Rh5DG007500

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0010647
Physical Location & Seq
Forward (+)
471283 .. 472290
1008 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG007500.1

Sequence Viewer

Length: 1008 bp
ATGGTGGATATGAGTATCCGCAACAACGGCACTGAAAGAGAAACCATGAGGAAGCAGCAAGCCTCGTGTAGAACCGGCAATCTCATCGATGACTGTTGGCGTTGTGATCCCAACTGGTTCAACAACCGAAAGCGTCTCGCGGGTTGCGCTATTGGTTTTGGCAAAAATGCCAATGGCGGCGGCCGCGATGGACGCTTTTACGTTGTCTCTGACTCGAGTGACAACGACGCTGTAAACCTTAGACCAGGCACTCTCCGCCACGCTGTCATCCAGATCGAGCCTCTGTGGATCGTCTTCGCCAGGGACATGTTGATCACACTGAAGCAGGAGCTGATCATGAATAGCTTCAAGACCATTGACGGCCGCGGAGTCAACGTTCAAATTGCTTACGGAGCAGGCATAACAATCCAATATGTCACAAACATTATAATCCATGGTGTGTATATCCACCACTGCAAGCCCACTGGCAATGCAATGGTGCAAAGCTTCCCATCTCATTTTGGATGGAGAGGAATGGCTGATGGCGATGCCATCTCCATCTTTGGATCTAGAAACATATGGATCGATCATAATTCGCTCTCCAACTGTTACGATGGCCTTGTAGATGTCGTTGAGGCCTCAACTGCTGTCACCGTCTCTAACAATCTGTTTACGGACCACGACAAGGTGATGCTGTTAGGGCACAATGATGCTTATACTCAAGACAAGGTGATGCAAGTGACCGTTGCTTACAACCGTTTCAGACAGGGACTCGGGCAGAGAAAGCCGCATTGTAGGCACGGTAGTTTCCACGTCCTGAACAATGACTACCCTAACGGGTGGGGGGTATATGCCATTGGTGGAGCTGCAAACCCTACCATCAACAGCCAAGGTAACAGATTCTATGCTGACGCAGTTAAGCATCCCTATACAAATCAGGTTACCAAGAGAATTTCGGGAAGCGAGTCAGAGTGGAAGAGATGGAATTGGAGGTCGTCGGGAGATGTTTTCTTGAAGGAAAAAATATAG
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

335

Amino Acids

37.62

Weight (kDa)

9.03

Isoelectric Point (pI)

32.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 110 - 314 4.8e-22 Pectate lyase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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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) 428
AccII CGCG 3 cut(s) 140, 186, 366
AciI CCGC 9 cut(s) 19, 140, 177, 180, 184, 256, 364, 366, 767
AclI AACGTT 1 cut(s) 375
AclWI GGATC 4 cut(s) 101, 296, 553, 569
AcoI YGGCCR 2 cut(s) 181, 361
AcsI RAATTY 1 cut(s) 930
AcuI CTGAAG 1 cut(s) 341
AfiI CCNNNNNNNGG 1 cut(s) 664
AflIII ACRYGT 1 cut(s) 306
AgsI TTSAA 4 cut(s) 121, 349, 380, 994
AjiI CACGTC 1 cut(s) 793
AjnI CCWGG 2 cut(s) 244, 299
AloI GAACNNNNNNTCC 2 cut(s) 360, 392
AluBI AGCT 4 cut(s) 331, 345, 486, 845
AluI AGCT 4 cut(s) 331, 345, 486, 845
Alw26I GTCTC 3 cut(s) 140, 211, 640
AlwI GGATC 4 cut(s) 101, 296, 553, 569
AlwNI CAGNNNCTG 1 cut(s) 331
Ama87I CYCGRG 2 cut(s) 214, 752
AoxI GGCC 4 cut(s) 181, 361, 595, 615
ApeKI GCWGC 2 cut(s) 55, 845
ApoI RAATTY 1 cut(s) 930
Asp700I GAANNNNTTC 1 cut(s) 344
AspLEI GCGC 1 cut(s) 149
AspS9I GGNCC 1 cut(s) 655
AsuHPI GGTGA 3 cut(s) 622, 679, 721
AvaI CYCGRG 2 cut(s) 214, 752
AvaII GGWCC 1 cut(s) 655
BaeGI GKGCMC 1 cut(s) 684
BauI CACGAG 1 cut(s) 64
BbsI GAAGAC 1 cut(s) 286
BbvI GCAGC 2 cut(s) 67, 832
BccI CCATC 9 cut(s) 182, 498, 499, 515, 539, 545, 587, 866, 954
BceAI ACGGC 2 cut(s) 43, 376
BcgI CGANNNNNNTGC 2 cut(s) 67, 101
BciT130I CCWGG 2 cut(s) 246, 301
BciVI GTATCC 1 cut(s) 26
BclI TGATCA 2 cut(s) 312, 333
BcoDI GTCTC 3 cut(s) 140, 211, 640
BfaI CTAG 1 cut(s) 549
BfuI GTATCC 1 cut(s) 26
BisI GCNGC 7 cut(s) 56, 178, 181, 184, 364, 767, 846
BlsI GCNGC 7 cut(s) 57, 179, 182, 185, 365, 768, 847
Bme1390I CCNGG 2 cut(s) 246, 301
Bme18I GGWCC 1 cut(s) 655
BmeT110I CYCGRG 2 cut(s) 214, 752
BmgBI CACGTC 1 cut(s) 793
BmgT120I GGNCC 1 cut(s) 655
BmrFI CCNGG 2 cut(s) 246, 301
BmsI GCATC 5 cut(s) 517, 660, 679, 702, 910
BpiI GAAGAC 1 cut(s) 286
BpuEI CTTGAG 1 cut(s) 684
Bsa29I ATCGAT 2 cut(s) 87, 564
BsaJI CCNNGG 4 cut(s) 300, 364, 433, 868
BsaXI ACNNNNNCTCC 2 cut(s) 360, 390
Bsc4I CCNNNNNNNGG 1 cut(s) 664
Bse118I RCCGGY 1 cut(s) 74
Bse1I ACTGG 2 cut(s) 119, 469
Bse3DI GCAATG 2 cut(s) 475, 480
BseBI CCWGG 2 cut(s) 246, 301
BseCI ATCGAT 2 cut(s) 87, 564
BseDI CCNNGG 4 cut(s) 300, 364, 433, 868
BseGI GGATG 3 cut(s) 267, 509, 901
BseLI CCNNNNNNNGG 1 cut(s) 664
BseMI GCAATG 2 cut(s) 475, 480
BseNI ACTGG 2 cut(s) 119, 469
BseSI GKGCMC 1 cut(s) 684
BseX3I CGGCCG 2 cut(s) 181, 361
BseXI GCAGC 2 cut(s) 67, 832
Bsh1236I CGCG 3 cut(s) 140, 186, 366
Bsh1285I CGRYCG 2 cut(s) 184, 364
BshFI GGCC 4 cut(s) 183, 363, 597, 617
BshVI ATCGAT 2 cut(s) 87, 564
BsiEI CGRYCG 2 cut(s) 184, 364
BsiHKCI CYCGRG 2 cut(s) 214, 752
BsiSI CCGG 1 cut(s) 75
BslFI GGGAC 2 cut(s) 317, 762
BslI CCNNNNNNNGG 1 cut(s) 664
BsmAI GTCTC 3 cut(s) 140, 211, 640
BsmBI CGTCTC 2 cut(s) 140, 640
BsmFI GGGAC 2 cut(s) 317, 762
BsnI GGCC 4 cut(s) 183, 363, 597, 617
BsoBI CYCGRG 2 cut(s) 214, 752
Bsp1286I GDGCHC 1 cut(s) 684
Bsp143I GATC 8 cut(s) 106, 273, 288, 312, 333, 545, 561, 565
Bsp19I CCATGG 1 cut(s) 433
BspACI CCGC 9 cut(s) 19, 140, 177, 180, 184, 256, 364, 366, 767
BspANI GGCC 4 cut(s) 183, 363, 597, 617
BspDI ATCGAT 2 cut(s) 87, 564
BspFNI CGCG 3 cut(s) 140, 186, 366
BspHI TCATGA 1 cut(s) 336
BspPI GGATC 4 cut(s) 101, 296, 553, 569
BsrDI GCAATG 2 cut(s) 475, 480
BsrFI RCCGGY 1 cut(s) 74
BsrI ACTGG 2 cut(s) 119, 469
BssAI RCCGGY 1 cut(s) 74
BssECI CCNNGG 4 cut(s) 300, 364, 433, 868
BssMI GATC 8 cut(s) 106, 273, 288, 312, 333, 545, 561, 565
BssSI CACGAG 1 cut(s) 64
BssT1I CCWWGG 2 cut(s) 433, 868
Bst2BI CACGAG 1 cut(s) 64
Bst2UI CCWGG 2 cut(s) 246, 301
Bst4CI ACNGT 6 cut(s) 95, 587, 634, 724, 737, 782
Bst6I CTCTTC 1 cut(s) 950
BstC8I GCNNGC 3 cut(s) 60, 397, 458
BstDEI CTNAG 1 cut(s) 239
BstDSI CCRYGG 2 cut(s) 364, 433
BstEII GGTNACC 1 cut(s) 919
BstF5I GGATG 3 cut(s) 267, 509, 901
BstFNI CGCG 3 cut(s) 140, 186, 366
BstHHI GCGC 1 cut(s) 149
BstKTI GATC 8 cut(s) 109, 276, 291, 315, 336, 548, 564, 568
BstMAI GTCTC 3 cut(s) 140, 211, 640
BstMBI GATC 8 cut(s) 106, 273, 288, 312, 333, 545, 561, 565
BstMCI CGRYCG 2 cut(s) 184, 364
BstNI CCWGG 2 cut(s) 246, 301
BstNSI RCATGY 1 cut(s) 310
BstPI GGTNACC 1 cut(s) 919
BstSCI CCNGG 2 cut(s) 244, 299
BstSLI GKGCMC 1 cut(s) 684
BstUI CGCG 3 cut(s) 140, 186, 366
BstV1I GCAGC 2 cut(s) 67, 832
BstV2I GAAGAC 1 cut(s) 286
BstX2I RGATCY 1 cut(s) 545
BstYI RGATCY 1 cut(s) 545
BstZI CGGCCG 2 cut(s) 181, 361
Bsu15I ATCGAT 2 cut(s) 87, 564
BsuI GTATCC 1 cut(s) 26
BsuRI GGCC 4 cut(s) 183, 363, 597, 617
BsuTUI ATCGAT 2 cut(s) 87, 564
BtgI CCRYGG 2 cut(s) 364, 433
BtgZI GCGATG 2 cut(s) 201, 540
BtrI CACGTC 1 cut(s) 793
BtsCI GGATG 3 cut(s) 267, 509, 901
BtsI GCAGTG 1 cut(s) 451
BtsIMutI CAGTG 4 cut(s) 30, 317, 451, 462
Cac8I GCNNGC 3 cut(s) 60, 397, 458
CaiI CAGNNNCTG 1 cut(s) 331
CciI TCATGA 1 cut(s) 336
CciNI GCGGCCGC 1 cut(s) 181
CfoI GCGC 1 cut(s) 149
Cfr10I RCCGGY 1 cut(s) 74
Cfr13I GGNCC 1 cut(s) 655
Cfr42I CCGCGG 1 cut(s) 367
ClaI ATCGAT 2 cut(s) 87, 564
CseI GACGC 4 cut(s) 122, 201, 236, 899
CviAII CATG 4 cut(s) 46, 307, 337, 434
DdeI CTNAG 1 cut(s) 239
DpnI GATC 8 cut(s) 108, 275, 290, 314, 335, 547, 563, 567
DpnII GATC 8 cut(s) 106, 273, 288, 312, 333, 545, 561, 565
EaeI YGGCCR 2 cut(s) 181, 361
EagI CGGCCG 2 cut(s) 181, 361
Eam1104I CTCTTC 1 cut(s) 950
EarI CTCTTC 1 cut(s) 950
EciI GGCGGA 1 cut(s) 245
EclXI CGGCCG 2 cut(s) 181, 361
Eco130I CCWWGG 2 cut(s) 433, 868
Eco147I AGGCCT 1 cut(s) 617
Eco47I GGWCC 1 cut(s) 655
Eco52I CGGCCG 2 cut(s) 181, 361
Eco57I CTGAAG 1 cut(s) 341
Eco88I CYCGRG 2 cut(s) 214, 752
Eco91I GGTNACC 1 cut(s) 919
EcoO65I GGTNACC 1 cut(s) 919
EcoRII CCWGG 2 cut(s) 244, 299
EcoT14I CCWWGG 2 cut(s) 433, 868
ErhI CCWWGG 2 cut(s) 433, 868
Esp3I CGTCTC 2 cut(s) 140, 640
FaeI CATG 4 cut(s) 49, 310, 340, 437
FaqI GGGAC 2 cut(s) 317, 762
FatI CATG 4 cut(s) 45, 306, 336, 433
FauI CCCGC 1 cut(s) 133
FauNDI CATATG 1 cut(s) 557
FbaI TGATCA 2 cut(s) 312, 333
Fnu4HI GCNGC 7 cut(s) 56, 178, 181, 184, 364, 767, 846
FokI GGATG 3 cut(s) 254, 516, 888
Fsp4HI GCNGC 7 cut(s) 56, 178, 181, 184, 364, 767, 846
FspBI CTAG 1 cut(s) 549
GlaI GCGC 1 cut(s) 148
GluI GCNGC 7 cut(s) 56, 178, 181, 184, 364, 767, 846
HaeIII GGCC 4 cut(s) 183, 363, 597, 617
HapII CCGG 1 cut(s) 75
HgaI GACGC 4 cut(s) 122, 201, 236, 899
HhaI GCGC 1 cut(s) 149
Hin1II CATG 4 cut(s) 49, 310, 340, 437
Hin6I GCGC 1 cut(s) 147
HinP1I GCGC 1 cut(s) 147
HincII GTYRAC 1 cut(s) 373
HindII GTYRAC 1 cut(s) 373
HindIII AAGCTT 1 cut(s) 484
HinfI GANTC 5 cut(s) 212, 369, 750, 879, 944
HpaII CCGG 1 cut(s) 75
HphI GGTGA 3 cut(s) 622, 679, 721
Hpy166II GTNNAC 3 cut(s) 235, 373, 651
Hpy188I TCNGA 3 cut(s) 211, 743, 949
Hpy188III TCNNGA 9 cut(s) 271, 337, 349, 549, 701, 796, 936, 978, 991
Hpy8I GTNNAC 3 cut(s) 235, 373, 651
Hpy99I CGWCG 2 cut(s) 230, 979
HpyAV CCTTC 1 cut(s) 988
HpyCH4III ACNGT 6 cut(s) 95, 587, 634, 724, 737, 782
HpyCH4IV ACGT 3 cut(s) 201, 375, 792
HpyCH4V TGCA 5 cut(s) 456, 473, 481, 715, 848
HpyF3I CTNAG 1 cut(s) 239
HpySE526I ACGT 3 cut(s) 201, 375, 792
Hsp92II CATG 4 cut(s) 49, 310, 340, 437
HspAI GCGC 1 cut(s) 147
Ksp22I TGATCA 2 cut(s) 312, 333
KspI CCGCGG 1 cut(s) 367
Kzo9I GATC 8 cut(s) 106, 273, 288, 312, 333, 545, 561, 565
LmnI GCTCC 3 cut(s) 328, 392, 842
Lsp1109I GCAGC 2 cut(s) 67, 832
LweI GCATC 5 cut(s) 517, 660, 679, 702, 910
MaeI CTAG 1 cut(s) 549
MaeII ACGT 3 cut(s) 201, 375, 792
MaeIII GTNAC 7 cut(s) 218, 415, 587, 628, 718, 872, 919
MalI GATC 8 cut(s) 108, 275, 290, 314, 335, 547, 563, 567
MboI GATC 8 cut(s) 106, 273, 288, 312, 333, 545, 561, 565
MboII GAAGA 2 cut(s) 286, 967
MflI RGATCY 1 cut(s) 545
MhlI GDGCHC 1 cut(s) 684
MluCI AATT 4 cut(s) 381, 571, 930, 964
MlyI GAGTC 4 cut(s) 206, 378, 744, 953
MmeI TCCRAC 1 cut(s) 606
MnlI CCTC 7 cut(s) 42, 73, 291, 503, 607, 628, 963
MroXI GAANNNNTTC 1 cut(s) 344
MseI TTAA 1 cut(s) 897
MslI CAYNNNNRTG 1 cut(s) 687
MspA1I CMGCKG 1 cut(s) 366
MspI CCGG 1 cut(s) 75
MspR9I CCNGG 2 cut(s) 246, 301
MvaI CCWGG 2 cut(s) 246, 301
MvnI CGCG 3 cut(s) 140, 186, 366
NcoI CCATGG 1 cut(s) 433
NdeI CATATG 1 cut(s) 557
NdeII GATC 8 cut(s) 106, 273, 288, 312, 333, 545, 561, 565
NlaIII CATG 4 cut(s) 49, 310, 340, 437
NmuCI GTSAC 4 cut(s) 218, 415, 628, 718
NotI GCGGCCGC 1 cut(s) 181
NspI RCATGY 1 cut(s) 310
PaeR7I CTCGAG 1 cut(s) 214
PagI TCATGA 1 cut(s) 336
PceI AGGCCT 1 cut(s) 617
PciI ACATGT 1 cut(s) 306
PdmI GAANNNNTTC 1 cut(s) 344
PfeI GAWTC 1 cut(s) 879
PkrI GCNGC 7 cut(s) 57, 179, 182, 185, 365, 768, 847
PleI GAGTC 4 cut(s) 206, 377, 744, 952
PpsI GAGTC 4 cut(s) 206, 377, 744, 952
PscI ACATGT 1 cut(s) 306
PsiI TTATAA 1 cut(s) 428
Psp1406I AACGTT 1 cut(s) 375
Psp6I CCWGG 2 cut(s) 244, 299
PspEI GGTNACC 1 cut(s) 919
PspGI CCWGG 2 cut(s) 244, 299
PspPI GGNCC 1 cut(s) 655
PspXI VCTCGAGB 1 cut(s) 214
PsrI GAACNNNNNNTAC 2 cut(s) 791, 823
PstNI CAGNNNCTG 1 cut(s) 331
PsuI RGATCY 1 cut(s) 545
RseI CAYNNNNRTG 1 cut(s) 687
SacII CCGCGG 1 cut(s) 367
SaqAI TTAA 1 cut(s) 897
SatI GCNGC 7 cut(s) 56, 178, 181, 184, 364, 767, 846
Sau3AI GATC 8 cut(s) 106, 273, 288, 312, 333, 545, 561, 565
Sau96I GGNCC 1 cut(s) 655
SchI GAGTC 4 cut(s) 206, 378, 744, 953
ScrFI CCNGG 2 cut(s) 246, 301
SduI GDGCHC 1 cut(s) 684
SfaNI GCATC 5 cut(s) 517, 660, 679, 702, 910
Sfr274I CTCGAG 1 cut(s) 214
Sfr303I CCGCGG 1 cut(s) 367
SgrBI CCGCGG 1 cut(s) 367
SinI GGWCC 1 cut(s) 655
SlaI CTCGAG 1 cut(s) 214
SmiMI CAYNNNNRTG 1 cut(s) 687
SmlI CTYRAG 2 cut(s) 214, 699
SmoI CTYRAG 2 cut(s) 214, 699
Sse9I AATT 4 cut(s) 381, 571, 930, 964
SseBI AGGCCT 1 cut(s) 617
SsiI CCGC 9 cut(s) 19, 140, 177, 180, 184, 256, 364, 366, 767
SspMI CTAG 1 cut(s) 549
StuI AGGCCT 1 cut(s) 617
StyD4I CCNGG 2 cut(s) 244, 299
StyI CCWWGG 2 cut(s) 433, 868
TaaI ACNGT 6 cut(s) 95, 587, 634, 724, 737, 782
TaiI ACGT 3 cut(s) 204, 378, 795
TaqI TCGA 4 cut(s) 87, 215, 276, 564
TasI AATT 4 cut(s) 381, 571, 930, 964
TauI GCSGC 5 cut(s) 180, 183, 186, 366, 769
TfiI GAWTC 1 cut(s) 879
Tru1I TTAA 1 cut(s) 897
Tru9I TTAA 1 cut(s) 897
TscAI CASTG 4 cut(s) 37, 324, 458, 469
TseFI GTSAC 4 cut(s) 218, 415, 628, 718
TseI GCWGC 2 cut(s) 55, 845
Tsp45I GTSAC 4 cut(s) 218, 415, 628, 718
TspDTI ATGAA 1 cut(s) 353
TspGWI ACGGA 2 cut(s) 405, 668
TspRI CASTG 4 cut(s) 37, 324, 458, 469
VpaK11BI GGWCC 1 cut(s) 655
XapI RAATTY 1 cut(s) 930
XbaI TCTAGA 1 cut(s) 548
XceI RCATGY 1 cut(s) 310
XhoI CTCGAG 1 cut(s) 214
XmnI GAANNNNTTC 1 cut(s) 344
XspI CTAG 1 cut(s) 549
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.