Rw1G029230

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0008283
Physical Location & Seq
Forward (+)
56933300 .. 56937283
3984 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G029230.1

Sequence Viewer

Length: 999 bp
ATGACCTCGCTACCGTATGCTGACGTGGATTCCCATCTGAAAGCAATGGCCGGCCGGGCCGAGGGGTTCGGCCGGTTCGCTATCGGAGGCCTACACGGCCCGGTTTATTTCGTCACCACATTGGCAGATGATGGTCCGGGCTCACTTCGTGAAGGATGCCGGAAACAAGAACCACTTTGGATTGTCTTTGAGGTTTCAGGCACCATTATTCTCTCTTCTTACTTAAGTGTGTCATCTTACAAGACAATTGATGGCCGAGGGCAGAGAGTAAAGCTCACAGGCAAGGGCCTTAGACTGAAGGAATGTGAACACATAATCATATGCAACCTTGAGTTTGAAGGTGGTAGAGGACATGATGTTGATGGCATTCAGATAAAACCAAATTCCAGGCATATATGGATTGACCGATGCAGCCTTCGTGATTATGATGATGGACTCATAGATATCACCCGACAAAGTACAGACATAACTATTTCTAGATGTTACTTCCATCAACATGACAAGACGATGCTTATTGGAGCGGACCCTTCACATGTTGGTGACAGATGCATTCGGGTCACTATTCATCATTGTTTTTTTGATGGGACAAGGCAAAGGCAACCTCGTGTTAGATTTGGGAAAGTTCATCTTTACAACAATTACACTCGTAACTGGGGTATATATGCTGTTTGTGCCAGCGTAGAATCCCAGATATACTCTCAATGCAACATATATGAAGCAGGAACGAAGAAGAAGACGTTTGAATATTATACAGAAAAGGCTGCAGACAGAGAAGTGGCGAAATCTGGCCTCATAAGATCTGAGGGGGACATATTCCTGAATGGAGCCCAACCATGCACATTAACAGGGTTCAGTGAAGAATGCAGGTTCCATCCAAGTGAATTTTATCCACTTTGGACTATGGAAGCAGCCTCAGATTCTCTTAAAGGTGTTCTCCACATTCTTACGGGTTGGCAATCCATTCATAGGCCACCAGTAGAGCAGCTGGTAATGGTATAG
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

332

Amino Acids

37.49

Weight (kDa)

7.2

Isoelectric Point (pI)

39.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 75 - 245 6.4e-29 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)
Acc36I ACCTGC 1 cut(s) 855
AccB1I GGYRCC 1 cut(s) 200
AccBSI CCGCTC 1 cut(s) 521
AciI CCGC 1 cut(s) 521
AcoI YGGCCR 4 cut(s) 48, 52, 70, 253
AcsI RAATTY 2 cut(s) 382, 881
AcuI CTGAAG 1 cut(s) 317
AdeI CACNNNGTG 1 cut(s) 149
AfaI GTAC 1 cut(s) 460
AfiI CCNNNNNNNGG 2 cut(s) 61, 966
AflII CTTAAG 1 cut(s) 223
AflIII ACRYGT 1 cut(s) 532
AgsI TTSAA 2 cut(s) 338, 743
AjiI CACGTC 1 cut(s) 25
AjnI CCWGG 1 cut(s) 386
AluBI AGCT 2 cut(s) 274, 985
AluI AGCT 2 cut(s) 274, 985
ApeKI GCWGC 4 cut(s) 411, 761, 908, 982
ApoI RAATTY 2 cut(s) 382, 881
AspS9I GGNCC 5 cut(s) 57, 98, 134, 286, 523
AsuC2I CCSGG 3 cut(s) 56, 101, 138
AsuHPI GGTGA 3 cut(s) 106, 439, 551
AvaII GGWCC 2 cut(s) 134, 523
BanI GGYRCC 1 cut(s) 200
BanII GRGCYC 2 cut(s) 143, 829
BauI CACGAG 1 cut(s) 603
BbsI GAAGAC 1 cut(s) 740
BbvI GCAGC 4 cut(s) 423, 748, 920, 994
BccI CCATC 8 cut(s) 42, 125, 245, 356, 425, 498, 575, 879
BceAI ACGGC 1 cut(s) 112
BciT130I CCWGG 1 cut(s) 388
BcnI CCSGG 3 cut(s) 56, 101, 138
BfaI CTAG 1 cut(s) 477
BfmI CTRYAG 1 cut(s) 762
BfrI CTTAAG 1 cut(s) 223
BfuAI ACCTGC 1 cut(s) 855
BglI GCCNNNNNGGC 2 cut(s) 56, 96
BglII AGATCT 1 cut(s) 797
BisI GCNGC 4 cut(s) 412, 762, 909, 983
BlsI GCNGC 4 cut(s) 413, 763, 910, 984
Bme1390I CCNGG 4 cut(s) 56, 101, 138, 388
Bme18I GGWCC 2 cut(s) 134, 523
BmgBI CACGTC 1 cut(s) 25
BmgT120I GGNCC 5 cut(s) 57, 98, 134, 286, 523
BmiI GGNNCC 4 cut(s) 202, 525, 826, 869
BmrFI CCNGG 4 cut(s) 56, 101, 138, 388
BmrI ACTGGG 1 cut(s) 661
BmsI GCATC 4 cut(s) 146, 398, 498, 536
BmuI ACTGGG 1 cut(s) 661
BpiI GAAGAC 1 cut(s) 740
BplI GAGNNNNNCTC 2 cut(s) 258, 290
BpuEI CTTGAG 1 cut(s) 350
BpuMI CCSGG 3 cut(s) 56, 101, 138
BsaBI GATNNNNATC 1 cut(s) 33
BsaJI CCNNGG 2 cut(s) 60, 256
Bsc4I CCNNNNNNNGG 2 cut(s) 61, 966
Bse118I RCCGGY 2 cut(s) 50, 72
Bse1I ACTGG 2 cut(s) 656, 974
Bse3DI GCAATG 1 cut(s) 51
Bse8I GATNNNNATC 1 cut(s) 33
BseBI CCWGG 1 cut(s) 388
BseDI CCNNGG 2 cut(s) 60, 256
BseGI GGATG 2 cut(s) 161, 871
BseJI GATNNNNATC 1 cut(s) 33
BseLI CCNNNNNNNGG 2 cut(s) 61, 966
BseMI GCAATG 1 cut(s) 51
BseMII CTCAG 2 cut(s) 792, 927
BseNI ACTGG 2 cut(s) 656, 974
BseX3I CGGCCG 2 cut(s) 52, 70
BseXI GCAGC 4 cut(s) 423, 748, 920, 994
Bsh1285I CGRYCG 2 cut(s) 55, 73
BshNI GGYRCC 1 cut(s) 200
BsiEI CGRYCG 2 cut(s) 55, 73
BsiSI CCGG 6 cut(s) 51, 55, 73, 101, 137, 160
BslFI GGGAC 2 cut(s) 598, 821
BslI CCNNNNNNNGG 2 cut(s) 61, 966
BsmFI GGGAC 2 cut(s) 598, 821
BsmI GAATGC 3 cut(s) 366, 549, 866
Bsp1286I GDGCHC 2 cut(s) 143, 829
Bsp143I GATC 1 cut(s) 797
BspACI CCGC 1 cut(s) 521
BspCNI CTCAG 2 cut(s) 793, 926
BspLI GGNNCC 4 cut(s) 202, 525, 826, 869
BspMAI CTGCAG 1 cut(s) 766
BspMI ACCTGC 1 cut(s) 855
BspT107I GGYRCC 1 cut(s) 200
BspTI CTTAAG 1 cut(s) 223
BsrBI CCGCTC 1 cut(s) 521
BsrDI GCAATG 1 cut(s) 51
BsrFI RCCGGY 2 cut(s) 50, 72
BsrI ACTGG 2 cut(s) 656, 974
BssAI RCCGGY 2 cut(s) 50, 72
BssECI CCNNGG 2 cut(s) 60, 256
BssMI GATC 1 cut(s) 797
BssSI CACGAG 1 cut(s) 603
Bst2BI CACGAG 1 cut(s) 603
Bst2UI CCWGG 1 cut(s) 388
Bst4CI ACNGT 1 cut(s) 15
Bst6I CTCTTC 1 cut(s) 220
BstAFI CTTAAG 1 cut(s) 223
BstC8I GCNNGC 2 cut(s) 52, 676
BstDEI CTNAG 3 cut(s) 290, 801, 913
BstF5I GGATG 2 cut(s) 161, 871
BstKTI GATC 1 cut(s) 800
BstMBI GATC 1 cut(s) 797
BstMCI CGRYCG 2 cut(s) 55, 73
BstMWI GCNNNNNNNGC 3 cut(s) 56, 96, 671
BstNI CCWGG 1 cut(s) 388
BstNSI RCATGY 1 cut(s) 536
BstSCI CCNGG 4 cut(s) 54, 99, 136, 386
BstSFI CTRYAG 1 cut(s) 762
BstV1I GCAGC 4 cut(s) 423, 748, 920, 994
BstV2I GAAGAC 1 cut(s) 740
BstX2I RGATCY 1 cut(s) 797
BstYI RGATCY 1 cut(s) 797
BstZI CGGCCG 2 cut(s) 52, 70
BtrI CACGTC 1 cut(s) 25
BtsCI GGATG 2 cut(s) 161, 871
BtsIMutI CAGTG 1 cut(s) 859
BveI ACCTGC 1 cut(s) 855
Cac8I GCNNGC 2 cut(s) 52, 676
Cfr10I RCCGGY 2 cut(s) 50, 72
Cfr13I GGNCC 5 cut(s) 57, 98, 134, 286, 523
Csp6I GTAC 1 cut(s) 459
CviAII CATG 4 cut(s) 353, 497, 533, 834
CviQI GTAC 1 cut(s) 459
DdeI CTNAG 3 cut(s) 290, 801, 913
DpnI GATC 1 cut(s) 799
DpnII GATC 1 cut(s) 797
DraIII CACNNNGTG 1 cut(s) 149
EaeI YGGCCR 4 cut(s) 48, 52, 70, 253
EagI CGGCCG 2 cut(s) 52, 70
Eam1104I CTCTTC 1 cut(s) 220
EarI CTCTTC 1 cut(s) 220
EclXI CGGCCG 2 cut(s) 52, 70
Eco147I AGGCCT 1 cut(s) 90
Eco24I GRGCYC 2 cut(s) 143, 829
Eco32I GATATC 1 cut(s) 445
Eco47I GGWCC 2 cut(s) 134, 523
Eco52I CGGCCG 2 cut(s) 52, 70
Eco57I CTGAAG 1 cut(s) 317
EcoO109I RGGNCCY 1 cut(s) 286
EcoRII CCWGG 1 cut(s) 386
EcoRV GATATC 1 cut(s) 445
EcoT22I ATGCAT 1 cut(s) 551
EcoT38I GRGCYC 2 cut(s) 143, 829
FaeI CATG 4 cut(s) 356, 500, 536, 837
FalI AAGNNNNNCTT 4 cut(s) 159, 191, 612, 644
FaqI GGGAC 2 cut(s) 598, 821
FatI CATG 4 cut(s) 352, 496, 532, 833
FauNDI CATATG 1 cut(s) 320
Fnu4HI GCNGC 4 cut(s) 412, 762, 909, 983
FokI GGATG 2 cut(s) 168, 858
FriOI GRGCYC 2 cut(s) 143, 829
FseI GGCCGGCC 1 cut(s) 54
Fsp4HI GCNGC 4 cut(s) 412, 762, 909, 983
FspBI CTAG 1 cut(s) 477
GluI GCNGC 4 cut(s) 412, 762, 909, 983
HapII CCGG 6 cut(s) 51, 55, 73, 101, 137, 160
Hin1II CATG 4 cut(s) 356, 500, 536, 837
HinfI GANTC 4 cut(s) 29, 435, 683, 917
HpaII CCGG 6 cut(s) 51, 55, 73, 101, 137, 160
HphI GGTGA 3 cut(s) 106, 439, 551
Hpy166II GTNNAC 1 cut(s) 308
Hpy188I TCNGA 5 cut(s) 39, 86, 372, 802, 916
Hpy188III TCNNGA 4 cut(s) 149, 419, 477, 817
Hpy8I GTNNAC 1 cut(s) 308
HpyAV CCTTC 5 cut(s) 146, 292, 332, 425, 537
HpyCH4III ACNGT 1 cut(s) 15
HpyCH4IV ACGT 2 cut(s) 24, 737
HpyCH4V TGCA 7 cut(s) 324, 411, 549, 705, 764, 837, 864
HpyF10VI GCNNNNNNNGC 3 cut(s) 56, 96, 671
HpyF3I CTNAG 3 cut(s) 290, 801, 913
HpySE526I ACGT 2 cut(s) 24, 737
Hsp92II CATG 4 cut(s) 356, 500, 536, 837
KroI GCCGGC 1 cut(s) 50
KroNI GCCGGC 1 cut(s) 52
Kzo9I GATC 1 cut(s) 797
LmnI GCTCC 2 cut(s) 518, 824
Lsp1109I GCAGC 4 cut(s) 423, 748, 920, 994
LweI GCATC 4 cut(s) 146, 398, 498, 536
MaeI CTAG 1 cut(s) 477
MaeII ACGT 2 cut(s) 24, 737
MaeIII GTNAC 5 cut(s) 112, 482, 539, 556, 647
MalI GATC 1 cut(s) 799
MbiI CCGCTC 1 cut(s) 521
MboI GATC 1 cut(s) 797
MboII GAAGA 5 cut(s) 207, 739, 742, 745, 869
MfeI CAATTG 1 cut(s) 246
MflI RGATCY 1 cut(s) 797
MhlI GDGCHC 2 cut(s) 143, 829
MluCI AATT 4 cut(s) 246, 382, 637, 881
MlyI GAGTC 1 cut(s) 429
Mph1103I ATGCAT 1 cut(s) 551
MroNI GCCGGC 1 cut(s) 50
MseI TTAA 3 cut(s) 224, 842, 924
MslI CAYNNNNRTG 3 cut(s) 495, 537, 876
MspA1I CMGCKG 1 cut(s) 985
MspCI CTTAAG 1 cut(s) 223
MspI CCGG 6 cut(s) 51, 55, 73, 101, 137, 160
MspR9I CCNGG 4 cut(s) 56, 101, 138, 388
MunI CAATTG 1 cut(s) 246
Mva1269I GAATGC 3 cut(s) 366, 549, 866
MvaI CCWGG 1 cut(s) 388
MwoI GCNNNNNNNGC 3 cut(s) 56, 96, 671
NaeI GCCGGC 1 cut(s) 52
NciI CCSGG 3 cut(s) 56, 101, 138
NdeI CATATG 1 cut(s) 320
NdeII GATC 1 cut(s) 797
NgoMIV GCCGGC 1 cut(s) 50
NlaIII CATG 4 cut(s) 356, 500, 536, 837
NlaIV GGNNCC 4 cut(s) 202, 525, 826, 869
NmeAIII GCCGAG 2 cut(s) 85, 281
NmuCI GTSAC 3 cut(s) 112, 539, 556
NsiI ATGCAT 1 cut(s) 551
NspI RCATGY 1 cut(s) 536
PceI AGGCCT 1 cut(s) 90
PciI ACATGT 1 cut(s) 532
PctI GAATGC 3 cut(s) 366, 549, 866
PdiI GCCGGC 1 cut(s) 52
PfeI GAWTC 3 cut(s) 29, 683, 917
PkrI GCNGC 4 cut(s) 413, 763, 910, 984
PleI GAGTC 1 cut(s) 429
PpsI GAGTC 1 cut(s) 429
PscI ACATGT 1 cut(s) 532
Psp6I CCWGG 1 cut(s) 386
PspGI CCWGG 1 cut(s) 386
PspN4I GGNNCC 4 cut(s) 202, 525, 826, 869
PspPI GGNCC 5 cut(s) 57, 98, 134, 286, 523
PstI CTGCAG 1 cut(s) 766
PsuI RGATCY 1 cut(s) 797
PvuII CAGCTG 1 cut(s) 985
RigI GGCCGGCC 1 cut(s) 54
RsaI GTAC 1 cut(s) 460
RsaNI GTAC 1 cut(s) 459
RseI CAYNNNNRTG 3 cut(s) 495, 537, 876
SaqAI TTAA 3 cut(s) 224, 842, 924
SatI GCNGC 4 cut(s) 412, 762, 909, 983
Sau3AI GATC 1 cut(s) 797
Sau96I GGNCC 5 cut(s) 57, 98, 134, 286, 523
SchI GAGTC 1 cut(s) 429
ScrFI CCNGG 4 cut(s) 56, 101, 138, 388
SduI GDGCHC 2 cut(s) 143, 829
SfaNI GCATC 4 cut(s) 146, 398, 498, 536
SfcI CTRYAG 1 cut(s) 762
SfiI GGCCNNNNNGGCC 2 cut(s) 56, 96
SinI GGWCC 2 cut(s) 134, 523
SmiMI CAYNNNNRTG 3 cut(s) 495, 537, 876
SmlI CTYRAG 2 cut(s) 223, 329
SmoI CTYRAG 2 cut(s) 223, 329
Sse9I AATT 4 cut(s) 246, 382, 637, 881
SseBI AGGCCT 1 cut(s) 90
SsiI CCGC 1 cut(s) 521
SspI AATATT 1 cut(s) 746
SspMI CTAG 1 cut(s) 477
StuI AGGCCT 1 cut(s) 90
StyD4I CCNGG 4 cut(s) 54, 99, 136, 386
TaaI ACNGT 1 cut(s) 15
TaiI ACGT 2 cut(s) 27, 740
TaqII GACCGA 1 cut(s) 420
TasI AATT 4 cut(s) 246, 382, 637, 881
TatI WGTACW 1 cut(s) 458
TfiI GAWTC 3 cut(s) 29, 683, 917
Tru1I TTAA 3 cut(s) 224, 842, 924
Tru9I TTAA 3 cut(s) 224, 842, 924
TscAI CASTG 1 cut(s) 859
TseFI GTSAC 3 cut(s) 112, 539, 556
TseI GCWGC 4 cut(s) 411, 761, 908, 982
Tsp45I GTSAC 3 cut(s) 112, 539, 556
TspDTI ATGAA 4 cut(s) 554, 614, 729, 953
TspRI CASTG 1 cut(s) 859
Vha464I CTTAAG 1 cut(s) 223
VpaK11BI GGWCC 2 cut(s) 134, 523
XapI RAATTY 2 cut(s) 382, 881
XbaI TCTAGA 1 cut(s) 476
XceI RCATGY 1 cut(s) 536
XspI CTAG 1 cut(s) 477
Zsp2I ATGCAT 1 cut(s) 551
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.