Rw7G002960

Pectate lyase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr7
OG0003744
Physical Location & Seq
Forward (+)
2421612 .. 2425309
3698 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw7G002960.1

Sequence Viewer

Length: 879 bp
ATGGCTTGGGACATTAATGGTGTTCGACCACACAAAGGACGGCTTAATGCCTATGGAGATTGGCGAAAGGGGCTAGATTTGCAGGCACTGTTCAGATCAAGCTGGATGCGGGGGGCGGTGAAGCAGAGGCTATTCGATCATGGTAAAGGCACGTTTCTTGTGCCTAGAGCAAGGCGGCAAAGGACTACTCACTCCAATCTGCAAGGGCGGTGGCGCAAGGCTGTGTACTCCGAGGGTGGTGCGCAAATTACTCTGCAGTATGTGCAGAACATCATTATCTGTAACCTTCACGTTCGTGACACCGTTTCCAAGGAAGGTGGCATGGTTAGGGACTCGACGGGTCACTTTGGACTACGTACAGCCAGCGATGGTGACGGAATATCCTTGTTTGGTGCCTCAAACGTTTGGATAGACCATGTTTCTGCCTCAAATTGCGCCGATGGACTCATCGATGTTGTTGCAGGGTCTACTGCCATTACCATATCCAACTCTCACTTCACGGATCATAATGATGTGATGCTGTTTGGTTCAAGCGATAGCTACTATAAGGATGAACTTATGCAGATAACTCTAGCTTTCAACCATTTCGGACAGGGATTGATACAGAGGATGCCAAGGTGCAGATTTGGTTTTTTCCATGTTCTGAACAATGACTACACTCACTGGATTATGTATGCCATCGGTGGCAGCAGCCATCCTACCATACTAAGCCAGGGAAATCGCTACATTGCTCCAGAAAATGCTGCAGCTAAAGAGTCAAACACAGCAAAGAGTGAGTGGAGTAAATGGAGTTGGACATCAGAAGGAGATCTTTTCCTGAATGGAGCGACTTTTACTGAATCTGGAAGCCCGATTCGGAATATCCCACAGAGGATATGA
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

292

Amino Acids

32.66

Weight (kDa)

9.3

Isoelectric Point (pI)

35.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 82 - 250 2.7e-19 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)
Acc16I TGCGCA 1 cut(s) 243
AccB1I GGYRCC 1 cut(s) 392
AccI GTMKAC 1 cut(s) 467
AciI CCGC 4 cut(s) 109, 116, 175, 208
AclI AACGTT 1 cut(s) 402
AclWI GGATC 1 cut(s) 510
AfaI GTAC 2 cut(s) 227, 358
AfiI CCNNNNNNNGG 1 cut(s) 35
AgsI TTSAA 2 cut(s) 531, 580
AjnI CCWGG 1 cut(s) 711
AjuI GAANNNNNNNTTGG 2 cut(s) 479, 511
AleI CACNNNNGTG 1 cut(s) 294
AluBI AGCT 4 cut(s) 102, 540, 575, 749
AluI AGCT 4 cut(s) 102, 540, 575, 749
AlwI GGATC 1 cut(s) 510
AlwNI CAGNNNCTG 1 cut(s) 88
ApeKI GCWGC 4 cut(s) 687, 690, 743, 746
AseI ATTAAT 1 cut(s) 15
AspLEI GCGC 3 cut(s) 216, 244, 437
AsuHPI GGTGA 2 cut(s) 130, 383
BanI GGYRCC 1 cut(s) 392
BbvI GCAGC 4 cut(s) 699, 702, 730, 758
BccI CCATC 4 cut(s) 362, 434, 686, 702
BceAI ACGGC 1 cut(s) 56
BcgI CGANNNNNNTGC 4 cut(s) 221, 255, 440, 474
BciT130I CCWGG 1 cut(s) 713
BfaI CTAG 3 cut(s) 74, 165, 572
BfmI CTRYAG 2 cut(s) 254, 744
BglII AGATCT 1 cut(s) 808
BisI GCNGC 5 cut(s) 176, 688, 691, 744, 747
BlsI GCNGC 5 cut(s) 177, 689, 692, 745, 748
Bme1390I CCNGG 1 cut(s) 713
BmiI GGNNCC 1 cut(s) 394
BmrFI CCNGG 1 cut(s) 713
BmsI GCATC 3 cut(s) 96, 507, 600
BpmI CTGGAG 1 cut(s) 717
Bsa29I ATCGAT 1 cut(s) 450
BsaAI YACGTR 1 cut(s) 356
BsaJI CCNNGG 4 cut(s) 231, 309, 614, 712
Bsc4I CCNNNNNNNGG 1 cut(s) 35
Bse1I ACTGG 1 cut(s) 668
Bse3DI GCAATG 1 cut(s) 726
BseBI CCWGG 1 cut(s) 713
BseCI ATCGAT 1 cut(s) 450
BseDI CCNNGG 4 cut(s) 231, 309, 614, 712
BseGI GGATG 4 cut(s) 111, 556, 615, 694
BseLI CCNNNNNNNGG 1 cut(s) 35
BseMI GCAATG 1 cut(s) 726
BseNI ACTGG 1 cut(s) 668
BseXI GCAGC 4 cut(s) 699, 702, 730, 758
BsgI GTGCAG 2 cut(s) 284, 640
BshNI GGYRCC 1 cut(s) 392
BshVI ATCGAT 1 cut(s) 450
BslFI GGGAC 2 cut(s) 23, 344
BslI CCNNNNNNNGG 1 cut(s) 35
BsmFI GGGAC 2 cut(s) 23, 344
Bsp143I GATC 4 cut(s) 95, 136, 502, 808
BspACI CCGC 4 cut(s) 109, 116, 175, 208
BspDI ATCGAT 1 cut(s) 450
BspLI GGNNCC 1 cut(s) 394
BspMAI CTGCAG 2 cut(s) 258, 748
BspPI GGATC 1 cut(s) 510
BspT107I GGYRCC 1 cut(s) 392
BsrDI GCAATG 1 cut(s) 726
BsrI ACTGG 1 cut(s) 668
BssECI CCNNGG 4 cut(s) 231, 309, 614, 712
BssMI GATC 4 cut(s) 95, 136, 502, 808
BssT1I CCWWGG 2 cut(s) 309, 614
Bst2UI CCWGG 1 cut(s) 713
Bst4CI ACNGT 2 cut(s) 90, 304
BstAPI GCANNNNNTGC 1 cut(s) 262
BstBAI YACGTR 1 cut(s) 356
BstC8I GCNNGC 2 cut(s) 84, 364
BstDEI CTNAG 1 cut(s) 707
BstF5I GGATG 4 cut(s) 111, 556, 615, 694
BstHHI GCGC 3 cut(s) 216, 244, 437
BstKTI GATC 4 cut(s) 98, 139, 505, 811
BstMBI GATC 4 cut(s) 95, 136, 502, 808
BstMWI GCNNNNNNNGC 3 cut(s) 70, 79, 262
BstNI CCWGG 1 cut(s) 713
BstSCI CCNGG 1 cut(s) 711
BstSFI CTRYAG 2 cut(s) 254, 744
BstSNI TACGTA 1 cut(s) 356
BstV1I GCAGC 4 cut(s) 699, 702, 730, 758
BstX2I RGATCY 1 cut(s) 808
BstYI RGATCY 1 cut(s) 808
Bsu15I ATCGAT 1 cut(s) 450
BsuTUI ATCGAT 1 cut(s) 450
BtgZI GCGATG 1 cut(s) 381
BtsCI GGATG 4 cut(s) 111, 556, 615, 694
BtsIMutI CAGTG 2 cut(s) 86, 661
Cac8I GCNNGC 2 cut(s) 84, 364
CaiI CAGNNNCTG 1 cut(s) 88
CfoI GCGC 3 cut(s) 216, 244, 437
ClaI ATCGAT 1 cut(s) 450
Csp6I GTAC 2 cut(s) 226, 357
CspCI CAANNNNNGTGG 4 cut(s) 191, 226, 298, 333
CviAII CATG 4 cut(s) 140, 322, 416, 638
CviQI GTAC 2 cut(s) 226, 357
DdeI CTNAG 1 cut(s) 707
DpnI GATC 4 cut(s) 97, 138, 504, 810
DpnII GATC 4 cut(s) 95, 136, 502, 808
Eco105I TACGTA 1 cut(s) 356
Eco130I CCWWGG 2 cut(s) 309, 614
EcoRII CCWGG 1 cut(s) 711
EcoT14I CCWWGG 2 cut(s) 309, 614
ErhI CCWWGG 2 cut(s) 309, 614
FaeI CATG 4 cut(s) 143, 325, 419, 641
FalI AAGNNNNNCTT 4 cut(s) 27, 59, 795, 827
FaqI GGGAC 2 cut(s) 23, 344
FatI CATG 4 cut(s) 139, 321, 415, 637
FauI CCCGC 1 cut(s) 102
FblI GTMKAC 1 cut(s) 467
Fnu4HI GCNGC 5 cut(s) 176, 688, 691, 744, 747
FokI GGATG 4 cut(s) 118, 563, 622, 681
Fsp4HI GCNGC 5 cut(s) 176, 688, 691, 744, 747
FspBI CTAG 3 cut(s) 74, 165, 572
FspI TGCGCA 1 cut(s) 243
GlaI GCGC 3 cut(s) 215, 243, 436
GluI GCNGC 5 cut(s) 176, 688, 691, 744, 747
GsuI CTGGAG 1 cut(s) 717
HhaI GCGC 3 cut(s) 216, 244, 437
Hin1II CATG 4 cut(s) 143, 325, 419, 641
Hin6I GCGC 3 cut(s) 214, 242, 435
HinP1I GCGC 3 cut(s) 214, 242, 435
HinfI GANTC 5 cut(s) 332, 444, 755, 839, 853
HphI GGTGA 2 cut(s) 130, 383
Hpy166II GTNNAC 2 cut(s) 226, 468
Hpy188I TCNGA 6 cut(s) 95, 232, 590, 645, 802, 858
Hpy188III TCNNGA 4 cut(s) 296, 734, 817, 843
Hpy8I GTNNAC 2 cut(s) 226, 468
Hpy99I CGWCG 1 cut(s) 340
HpyAV CCTTC 3 cut(s) 296, 308, 797
HpyCH4III ACNGT 2 cut(s) 90, 304
HpyCH4IV ACGT 4 cut(s) 152, 291, 355, 402
HpyCH4V TGCA 8 cut(s) 82, 202, 256, 265, 461, 562, 621, 746
HpyF10VI GCNNNNNNNGC 3 cut(s) 70, 79, 262
HpyF3I CTNAG 1 cut(s) 707
HpySE526I ACGT 4 cut(s) 152, 291, 355, 402
Hsp92II CATG 4 cut(s) 143, 325, 419, 641
HspAI GCGC 3 cut(s) 214, 242, 435
Kzo9I GATC 4 cut(s) 95, 136, 502, 808
LmnI GCTCC 2 cut(s) 736, 824
Lsp1109I GCAGC 4 cut(s) 699, 702, 730, 758
LweI GCATC 3 cut(s) 96, 507, 600
MaeI CTAG 3 cut(s) 74, 165, 572
MaeII ACGT 4 cut(s) 152, 291, 355, 402
MaeIII GTNAC 4 cut(s) 281, 296, 341, 371
MalI GATC 4 cut(s) 97, 138, 504, 810
MboI GATC 4 cut(s) 95, 136, 502, 808
MflI RGATCY 1 cut(s) 808
MluCI AATT 2 cut(s) 246, 430
MlyI GAGTC 3 cut(s) 326, 438, 764
MmeI TCCRAC 2 cut(s) 510, 773
MnlI CCTC 6 cut(s) 120, 226, 406, 436, 600, 864
MseI TTAA 2 cut(s) 15, 45
MslI CAYNNNNRTG 2 cut(s) 294, 510
MspR9I CCNGG 1 cut(s) 713
MvaI CCWGG 1 cut(s) 713
MwoI GCNNNNNNNGC 3 cut(s) 70, 79, 262
NdeII GATC 4 cut(s) 95, 136, 502, 808
NlaIII CATG 4 cut(s) 143, 325, 419, 641
NlaIV GGNNCC 1 cut(s) 394
NmuCI GTSAC 3 cut(s) 296, 341, 371
NsbI TGCGCA 1 cut(s) 243
OliI CACNNNNGTG 1 cut(s) 294
PfeI GAWTC 2 cut(s) 839, 853
PkrI GCNGC 5 cut(s) 177, 689, 692, 745, 748
PleI GAGTC 3 cut(s) 326, 438, 763
PpsI GAGTC 3 cut(s) 326, 438, 763
Ppu21I YACGTR 1 cut(s) 356
PshBI ATTAAT 1 cut(s) 15
Psp1406I AACGTT 1 cut(s) 402
Psp6I CCWGG 1 cut(s) 711
PspGI CCWGG 1 cut(s) 711
PspN4I GGNNCC 1 cut(s) 394
PsrI GAACNNNNNNTAC 2 cut(s) 638, 670
PstI CTGCAG 2 cut(s) 258, 748
PstNI CAGNNNCTG 1 cut(s) 88
PsuI RGATCY 1 cut(s) 808
RsaI GTAC 2 cut(s) 227, 358
RsaNI GTAC 2 cut(s) 226, 357
RseI CAYNNNNRTG 2 cut(s) 294, 510
SaqAI TTAA 2 cut(s) 15, 45
SatI GCNGC 5 cut(s) 176, 688, 691, 744, 747
Sau3AI GATC 4 cut(s) 95, 136, 502, 808
SchI GAGTC 3 cut(s) 326, 438, 764
ScrFI CCNGG 1 cut(s) 713
SfaNI GCATC 3 cut(s) 96, 507, 600
SfcI CTRYAG 2 cut(s) 254, 744
SmiMI CAYNNNNRTG 2 cut(s) 294, 510
SnaBI TACGTA 1 cut(s) 356
Sse9I AATT 2 cut(s) 246, 430
SsiI CCGC 4 cut(s) 109, 116, 175, 208
SspMI CTAG 3 cut(s) 74, 165, 572
StyD4I CCNGG 1 cut(s) 711
StyI CCWWGG 2 cut(s) 309, 614
TaaI ACNGT 2 cut(s) 90, 304
TaiI ACGT 4 cut(s) 155, 294, 358, 405
TaqI TCGA 4 cut(s) 25, 135, 335, 450
TasI AATT 2 cut(s) 246, 430
TatI WGTACW 1 cut(s) 225
TauI GCSGC 1 cut(s) 178
TfiI GAWTC 2 cut(s) 839, 853
Tru1I TTAA 2 cut(s) 15, 45
Tru9I TTAA 2 cut(s) 15, 45
TscAI CASTG 2 cut(s) 93, 668
TseFI GTSAC 3 cut(s) 296, 341, 371
TseI GCWGC 4 cut(s) 687, 690, 743, 746
Tsp45I GTSAC 3 cut(s) 296, 341, 371
TspDTI ATGAA 1 cut(s) 567
TspGWI ACGGA 2 cut(s) 390, 515
TspRI CASTG 2 cut(s) 93, 668
VspI ATTAAT 1 cut(s) 15
XmiI GTMKAC 1 cut(s) 467
XspI CTAG 3 cut(s) 74, 165, 572
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.