Rw3G013120

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0009024
Physical Location & Seq
Reverse (-)
12942267 .. 12945230
2964 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G013120.1

Sequence Viewer

Length: 492 bp
ATGCTAATCGGAGCAGACCCCTCTCATGTAGATGACAGATGCATCCGGGTTACAATTCACCACTGTTTCTTTGATGGGACCCGACAGCGGCATCCTCGTGTTAGATTCGCCAAAGTACATCTATACAACAATTACACCCGAAACTGGGGCATATATGCTGTTTGTGCCAGTGTAGAATCACAGATATACTCTCAATGCAATATATATGAAGCAGGACAGAAGAAAATAGCGTTTAAATACCTTACAGAGAAGGCAGTGGACAGGGAGGCGGCAACGACTGGCTTCATTAGGTCGGAAGGGGACTTATTCATAACTGGAACTCAAGCAGGATTAGCCACCGAGGGTGGTGAAAATTGCATGTTTCATCCTAGCCAACACTACCAGACATGGACAGTAGGACCTCCAGTGGATGATCTGAAACATGTTCTCCAACATTGCACCGGATGGCAGTCCATTCCCCGGCCAGCTGATCAGGCAAGTGTAGCACAGTAA
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

163

Amino Acids

18.4

Weight (kDa)

7.1

Isoelectric Point (pI)

30.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 1 - 76 1.3e-10 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)
AciI CCGC 2 cut(s) 88, 269
AcoI YGGCCR 1 cut(s) 461
AfaI GTAC 1 cut(s) 117
AfiI CCNNNNNNNGG 4 cut(s) 87, 144, 145, 459
AflIII ACRYGT 1 cut(s) 421
AluBI AGCT 1 cut(s) 467
AluI AGCT 1 cut(s) 467
AoxI GGCC 1 cut(s) 461
AspS9I GGNCC 2 cut(s) 78, 398
AsuC2I CCSGG 2 cut(s) 47, 460
AsuHPI GGTGA 2 cut(s) 50, 359
AvaII GGWCC 2 cut(s) 78, 398
BauI CACGAG 1 cut(s) 96
BccI CCATC 2 cut(s) 68, 438
BclI TGATCA 1 cut(s) 469
BcnI CCSGG 2 cut(s) 47, 460
BfaI CTAG 1 cut(s) 369
BisI GCNGC 2 cut(s) 89, 270
BlsI GCNGC 2 cut(s) 90, 271
Bme1390I CCNGG 2 cut(s) 47, 460
Bme18I GGWCC 2 cut(s) 78, 398
BmgT120I GGNCC 2 cut(s) 78, 398
BmiI GGNNCC 2 cut(s) 79, 80
BmrFI CCNGG 2 cut(s) 47, 460
BmrI ACTGGG 1 cut(s) 154
BmsI GCATC 3 cut(s) 29, 51, 100
BmuI ACTGGG 1 cut(s) 154
BpmI CTGGAG 1 cut(s) 387
BpuEI CTTGAG 1 cut(s) 306
BpuMI CCSGG 2 cut(s) 47, 460
BsaJI CCNNGG 2 cut(s) 339, 458
BsaWI WCCGGW 1 cut(s) 440
BsaXI ACNNNNNCTCC 2 cut(s) 411, 441
Bsc4I CCNNNNNNNGG 4 cut(s) 87, 144, 145, 459
Bse1I ACTGG 5 cut(s) 149, 168, 283, 319, 404
Bse3DI GCAATG 1 cut(s) 433
BseDI CCNNGG 2 cut(s) 339, 458
BseGI GGATG 5 cut(s) 42, 91, 364, 415, 449
BseLI CCNNNNNNNGG 4 cut(s) 87, 144, 145, 459
BseMI GCAATG 1 cut(s) 433
BseNI ACTGG 5 cut(s) 149, 168, 283, 319, 404
BshFI GGCC 1 cut(s) 463
BsiSI CCGG 3 cut(s) 46, 441, 460
BslFI GGGAC 2 cut(s) 91, 314
BslI CCNNNNNNNGG 4 cut(s) 87, 144, 145, 459
BsmFI GGGAC 2 cut(s) 91, 314
BsnI GGCC 1 cut(s) 463
Bsp143I GATC 2 cut(s) 412, 469
BspACI CCGC 2 cut(s) 88, 269
BspANI GGCC 1 cut(s) 463
BspLI GGNNCC 2 cut(s) 79, 80
BsrDI GCAATG 1 cut(s) 433
BsrI ACTGG 5 cut(s) 149, 168, 283, 319, 404
BssECI CCNNGG 2 cut(s) 339, 458
BssMI GATC 2 cut(s) 412, 469
BssSI CACGAG 1 cut(s) 96
Bst2BI CACGAG 1 cut(s) 96
Bst4CI ACNGT 3 cut(s) 65, 394, 489
BstC8I GCNNGC 1 cut(s) 465
BstF5I GGATG 5 cut(s) 42, 91, 364, 415, 449
BstKTI GATC 2 cut(s) 415, 472
BstMBI GATC 2 cut(s) 412, 469
BstMWI GCNNNNNNNGC 4 cut(s) 164, 332, 473, 482
BstNSI RCATGY 2 cut(s) 361, 425
BstSCI CCNGG 2 cut(s) 45, 458
BsuRI GGCC 1 cut(s) 463
BtsCI GGATG 5 cut(s) 42, 91, 364, 415, 449
BtsI GCAGTG 1 cut(s) 261
BtsIMutI CAGTG 4 cut(s) 61, 175, 261, 411
Cac8I GCNNGC 1 cut(s) 465
Cfr13I GGNCC 2 cut(s) 78, 398
Csp6I GTAC 1 cut(s) 116
CviAII CATG 4 cut(s) 26, 358, 387, 422
CviJI RGCY 5 cut(s) 282, 335, 372, 463, 467
CviKI_1 RGCY 5 cut(s) 282, 335, 372, 463, 467
CviQI GTAC 1 cut(s) 116
DpnI GATC 2 cut(s) 414, 471
DpnII GATC 2 cut(s) 412, 469
DraI TTTAAA 1 cut(s) 235
EaeI YGGCCR 1 cut(s) 461
Eco47I GGWCC 2 cut(s) 78, 398
EcoO109I RGGNCCY 2 cut(s) 78, 398
EcoT22I ATGCAT 1 cut(s) 44
FaeI CATG 4 cut(s) 29, 361, 390, 425
FaqI GGGAC 2 cut(s) 91, 314
FatI CATG 4 cut(s) 25, 357, 386, 421
FbaI TGATCA 1 cut(s) 469
Fnu4HI GCNGC 2 cut(s) 89, 270
FokI GGATG 5 cut(s) 29, 78, 351, 422, 456
Fsp4HI GCNGC 2 cut(s) 89, 270
FspBI CTAG 1 cut(s) 369
GluI GCNGC 2 cut(s) 89, 270
GsuI CTGGAG 1 cut(s) 387
HaeIII GGCC 1 cut(s) 463
HapII CCGG 3 cut(s) 46, 441, 460
Hin1II CATG 4 cut(s) 29, 361, 390, 425
HinfI GANTC 2 cut(s) 105, 176
HpaII CCGG 3 cut(s) 46, 441, 460
HphI GGTGA 2 cut(s) 50, 359
Hpy166II GTNNAC 1 cut(s) 259
Hpy188I TCNGA 3 cut(s) 11, 295, 417
Hpy8I GTNNAC 1 cut(s) 259
HpyAV CCTTC 2 cut(s) 244, 290
HpyCH4III ACNGT 3 cut(s) 65, 394, 489
HpyCH4V TGCA 4 cut(s) 42, 198, 357, 438
HpyF10VI GCNNNNNNNGC 4 cut(s) 164, 332, 473, 482
Hsp92II CATG 4 cut(s) 29, 361, 390, 425
KflI GGGWCCC 1 cut(s) 78
Ksp22I TGATCA 1 cut(s) 469
Kzo9I GATC 2 cut(s) 412, 469
LmnI GCTCC 1 cut(s) 11
LweI GCATC 3 cut(s) 29, 51, 100
MaeI CTAG 1 cut(s) 369
MaeIII GTNAC 1 cut(s) 49
MalI GATC 2 cut(s) 414, 471
MboI GATC 2 cut(s) 412, 469
MboII GAAGA 1 cut(s) 232
MluCI AATT 3 cut(s) 54, 130, 352
MmeI TCCRAC 2 cut(s) 273, 454
MnlI CCTC 5 cut(s) 31, 105, 259, 334, 411
Mph1103I ATGCAT 1 cut(s) 44
MseI TTAA 1 cut(s) 234
MslI CAYNNNNRTG 2 cut(s) 30, 96
MspA1I CMGCKG 2 cut(s) 88, 467
MspI CCGG 3 cut(s) 46, 441, 460
MspR9I CCNGG 2 cut(s) 47, 460
MwoI GCNNNNNNNGC 4 cut(s) 164, 332, 473, 482
NciI CCSGG 2 cut(s) 47, 460
NdeII GATC 2 cut(s) 412, 469
NlaIII CATG 4 cut(s) 29, 361, 390, 425
NlaIV GGNNCC 2 cut(s) 79, 80
NsiI ATGCAT 1 cut(s) 44
NspI RCATGY 2 cut(s) 361, 425
PciI ACATGT 1 cut(s) 421
PfeI GAWTC 2 cut(s) 105, 176
PkrI GCNGC 2 cut(s) 90, 271
PpuMI RGGWCCY 2 cut(s) 78, 398
PscI ACATGT 1 cut(s) 421
Psp5II RGGWCCY 2 cut(s) 78, 398
PspN4I GGNNCC 2 cut(s) 79, 80
PspPI GGNCC 2 cut(s) 78, 398
PspPPI RGGWCCY 2 cut(s) 78, 398
PvuII CAGCTG 1 cut(s) 467
RsaI GTAC 1 cut(s) 117
RsaNI GTAC 1 cut(s) 116
RseI CAYNNNNRTG 2 cut(s) 30, 96
SaqAI TTAA 1 cut(s) 234
SatI GCNGC 2 cut(s) 89, 270
Sau3AI GATC 2 cut(s) 412, 469
Sau96I GGNCC 2 cut(s) 78, 398
ScrFI CCNGG 2 cut(s) 47, 460
SetI ASST 4 cut(s) 243, 293, 403, 469
SfaNI GCATC 3 cut(s) 29, 51, 100
SinI GGWCC 2 cut(s) 78, 398
SmiMI CAYNNNNRTG 2 cut(s) 30, 96
SmlI CTYRAG 1 cut(s) 321
SmoI CTYRAG 1 cut(s) 321
Sse9I AATT 3 cut(s) 54, 130, 352
SsiI CCGC 2 cut(s) 88, 269
SspMI CTAG 1 cut(s) 369
StyD4I CCNGG 2 cut(s) 45, 458
TaaI ACNGT 3 cut(s) 65, 394, 489
TasI AATT 3 cut(s) 54, 130, 352
TatI WGTACW 1 cut(s) 115
TauI GCSGC 2 cut(s) 91, 272
TfiI GAWTC 2 cut(s) 105, 176
Tru1I TTAA 1 cut(s) 234
Tru9I TTAA 1 cut(s) 234
TscAI CASTG 4 cut(s) 68, 175, 261, 411
TspDTI ATGAA 4 cut(s) 222, 274, 298, 353
TspRI CASTG 4 cut(s) 68, 175, 261, 411
VpaK11BI GGWCC 2 cut(s) 78, 398
XceI RCATGY 2 cut(s) 361, 425
XspI CTAG 1 cut(s) 369
Zsp2I ATGCAT 1 cut(s) 44
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.