RchiOBHm_Chr7g0218091

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
7
OG0008415
Physical Location & Seq
Reverse (-)
36044492 .. 36045557
1066 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ19522

Sequence Viewer

Length: 981 bp
ATGGCTTCTCAATACTGCTTTGTTTTGGTTAATGTCATCATTCTCCTCTGCAGCTTGGGTCCGAACCTGAGTTTGGCAAAGGAAACAAAAGTCCATGGCTTGAAAATGAACGCAATTGATGGTTGCTGGAGATGGAATCCAAATTGGAGAAGCAACCGCCAGCAACTCGCAATGTGTTCGGTAGGATTTGCCGGAAAAATGAGCAACAACATAGGAAAAGATGTCATAAACTATGAAGTAACAGATCCCAGTGACAATGCATTAAATCCCCAACCAGGCACTTTGAGATATGGAGCTACTATGATCAAGGGCAAAAAATGGATCACATTCCAGAGGGACATGAAAATTAAACTCGAGAAACCATTGCTCGTTAGTAGCTTCACTGCAATTGATGGAAGAGGTGCTAATGTCCACATACAAGGTAACGCGTGCTTGAGAGTGTTCAAAGCAACCAATGTTATCATACATGGCCTTCGAATCCACCACTGCAAATCGCAGCCACCGACCACGGTTATGGGTCCGAACGGAATAGTTTCACTAGGAGCGGTTGATGGAGACGCAATAAGGTTGGTTACTGCATCAAAGGTTTGGATAGACCACAATACACTATACGAGTGTGAGGATGGTCTTCTCGACGTCACTCGTGGATCAACCGATGTCACCGTCTCCAACAACTGGTTCAGAAACCAGGACAAGGTAATGCTTCTCGGCCATGATGATGGCTTCCTTCGGGACAAGAACATGAAGGTGACTGTAGTGTACAATCATTTTGGACCACTCTGCAATCAGAGAATGCCAAGGATTCGCCATGGATATGCACATGTCGTAAACAACTTGTACAGGGAATGGACACAGTATGCAATTGGGGGAAGCATGAACCCTAGTGTTAAAAGCGAAGCCAACCTCTTCATTGCACCAAAACAAAACAAAGAGGTAAGTTTACAAGAATTAAGTAATGCAGGCCACAAGAGATATATGTAA
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

326

Amino Acids

36.47

Weight (kDa)

9.41

Isoelectric Point (pI)

30.65

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 123 - 311 2.5e-26 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)
AatII GACGTC 1 cut(s) 639
AccB7I CCANNNNNTGG 1 cut(s) 675
AccBSI CCGCTC 1 cut(s) 545
AccII CGCG 1 cut(s) 428
AciI CCGC 2 cut(s) 157, 545
AclWI GGATC 3 cut(s) 239, 329, 655
AcoI YGGCCR 1 cut(s) 709
AcyI GRCGYC 1 cut(s) 636
AfaI GTAC 2 cut(s) 761, 839
AfiI CCNNNNNNNGG 4 cut(s) 73, 275, 675, 694
AflIII ACRYGT 2 cut(s) 426, 820
AgsI TTSAA 2 cut(s) 103, 445
AjnI CCWGG 2 cut(s) 274, 687
AjuI GAANNNNNNNTTGG 4 cut(s) 56, 88, 662, 694
AluBI AGCT 3 cut(s) 54, 296, 378
AluI AGCT 3 cut(s) 54, 296, 378
Alw26I GTCTC 2 cut(s) 549, 670
AlwI GGATC 3 cut(s) 239, 329, 655
Ama87I CYCGRG 1 cut(s) 353
AoxI GGCC 3 cut(s) 469, 709, 961
ApeKI GCWGC 2 cut(s) 51, 496
Asp700I GAANNNNTTC 1 cut(s) 532
AspS9I GGNCC 3 cut(s) 59, 518, 773
AsuHPI GGTGA 2 cut(s) 652, 760
AsuII TTCGAA 1 cut(s) 475
AvaI CYCGRG 1 cut(s) 353
AvaII GGWCC 3 cut(s) 59, 518, 773
BauI CACGAG 1 cut(s) 642
BbsI GAAGAC 1 cut(s) 620
BbvI GCAGC 2 cut(s) 63, 508
BccI CCATC 6 cut(s) 113, 126, 386, 545, 617, 713
BcgI CGANNNNNNTGC 2 cut(s) 159, 193
BciT130I CCWGG 2 cut(s) 276, 689
BclI TGATCA 1 cut(s) 303
BcoDI GTCTC 2 cut(s) 549, 670
BfaI CTAG 2 cut(s) 539, 882
BfmI CTRYAG 2 cut(s) 49, 753
BisI GCNGC 2 cut(s) 52, 497
BlsI GCNGC 2 cut(s) 53, 498
Bme1390I CCNGG 2 cut(s) 276, 689
Bme18I GGWCC 3 cut(s) 59, 518, 773
BmeT110I CYCGRG 1 cut(s) 353
BmgT120I GGNCC 3 cut(s) 59, 518, 773
BmiI GGNNCC 2 cut(s) 60, 519
BmrFI CCNGG 2 cut(s) 276, 689
BmrI ACTGGG 1 cut(s) 243
BmsI GCATC 1 cut(s) 587
BmuI ACTGGG 1 cut(s) 243
BpiI GAAGAC 1 cut(s) 620
BpmI CTGGAG 1 cut(s) 148
Bpu14I TTCGAA 1 cut(s) 475
BpuEI CTTGAG 1 cut(s) 454
BsaHI GRCGYC 1 cut(s) 636
BsaJI CCNNGG 4 cut(s) 94, 507, 797, 808
Bsc4I CCNNNNNNNGG 4 cut(s) 73, 275, 675, 694
Bse1I ACTGG 2 cut(s) 249, 680
Bse3DI GCAATG 3 cut(s) 177, 362, 909
BseBI CCWGG 2 cut(s) 276, 689
BseDI CCNNGG 4 cut(s) 94, 507, 797, 808
BseGI GGATG 1 cut(s) 628
BseLI CCNNNNNNNGG 4 cut(s) 73, 275, 675, 694
BseMI GCAATG 3 cut(s) 177, 362, 909
BseMII CTCAG 1 cut(s) 59
BseNI ACTGG 2 cut(s) 249, 680
BseRI GAGGAG 1 cut(s) 35
BseXI GCAGC 2 cut(s) 63, 508
Bsh1236I CGCG 1 cut(s) 428
BshFI GGCC 3 cut(s) 471, 711, 963
BsiHKCI CYCGRG 1 cut(s) 353
BsiSI CCGG 1 cut(s) 192
BslFI GGGAC 2 cut(s) 350, 746
BslI CCNNNNNNNGG 4 cut(s) 73, 275, 675, 694
BsmAI GTCTC 2 cut(s) 549, 670
BsmBI CGTCTC 2 cut(s) 549, 670
BsmFI GGGAC 2 cut(s) 350, 746
BsmI GAATGC 1 cut(s) 798
BsnI GGCC 3 cut(s) 471, 711, 963
BsoBI CYCGRG 1 cut(s) 353
Bsp119I TTCGAA 1 cut(s) 475
Bsp1407I TGTACA 2 cut(s) 759, 837
Bsp143I GATC 4 cut(s) 244, 303, 321, 647
Bsp19I CCATGG 2 cut(s) 94, 808
BspACI CCGC 2 cut(s) 157, 545
BspANI GGCC 3 cut(s) 471, 711, 963
BspCNI CTCAG 1 cut(s) 60
BspFNI CGCG 1 cut(s) 428
BspLI GGNNCC 2 cut(s) 60, 519
BspMAI CTGCAG 1 cut(s) 53
BspPI GGATC 3 cut(s) 239, 329, 655
BspT104I TTCGAA 1 cut(s) 475
BsrBI CCGCTC 1 cut(s) 545
BsrDI GCAATG 3 cut(s) 177, 362, 909
BsrGI TGTACA 2 cut(s) 759, 837
BsrI ACTGG 2 cut(s) 249, 680
BssECI CCNNGG 4 cut(s) 94, 507, 797, 808
BssMI GATC 4 cut(s) 244, 303, 321, 647
BssNI GRCGYC 1 cut(s) 636
BssSI CACGAG 1 cut(s) 642
BssT1I CCWWGG 3 cut(s) 94, 797, 808
Bst2BI CACGAG 1 cut(s) 642
Bst2UI CCWGG 2 cut(s) 276, 689
Bst4CI ACNGT 4 cut(s) 511, 664, 754, 855
Bst6I CTCTTC 2 cut(s) 391, 911
BstACI GRCGYC 1 cut(s) 636
BstAUI TGTACA 2 cut(s) 759, 837
BstBI TTCGAA 1 cut(s) 475
BstC8I GCNNGC 3 cut(s) 161, 430, 961
BstDEI CTNAG 1 cut(s) 68
BstDSI CCRYGG 3 cut(s) 94, 507, 808
BstF5I GGATG 1 cut(s) 628
BstFNI CGCG 1 cut(s) 428
BstKTI GATC 4 cut(s) 247, 306, 324, 650
BstMAI GTCTC 2 cut(s) 549, 670
BstMBI GATC 4 cut(s) 244, 303, 321, 647
BstNI CCWGG 2 cut(s) 276, 689
BstNSI RCATGY 1 cut(s) 824
BstSCI CCNGG 2 cut(s) 274, 687
BstSFI CTRYAG 2 cut(s) 49, 753
BstUI CGCG 1 cut(s) 428
BstV1I GCAGC 2 cut(s) 63, 508
BstV2I GAAGAC 1 cut(s) 620
BstX2I RGATCY 1 cut(s) 244
BstXI CCANNNNNNTGG 2 cut(s) 514, 719
BstYI RGATCY 1 cut(s) 244
BsuRI GGCC 3 cut(s) 471, 711, 963
BtgI CCRYGG 3 cut(s) 94, 507, 808
BtsCI GGATG 1 cut(s) 628
BtsI GCAGTG 2 cut(s) 381, 484
BtsIMutI CAGTG 3 cut(s) 256, 381, 484
Cac8I GCNNGC 3 cut(s) 161, 430, 961
Cfr13I GGNCC 3 cut(s) 59, 518, 773
CseI GACGC 1 cut(s) 566
Csp6I GTAC 2 cut(s) 760, 838
CviAII CATG 8 cut(s) 95, 340, 467, 713, 742, 809, 821, 874
CviQI GTAC 2 cut(s) 760, 838
DdeI CTNAG 1 cut(s) 68
DpnI GATC 4 cut(s) 246, 305, 323, 649
DpnII GATC 4 cut(s) 244, 303, 321, 647
EaeI YGGCCR 1 cut(s) 709
Eam1104I CTCTTC 2 cut(s) 391, 911
EarI CTCTTC 2 cut(s) 391, 911
Eco130I CCWWGG 3 cut(s) 94, 797, 808
Eco47I GGWCC 3 cut(s) 59, 518, 773
Eco88I CYCGRG 1 cut(s) 353
EcoRII CCWGG 2 cut(s) 274, 687
EcoT14I CCWWGG 3 cut(s) 94, 797, 808
EcoT22I ATGCAT 1 cut(s) 262
ErhI CCWWGG 3 cut(s) 94, 797, 808
Esp3I CGTCTC 2 cut(s) 549, 670
FaeI CATG 8 cut(s) 98, 343, 470, 716, 745, 812, 824, 877
FaqI GGGAC 2 cut(s) 350, 746
FatI CATG 8 cut(s) 94, 339, 466, 712, 741, 808, 820, 873
FbaI TGATCA 1 cut(s) 303
Fnu4HI GCNGC 2 cut(s) 52, 497
FokI GGATG 1 cut(s) 635
Fsp4HI GCNGC 2 cut(s) 52, 497
FspBI CTAG 2 cut(s) 539, 882
GluI GCNGC 2 cut(s) 52, 497
GsuI CTGGAG 1 cut(s) 148
HaeIII GGCC 3 cut(s) 471, 711, 963
HapII CCGG 1 cut(s) 192
HgaI GACGC 1 cut(s) 566
Hin1I GRCGYC 1 cut(s) 636
Hin1II CATG 8 cut(s) 98, 343, 470, 716, 745, 812, 824, 877
HinfI GANTC 3 cut(s) 136, 477, 802
HpaII CCGG 1 cut(s) 192
HphI GGTGA 2 cut(s) 652, 760
Hpy166II GTNNAC 4 cut(s) 412, 760, 829, 941
Hpy188I TCNGA 4 cut(s) 63, 522, 683, 789
Hpy188III TCNNGA 4 cut(s) 331, 355, 632, 731
Hpy8I GTNNAC 4 cut(s) 412, 760, 829, 941
Hpy99I CGWCG 1 cut(s) 638
HpyAV CCTTC 3 cut(s) 482, 737, 739
HpyCH4III ACNGT 4 cut(s) 511, 664, 754, 855
HpyCH4IV ACGT 1 cut(s) 636
HpyF3I CTNAG 1 cut(s) 68
HpySE526I ACGT 1 cut(s) 636
Hsp92I GRCGYC 1 cut(s) 636
Hsp92II CATG 8 cut(s) 98, 343, 470, 716, 745, 812, 824, 877
Ksp22I TGATCA 1 cut(s) 303
Kzo9I GATC 4 cut(s) 244, 303, 321, 647
LmnI GCTCC 2 cut(s) 293, 542
Lsp1109I GCAGC 2 cut(s) 63, 508
LweI GCATC 1 cut(s) 587
MaeI CTAG 2 cut(s) 539, 882
MaeII ACGT 1 cut(s) 636
MaeIII GTNAC 7 cut(s) 238, 251, 422, 571, 637, 658, 748
MalI GATC 4 cut(s) 246, 305, 323, 649
MbiI CCGCTC 1 cut(s) 545
MboI GATC 4 cut(s) 244, 303, 321, 647
MboII GAAGA 3 cut(s) 408, 620, 898
MfeI CAATTG 3 cut(s) 114, 387, 861
MflI RGATCY 1 cut(s) 244
MluCI AATT 6 cut(s) 114, 142, 345, 387, 861, 947
MluI ACGCGT 1 cut(s) 426
MmeI TCCRAC 1 cut(s) 693
MnlI CCTC 6 cut(s) 56, 327, 392, 613, 914, 925
Mph1103I ATGCAT 1 cut(s) 262
MroXI GAANNNNTTC 1 cut(s) 532
MseI TTAA 5 cut(s) 30, 263, 348, 888, 950
MslI CAYNNNNRTG 4 cut(s) 512, 717, 746, 813
MspI CCGG 1 cut(s) 192
MspR9I CCNGG 2 cut(s) 276, 689
MunI CAATTG 3 cut(s) 114, 387, 861
Mva1269I GAATGC 1 cut(s) 798
MvaI CCWGG 2 cut(s) 276, 689
MvnI CGCG 1 cut(s) 428
NcoI CCATGG 2 cut(s) 94, 808
NdeII GATC 4 cut(s) 244, 303, 321, 647
NlaIII CATG 8 cut(s) 98, 343, 470, 716, 745, 812, 824, 877
NlaIV GGNNCC 2 cut(s) 60, 519
NmeAIII GCCGAG 1 cut(s) 687
NmuCI GTSAC 4 cut(s) 251, 637, 658, 748
NsiI ATGCAT 1 cut(s) 262
NspI RCATGY 1 cut(s) 824
NspV TTCGAA 1 cut(s) 475
PaeR7I CTCGAG 1 cut(s) 353
PciI ACATGT 1 cut(s) 820
PcsI WCGNNNNNNNCGW 1 cut(s) 500
PctI GAATGC 1 cut(s) 798
PdmI GAANNNNTTC 1 cut(s) 532
PfeI GAWTC 3 cut(s) 136, 477, 802
PflMI CCANNNNNTGG 1 cut(s) 675
PkrI GCNGC 2 cut(s) 53, 498
PscI ACATGT 1 cut(s) 820
Psp6I CCWGG 2 cut(s) 274, 687
PspGI CCWGG 2 cut(s) 274, 687
PspN4I GGNNCC 2 cut(s) 60, 519
PspPI GGNCC 3 cut(s) 59, 518, 773
PstI CTGCAG 1 cut(s) 53
PsuI RGATCY 1 cut(s) 244
RsaI GTAC 2 cut(s) 761, 839
RsaNI GTAC 2 cut(s) 760, 838
RseI CAYNNNNRTG 4 cut(s) 512, 717, 746, 813
SaqAI TTAA 5 cut(s) 30, 263, 348, 888, 950
SatI GCNGC 2 cut(s) 52, 497
Sau3AI GATC 4 cut(s) 244, 303, 321, 647
Sau96I GGNCC 3 cut(s) 59, 518, 773
ScrFI CCNGG 2 cut(s) 276, 689
SfaNI GCATC 1 cut(s) 587
SfcI CTRYAG 2 cut(s) 49, 753
Sfr274I CTCGAG 1 cut(s) 353
SfuI TTCGAA 1 cut(s) 475
SinI GGWCC 3 cut(s) 59, 518, 773
SlaI CTCGAG 1 cut(s) 353
SmiMI CAYNNNNRTG 4 cut(s) 512, 717, 746, 813
SmlI CTYRAG 2 cut(s) 353, 433
SmoI CTYRAG 2 cut(s) 353, 433
Sse9I AATT 6 cut(s) 114, 142, 345, 387, 861, 947
SsiI CCGC 2 cut(s) 157, 545
SspMI CTAG 2 cut(s) 539, 882
StyD4I CCNGG 2 cut(s) 274, 687
StyI CCWWGG 3 cut(s) 94, 797, 808
TaaI ACNGT 4 cut(s) 511, 664, 754, 855
TaiI ACGT 1 cut(s) 639
TaqI TCGA 3 cut(s) 354, 475, 633
TasI AATT 6 cut(s) 114, 142, 345, 387, 861, 947
TatI WGTACW 2 cut(s) 759, 837
TfiI GAWTC 3 cut(s) 136, 477, 802
Tru1I TTAA 5 cut(s) 30, 263, 348, 888, 950
Tru9I TTAA 5 cut(s) 30, 263, 348, 888, 950
TscAI CASTG 3 cut(s) 256, 388, 491
TseFI GTSAC 4 cut(s) 251, 637, 658, 748
TseI GCWGC 2 cut(s) 51, 496
Tsp45I GTSAC 4 cut(s) 251, 637, 658, 748
TspDTI ATGAA 6 cut(s) 122, 249, 356, 758, 890, 898
TspGWI ACGGA 1 cut(s) 540
TspRI CASTG 3 cut(s) 256, 388, 491
Van91I CCANNNNNTGG 1 cut(s) 675
VpaK11BI GGWCC 3 cut(s) 59, 518, 773
XceI RCATGY 1 cut(s) 824
XhoI CTCGAG 1 cut(s) 353
XmnI GAANNNNTTC 1 cut(s) 532
XspI CTAG 2 cut(s) 539, 882
ZraI GACGTC 1 cut(s) 637
Zsp2I ATGCAT 1 cut(s) 262
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.