 285, 357, 497, 513, 517
BssT1I CCWWGG 3 cut(s) 126, 385, 820
Bst2UI CCWGG 2 cut(s) 198, 253
Bst4CI ACNGT 5 cut(s) 50, 539, 586, 676, 689
Bst6I CTCTTC 1 cut(s) 851
BstAPI GCANNNNNTGC 1 cut(s) 715
BstC8I GCNNGC 4 cut(s) 15, 349, 410, 972
BstDSI CCRYGG 3 cut(s) 126, 316, 385
BstENI CCTNNNNNAGG 1 cut(s) 195
BstFNI CGCG 3 cut(s) 95, 138, 318
BstHHI GCGC 1 cut(s) 104
BstKTI GATC 9 cut(s) 64, 228, 243, 267, 288, 360, 500, 516, 520
BstMAI GTCTC 4 cut(s) 95, 163, 592, 1020
BstMBI GATC 9 cut(s) 61, 225, 240, 264, 285, 357, 497, 513, 517
BstMCI CGRYCG 3 cut(s) 136, 316, 875
BstMWI GCNNNNNNNGC 9 cut(s) 101, 144, 207, 344, 575, 631, 715, 932, 995
BstNI CCWGG 2 cut(s) 198, 253
BstNSI RCATGY 1 cut(s) 262
BstSCI CCNGG 2 cut(s) 196, 251
BstSLI GKGCMC 1 cut(s) 636
BstUI CGCG 3 cut(s) 95, 138, 318
BstV1I GCAGC 2 cut(s) 784, 947
BstV2I GAAGAC 1 cut(s) 238
BstX2I RGATCY 1 cut(s) 497
BstYI RGATCY 1 cut(s) 497
BstZI CGGCCG 2 cut(s) 133, 313
Bsu15I ATCGAT 2 cut(s) 42, 516
BsuRI GGCC 5 cut(s) 135, 315, 549, 569, 950
BsuTUI ATCGAT 2 cut(s) 42, 516
BtgI CCRYGG 3 cut(s) 126, 316, 385
BtgZI GCGATG 2 cut(s) 153, 492
BtrI CACGTC 1 cut(s) 745
BtsI GCAGTG 1 cut(s) 403
BtsIMutI CAGTG 3 cut(s) 269, 403, 414
Cac8I GCNNGC 4 cut(s) 15, 349, 410, 972
CaiI CAGNNNCTG 1 cut(s) 283
CciI TCATGA 1 cut(s) 288
CciNI GCGGCCGC 1 cut(s) 133
CfoI GCGC 1 cut(s) 104
Cfr10I RCCGGY 2 cut(s) 29, 1004
Cfr13I GGNCC 1 cut(s) 607
Cfr42I CCGCGG 1 cut(s) 319
ClaI ATCGAT 2 cut(s) 42, 516
CseI GACGC 3 cut(s) 77, 153, 851
Csp6I GTAC 1 cut(s) 1010
CviAII CATG 8 cut(s) 21, 127, 259, 289, 386, 731, 979, 1031
CviQI GTAC 1 cut(s) 1010
DpnI GATC 9 cut(s) 63, 227, 242, 266, 287, 359, 499, 515, 519
DpnII GATC 9 cut(s) 61, 225, 240, 264, 285, 357, 497, 513, 517
EaeI YGGCCR 2 cut(s) 133, 313
EagI CGGCCG 2 cut(s) 133, 313
Eam1104I CTCTTC 1 cut(s) 851
EarI CTCTTC 1 cut(s) 851
EciI GGCGGA 1 cut(s) 197
EclXI CGGCCG 2 cut(s) 133, 313
Eco130I CCWWGG 3 cut(s) 126, 385, 820
Eco147I AGGCCT 2 cut(s) 569, 950
Eco31I GGTCTC 1 cut(s) 1020
Eco47I GGWCC 1 cut(s) 607
Eco52I CGGCCG 2 cut(s) 133, 313
Eco57I CTGAAG 1 cut(s) 293
Eco88I CYCGRG 3 cut(s) 166, 704, 952
EcoNI CCTNNNNNAGG 1 cut(s) 195
EcoRII CCWGG 2 cut(s) 196, 251
EcoT14I CCWWGG 3 cut(s) 126, 385, 820
ErhI CCWWGG 3 cut(s) 126, 385, 820
Esp3I CGTCTC 2 cut(s) 95, 592
FaeI CATG 8 cut(s) 24, 130, 262, 292, 389, 734, 982, 1034
FaqI GGGAC 2 cut(s) 269, 714
FatI CATG 8 cut(s) 20, 126, 258, 288, 385, 730, 978, 1030
FauNDI CATATG 1 cut(s) 509
FbaI TGATCA 2 cut(s) 264, 285
Fnu4HI GCNGC 6 cut(s) 133, 136, 316, 798, 936, 1021
Fsp4HI GCNGC 6 cut(s) 133, 136, 316, 798, 936, 1021
FspBI CTAG 3 cut(s) 192, 551, 927
GlaI GCGC 1 cut(s) 103
GluI GCNGC 6 cut(s) 133, 136, 316, 798, 936, 1021
GsuI CTGGAG 1 cut(s) 939
HaeIII GGCC 5 cut(s) 135, 315, 549, 569, 950
HapII CCGG 2 cut(s) 30, 1005
HgaI GACGC 3 cut(s) 77, 153, 851
HhaI GCGC 1 cut(s) 104
Hin1II CATG 8 cut(s) 24, 130, 262, 292, 389, 734, 982, 1034
Hin6I GCGC 1 cut(s) 102
HinP1I GCGC 1 cut(s) 102
HincII GTYRAC 1 cut(s) 325
HindII GTYRAC 1 cut(s) 325
HinfI GANTC 4 cut(s) 164, 321, 702, 831
HpaII CCGG 2 cut(s) 30, 1005
HphI GGTGA 3 cut(s) 574, 631, 673
Hpy166II GTNNAC 4 cut(s) 187, 325, 603, 1010
Hpy188I TCNGA 5 cut(s) 163, 225, 497, 695, 850
Hpy188III TCNNGA 7 cut(s) 289, 301, 653, 748, 879, 892, 918
Hpy8I GTNNAC 4 cut(s) 187, 325, 603, 1010
Hpy99I CGWCG 1 cut(s) 880
HpyAV CCTTC 1 cut(s) 924
HpyCH4III ACNGT 5 cut(s) 50, 539, 586, 676, 689
HpyCH4IV ACGT 3 cut(s) 153, 327, 744
HpyCH4V TGCA 5 cut(s) 394, 408, 425, 667, 800
HpyF10VI GCNNNNNNNGC 9 cut(s) 101, 144, 207, 344, 575, 631, 715, 932, 995
HpySE526I ACGT 3 cut(s) 153, 327, 744
Hsp92II CATG 8 cut(s) 24, 130, 262, 292, 389, 734, 982, 1034
HspAI GCGC 1 cut(s) 102
Ksp22I TGATCA 2 cut(s) 264, 285
KspI CCGCGG 1 cut(s) 319
Kzo9I GATC 9 cut(s) 61, 225, 240, 264, 285, 357, 497, 513, 517
LmnI GCTCC 4 cut(s) 280, 344, 443, 794
Lsp1109I GCAGC 2 cut(s) 784, 947
LweI GCATC 8 cut(s) 169, 469, 612, 631, 654, 854, 913, 991
MaeI CTAG 3 cut(s) 192, 551, 927
MaeII ACGT 3 cut(s) 153, 327, 744
MaeIII GTNAC 6 cut(s) 170, 367, 539, 580, 670, 824
MalI GATC 9 cut(s) 63, 227, 242, 266, 287, 359, 499, 515, 519
MboI GATC 9 cut(s) 61, 225, 240, 264, 285, 357, 497, 513, 517
MboII GAAGA 4 cut(s) 19, 238, 484, 868
MflI RGATCY 1 cut(s) 497
MhlI GDGCHC 2 cut(s) 636, 959
MluCI AATT 3 cut(s) 333, 523, 865
MlyI GAGTC 3 cut(s) 158, 330, 696
MmeI TCCRAC 1 cut(s) 558
MnlI CCTC 7 cut(s) 28, 243, 455, 559, 580, 729, 961
MroXI GAANNNNTTC 1 cut(s) 296
MslI CAYNNNNRTG 2 cut(s) 639, 850
MspA1I CMGCKG 1 cut(s) 318
MspI CCGG 2 cut(s) 30, 1005
MspR9I CCNGG 2 cut(s) 198, 253
Mva1269I GAATGC 1 cut(s) 720
MvaI CCWGG 2 cut(s) 198, 253
MvnI CGCG 3 cut(s) 95, 138, 318
MwoI GCNNNNNNNGC 9 cut(s) 101, 144, 207, 344, 575, 631, 715, 932, 995
NcoI CCATGG 2 cut(s) 126, 385
NdeI CATATG 1 cut(s) 509
NdeII GATC 9 cut(s) 61, 225, 240, 264, 285, 357, 497, 513, 517
NlaIII CATG 8 cut(s) 24, 130, 262, 292, 389, 734, 982, 1034
NmuCI GTSAC 4 cut(s) 170, 367, 580, 670
NotI GCGGCCGC 1 cut(s) 133
NspI RCATGY 1 cut(s) 262
PaeR7I CTCGAG 2 cut(s) 166, 952
PagI TCATGA 1 cut(s) 288
PceI AGGCCT 2 cut(s) 569, 950
PciI ACATGT 1 cut(s) 258
PctI GAATGC 1 cut(s) 720
PdmI GAANNNNTTC 1 cut(s) 296
PfeI GAWTC 1 cut(s) 831
PkrI GCNGC 6 cut(s) 134, 137, 317, 799, 937, 1022
PleI GAGTC 3 cut(s) 158, 329, 696
PpsI GAGTC 3 cut(s) 158, 329, 696
PscI ACATGT 1 cut(s) 258
PsiI TTATAA 1 cut(s) 380
Psp1406I AACGTT 1 cut(s) 327
Psp6I CCWGG 2 cut(s) 196, 251
PspGI CCWGG 2 cut(s) 196, 251
PspPI GGNCC 1 cut(s) 607
PspXI VCTCGAGB 2 cut(s) 166, 952
PsrI GAACNNNNNNTAC 2 cut(s) 743, 775
PstNI CAGNNNCTG 1 cut(s) 283
PsuI RGATCY 1 cut(s) 497
RsaI GTAC 1 cut(s) 1011
RsaNI GTAC 1 cut(s) 1010
RseI CAYNNNNRTG 2 cut(s) 639, 850
SacII CCGCGG 1 cut(s) 319
SatI GCNGC 6 cut(s) 133, 136, 316, 798, 936, 1021
Sau3AI GATC 9 cut(s) 61, 225, 240, 264, 285, 357, 497, 513, 517
Sau96I GGNCC 1 cut(s) 607
SchI GAGTC 3 cut(s) 158, 330, 696
ScrFI CCNGG 2 cut(s) 198, 253
SduI GDGCHC 2 cut(s) 636, 959
SfaNI GCATC 8 cut(s) 169, 469, 612, 631, 654, 854, 913, 991
Sfr274I CTCGAG 2 cut(s) 166, 952
Sfr303I CCGCGG 1 cut(s) 319
SgrBI CCGCGG 1 cut(s) 319
SinI GGWCC 1 cut(s) 607
SlaI CTCGAG 2 cut(s) 166, 952
SmiMI CAYNNNNRTG 2 cut(s) 639, 850
SmlI CTYRAG 3 cut(s) 166, 651, 952
SmoI CTYRAG 3 cut(s) 166, 651, 952
Sse9I AATT 3 cut(s) 333, 523, 865
SseBI AGGCCT 2 cut(s) 569, 950
SsiI CCGC 8 cut(s) 95, 132, 136, 208, 316, 318, 871, 1021
SspMI CTAG 3 cut(s) 192, 551, 927
StuI AGGCCT 2 cut(s) 569, 950
StyD4I CCNGG 2 cut(s) 196, 251
StyI CCWWGG 3 cut(s) 126, 385, 820
TaaI ACNGT 5 cut(s) 50, 539, 586, 676, 689
TaiI ACGT 3 cut(s) 156, 330, 747
TaqI TCGA 5 cut(s) 42, 167, 228, 516, 953
TasI AATT 3 cut(s) 333, 523, 865
TatI WGTACW 1 cut(s) 1009
TauI GCSGC 4 cut(s) 135, 138, 318, 1023
TfiI GAWTC 1 cut(s) 831
TscAI CASTG 3 cut(s) 276, 410, 421
TseFI GTSAC 4 cut(s) 170, 367, 580, 670
TseI GCWGC 2 cut(s) 797, 935
Tsp45I GTSAC 4 cut(s) 170, 367, 580, 670
TspDTI ATGAA 1 cut(s) 305
TspGWI ACGGA 3 cut(s) 357, 472, 620
TspRI CASTG 3 cut(s) 276, 410, 421
VpaK11BI GGWCC 1 cut(s) 607
XagI CCTNNNNNAGG 1 cut(s) 195
XceI RCATGY 1 cut(s) 262
XhoI CTCGAG 2 cut(s) 166, 952
XmnI GAANNNNTTC 1 cut(s) 296
XspI CTAG 3 cut(s) 192, 551, 927
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.