MD06G1000300.v1.1

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr06
OG0008415
Physical Location & Seq
Reverse (-)
35517 .. 36921
1405 bp
Loading structure...
UTR
Exon/CDS
Intron
MD06G1000300.v1.1.491

Sequence Viewer

Length: 1203 bp
ATGGTTTTTCTTTATCATGACTCCAAACGCTACCCTAATTATGCCAATTCCTGGTGCTTTGTTTCGTTAGCTATTGTCACCCTCTTGAGTACTACTCCACACCCAAGTTTTGCAGAGAAATCCTCAAAATCCGCCGCCAACTTGATCGACAGTTGCTGGAGATGGAACTCAAATTGGGCAAGTAACCGGCAGGAACTTGCGTTGTGCTCTGTCGGATTTGCTGGGAAAATGACCAACAACGTAGGAAGCCATGTCACATTCTATCAAGTCACCGATCCGAGTGACAATGCATTACACCCAAATCCAGGAACTTTGAGATATGGAGCTACCATGATCAAGGGGAAAAAATGGATCACTTTCCAGAGGGACATGCGAATTAAACTTGACAAACCACTGCTCATTAGTAGCTTCACTGCCATTGATGGAAGAGGCGCTAATATTCACATTGCCGGGAATGCATGCTTGACGGTCTTTAAGGCAAGCAACATAATCATCCACGGCCTTCGAATCCACCACTGTCGATCCCAACCACCAAGCTCGGTTATGGGTCCTGATGGAAAGCCATTTCCAGTAGGCCAAGTTGATGGAGATGCAGTCAGGTTAATTACTGCATCCAAGGTTTGGATAGACCACAATACTTTTTATGAGTGCGAGGACGGTCTTCTTGACGTTACTCGTGGATCGACCGATATCACCATCTCCAACAATTGGTTCAGAGACCAGGACAAGGTAATGCTCCTTGGCCACGATGATGGGTACGTTCGGGACAAGAACATGAGAGTCACACTCGTGTACAATCATTTTGGACCCAACTGCAACCAAAGAATGCCAAGGATTCGATACGGATATGCACATGTGGTGAACAATTTGTACAGAAAATGGTCACAGTATGCAATCGGAGGAAGCATGAATCCTAGCGTTAAGAGTGAAGCCAACCTCTTCATTGCTCCAAAACGAGGAAACAAGGAGGTCACTTGGAGGAAGGTCAGTAACAGTATTGGAAGCAAAAGCTCGTGGAAATTTCGTTCTGTAGGAGATATTTTTGAAAATGAGGCTTCTTTCCTCCAAACAAGCCTGCCTGTGGCTGGAGTAATGCCACAATATAAAAGGATACAAAGTTTCCTGGTGGCTCATGCCAAAGCCGTCCGGTCATTGACAAGGTCATCGGGTGCACTAAAATGCACAAAAACATCCAGATGCTAA
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

401

Amino Acids

44.81

Weight (kDa)

9.73

Isoelectric Point (pI)

37.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 134 - 332 6.9e-27 Pectate lyase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 3 cut(s) 51, 621, 708
AciI CCGC 2 cut(s) 132, 135
AclWI GGATC 4 cut(s) 269, 359, 516, 688
AcoI YGGCCR 1 cut(s) 742
AcsI RAATTY 1 cut(s) 1019
AfaI GTAC 4 cut(s) 91, 758, 794, 872
AfiI CCNNNNNNNGG 8 cut(s) 51, 305, 621, 708, 727, 956, 1081, 1085
AflIII ACRYGT 1 cut(s) 853
AgsI TTSAA 1 cut(s) 1046
AjnI CCWGG 4 cut(s) 50, 304, 720, 1122
AjuI GAANNNNNNNTTGG 2 cut(s) 695, 727
AleI CACNNNNGTG 1 cut(s) 788
AloI GAACNNNNNNTCC 2 cut(s) 1009, 1041
AluBI AGCT 5 cut(s) 71, 326, 408, 537, 1011
AluI AGCT 5 cut(s) 71, 326, 408, 537, 1011
Alw21I GWGCWC 2 cut(s) 209, 1174
Alw26I GTCTC 1 cut(s) 711
Alw44I GTGCAC 1 cut(s) 1170
AlwI GGATC 4 cut(s) 269, 359, 516, 688
AlwNI CAGNNNCTG 1 cut(s) 156
AoxI GGCC 3 cut(s) 499, 574, 742
ApaLI GTGCAC 1 cut(s) 1170
ApoI RAATTY 1 cut(s) 1019
AspLEI GCGC 1 cut(s) 434
AspS9I GGNCC 2 cut(s) 548, 806
AsuC2I CCSGG 1 cut(s) 451
AsuHPI GGTGA 4 cut(s) 70, 262, 685, 871
AsuII TTCGAA 1 cut(s) 505
AvaII GGWCC 2 cut(s) 548, 806
BaeGI GKGCMC 1 cut(s) 1174
BalI TGGCCA 1 cut(s) 744
BauI CACGAG 3 cut(s) 675, 788, 1012
BbsI GAAGAC 1 cut(s) 653
Bbv12I GWGCWC 2 cut(s) 209, 1174
BccI CCATC 6 cut(s) 156, 416, 548, 578, 704, 746
BceAI ACGGC 2 cut(s) 514, 1127
BciT130I CCWGG 4 cut(s) 52, 306, 722, 1124
BciVI GTATCC 1 cut(s) 1104
BclI TGATCA 1 cut(s) 333
BcnI CCSGG 1 cut(s) 451
BcoDI GTCTC 1 cut(s) 711
BfaI CTAG 1 cut(s) 915
BfmI CTRYAG 1 cut(s) 1029
BfoI RGCGCY 1 cut(s) 435
BfuI GTATCC 1 cut(s) 1104
BisI GCNGC 1 cut(s) 135
BlsI GCNGC 1 cut(s) 136
BmcAI AGTACT 1 cut(s) 91
Bme1390I CCNGG 5 cut(s) 52, 306, 451, 722, 1124
Bme18I GGWCC 2 cut(s) 548, 806
BmgT120I GGNCC 2 cut(s) 548, 806
BmiI GGNNCC 2 cut(s) 549, 808
BmrFI CCNGG 5 cut(s) 52, 306, 451, 722, 1124
BmsI GCATC 3 cut(s) 580, 620, 1187
BpiI GAAGAC 1 cut(s) 653
BplI GAGNNNNNCTC 6 cut(s) 79, 111, 107, 139, 771, 803
BpmI CTGGAG 2 cut(s) 178, 1107
Bpu14I TTCGAA 1 cut(s) 505
BpuEI CTTGAG 1 cut(s) 106
BpuMI CCSGG 1 cut(s) 451
BsaI GGTCTC 1 cut(s) 711
BsaJI CCNNGG 4 cut(s) 496, 615, 739, 830
BsaWI WCCGGW 1 cut(s) 1146
BsaXI ACNNNNNCTCC 2 cut(s) 579, 609
Bsc4I CCNNNNNNNGG 8 cut(s) 51, 305, 621, 708, 727, 956, 1081, 1085
Bse118I RCCGGY 1 cut(s) 186
Bse1I ACTGG 1 cut(s) 569
Bse3DI GCAATG 2 cut(s) 444, 942
BseBI CCWGG 4 cut(s) 52, 306, 722, 1124
BseDI CCNNGG 4 cut(s) 496, 615, 739, 830
BseGI GGATG 3 cut(s) 492, 611, 1190
BseLI CCNNNNNNNGG 8 cut(s) 51, 305, 621, 708, 727, 956, 1081, 1085
BseMI GCAATG 2 cut(s) 444, 942
BseNI ACTGG 1 cut(s) 569
BseSI GKGCMC 1 cut(s) 1174
BseYI CCCAGC 1 cut(s) 221
Bsh1285I CGRYCG 1 cut(s) 687
BshFI GGCC 3 cut(s) 501, 576, 744
BsiEI CGRYCG 1 cut(s) 687
BsiHKAI GWGCWC 2 cut(s) 209, 1174
BsiSI CCGG 3 cut(s) 187, 450, 1147
BslFI GGGAC 2 cut(s) 380, 779
BslI CCNNNNNNNGG 8 cut(s) 51, 305, 621, 708, 727, 956, 1081, 1085
BsmAI GTCTC 1 cut(s) 711
BsmFI GGGAC 2 cut(s) 380, 779
BsmI GAATGC 2 cut(s) 460, 831
BsnI GGCC 3 cut(s) 501, 576, 744
Bso31I GGTCTC 1 cut(s) 711
Bsp119I TTCGAA 1 cut(s) 505
Bsp1286I GDGCHC 2 cut(s) 209, 1174
Bsp1407I TGTACA 2 cut(s) 792, 870
Bsp143I GATC 6 cut(s) 144, 274, 333, 351, 521, 680
BspACI CCGC 2 cut(s) 132, 135
BspANI GGCC 3 cut(s) 501, 576, 744
BspHI TCATGA 1 cut(s) 16
BspLI GGNNCC 2 cut(s) 549, 808
BspPI GGATC 4 cut(s) 269, 359, 516, 688
BspT104I TTCGAA 1 cut(s) 505
BspTNI GGTCTC 1 cut(s) 711
BsrDI GCAATG 2 cut(s) 444, 942
BsrFI RCCGGY 1 cut(s) 186
BsrGI TGTACA 2 cut(s) 792, 870
BsrI ACTGG 1 cut(s) 569
BssAI RCCGGY 1 cut(s) 186
BssECI CCNNGG 4 cut(s) 496, 615, 739, 830
BssMI GATC 6 cut(s) 144, 274, 333, 351, 521, 680
BssSI CACGAG 3 cut(s) 675, 788, 1012
BssT1I CCWWGG 3 cut(s) 615, 739, 830
Bst2BI CACGAG 3 cut(s) 675, 788, 1012
Bst2UI CCWGG 4 cut(s) 52, 306, 722, 1124
Bst4CI ACNGT 6 cut(s) 152, 469, 518, 659, 888, 995
Bst6I CTCTTC 2 cut(s) 421, 944
BstAUI TGTACA 2 cut(s) 792, 870
BstBI TTCGAA 1 cut(s) 505
BstC8I GCNNGC 3 cut(s) 460, 481, 1076
BstDSI CCRYGG 1 cut(s) 496
BstF5I GGATG 3 cut(s) 492, 611, 1190
BstH2I RGCGCY 1 cut(s) 435
BstHHI GCGC 1 cut(s) 434
BstKTI GATC 6 cut(s) 147, 277, 336, 354, 524, 683
BstMAI GTCTC 1 cut(s) 711
BstMBI GATC 6 cut(s) 144, 274, 333, 351, 521, 680
BstMCI CGRYCG 1 cut(s) 687
BstMWI GCNNNNNNNGC 1 cut(s) 455
BstNI CCWGG 4 cut(s) 52, 306, 722, 1124
BstNSI RCATGY 3 cut(s) 373, 462, 857
BstSCI CCNGG 5 cut(s) 50, 304, 449, 720, 1122
BstSFI CTRYAG 1 cut(s) 1029
BstSLI GKGCMC 1 cut(s) 1174
BstV2I GAAGAC 1 cut(s) 653
BstXI CCANNNNNNTGG 2 cut(s) 584, 752
BsuI GTATCC 1 cut(s) 1104
BsuRI GGCC 3 cut(s) 501, 576, 744
BtgI CCRYGG 1 cut(s) 496
BtsCI GGATG 3 cut(s) 492, 611, 1190
BtsI GCAGTG 2 cut(s) 392, 411
BtsIMutI CAGTG 3 cut(s) 392, 411, 514
Cac8I GCNNGC 3 cut(s) 460, 481, 1076
CaiI CAGNNNCTG 1 cut(s) 156
CciI TCATGA 1 cut(s) 16
CfoI GCGC 1 cut(s) 434
Cfr10I RCCGGY 1 cut(s) 186
Cfr13I GGNCC 2 cut(s) 548, 806
Csp6I GTAC 4 cut(s) 90, 757, 793, 871
CviAII CATG 9 cut(s) 17, 251, 331, 370, 459, 775, 854, 907, 1133
CviQI GTAC 4 cut(s) 90, 757, 793, 871
DpnI GATC 6 cut(s) 146, 276, 335, 353, 523, 682
DpnII GATC 6 cut(s) 144, 274, 333, 351, 521, 680
EaeI YGGCCR 1 cut(s) 742
Eam1104I CTCTTC 2 cut(s) 421, 944
EarI CTCTTC 2 cut(s) 421, 944
EciI GGCGGA 1 cut(s) 121
Eco130I CCWWGG 3 cut(s) 615, 739, 830
Eco31I GGTCTC 1 cut(s) 711
Eco32I GATATC 1 cut(s) 691
Eco47I GGWCC 2 cut(s) 548, 806
EcoO109I RGGNCCY 1 cut(s) 548
EcoRII CCWGG 4 cut(s) 50, 304, 720, 1122
EcoRV GATATC 1 cut(s) 691
EcoT14I CCWWGG 3 cut(s) 615, 739, 830
EcoT22I ATGCAT 2 cut(s) 292, 460
ErhI CCWWGG 3 cut(s) 615, 739, 830
FaeI CATG 9 cut(s) 20, 254, 334, 373, 462, 778, 857, 910, 1136
FaqI GGGAC 2 cut(s) 380, 779
FatI CATG 9 cut(s) 16, 250, 330, 369, 458, 774, 853, 906, 1132
FbaI TGATCA 1 cut(s) 333
Fnu4HI GCNGC 1 cut(s) 135
FokI GGATG 3 cut(s) 479, 598, 1177
Fsp4HI GCNGC 1 cut(s) 135
FspBI CTAG 1 cut(s) 915
GlaI GCGC 1 cut(s) 433
GluI GCNGC 1 cut(s) 135
GsaI CCCAGC 1 cut(s) 225
GsuI CTGGAG 2 cut(s) 178, 1107
HaeII RGCGCY 1 cut(s) 435
HaeIII GGCC 3 cut(s) 501, 576, 744
HapII CCGG 3 cut(s) 187, 450, 1147
HhaI GCGC 1 cut(s) 434
Hin1II CATG 9 cut(s) 20, 254, 334, 373, 462, 778, 857, 910, 1136
Hin6I GCGC 1 cut(s) 432
HinP1I GCGC 1 cut(s) 432
HinfI GANTC 5 cut(s) 20, 507, 780, 835, 910
HpaII CCGG 3 cut(s) 187, 450, 1147
HphI GGTGA 4 cut(s) 70, 262, 685, 871
Hpy166II GTNNAC 3 cut(s) 793, 862, 1172
Hpy188I TCNGA 4 cut(s) 215, 279, 716, 899
Hpy188III TCNNGA 7 cut(s) 17, 85, 361, 551, 665, 764, 1194
Hpy8I GTNNAC 3 cut(s) 793, 862, 1172
HpyAV CCTTC 2 cut(s) 512, 976
HpyCH4III ACNGT 6 cut(s) 152, 469, 518, 659, 888, 995
HpyCH4IV ACGT 3 cut(s) 240, 669, 759
HpyF10VI GCNNNNNNNGC 1 cut(s) 455
HpySE526I ACGT 3 cut(s) 240, 669, 759
Hsp92II CATG 9 cut(s) 20, 254, 334, 373, 462, 778, 857, 910, 1136
HspAI GCGC 1 cut(s) 432
Ksp22I TGATCA 1 cut(s) 333
Kzo9I GATC 6 cut(s) 144, 274, 333, 351, 521, 680
LmnI GCTCC 3 cut(s) 323, 741, 952
LweI GCATC 3 cut(s) 580, 620, 1187
MaeI CTAG 1 cut(s) 915
MaeII ACGT 3 cut(s) 240, 669, 759
MalI GATC 6 cut(s) 146, 276, 335, 353, 523, 682
MboI GATC 6 cut(s) 144, 274, 333, 351, 521, 680
MboII GAAGA 3 cut(s) 438, 653, 931
MfeI CAATTG 1 cut(s) 706
MhlI GDGCHC 2 cut(s) 209, 1174
MlsI TGGCCA 1 cut(s) 744
MluCI AATT 8 cut(s) 37, 46, 172, 375, 603, 706, 865, 1019
MluNI TGGCCA 1 cut(s) 744
MlyI GAGTC 2 cut(s) 14, 789
MmeI TCCRAC 2 cut(s) 193, 726
Mox20I TGGCCA 1 cut(s) 744
Mph1103I ATGCAT 2 cut(s) 292, 460
MscI TGGCCA 1 cut(s) 744
MseI TTAA 4 cut(s) 378, 474, 602, 921
MslI CAYNNNNRTG 4 cut(s) 750, 788, 1177, 1195
Msp20I TGGCCA 1 cut(s) 744
MspI CCGG 3 cut(s) 187, 450, 1147
MspR9I CCNGG 5 cut(s) 52, 306, 451, 722, 1124
MunI CAATTG 1 cut(s) 706
Mva1269I GAATGC 2 cut(s) 460, 831
MvaI CCWGG 4 cut(s) 52, 306, 722, 1124
MwoI GCNNNNNNNGC 1 cut(s) 455
NciI CCSGG 1 cut(s) 451
NdeII GATC 6 cut(s) 144, 274, 333, 351, 521, 680
NlaIII CATG 9 cut(s) 20, 254, 334, 373, 462, 778, 857, 910, 1136
NlaIV GGNNCC 2 cut(s) 549, 808
NmuCI GTSAC 7 cut(s) 76, 253, 268, 281, 781, 882, 970
NsiI ATGCAT 2 cut(s) 292, 460
NspI RCATGY 3 cut(s) 373, 462, 857
NspV TTCGAA 1 cut(s) 505
OliI CACNNNNGTG 1 cut(s) 788
PaeI GCATGC 1 cut(s) 462
PagI TCATGA 1 cut(s) 16
PciI ACATGT 1 cut(s) 853
PctI GAATGC 2 cut(s) 460, 831
PfeI GAWTC 3 cut(s) 507, 835, 910
PflFI GACNNNGTC 1 cut(s) 1159
PflMI CCANNNNNTGG 3 cut(s) 51, 621, 708
PfoI TCCNGGA 1 cut(s) 304
PkrI GCNGC 1 cut(s) 136
PleI GAGTC 2 cut(s) 14, 788
PpsI GAGTC 2 cut(s) 14, 788
PpuMI RGGWCCY 1 cut(s) 548
PscI ACATGT 1 cut(s) 853
Psp5II RGGWCCY 1 cut(s) 548
Psp6I CCWGG 4 cut(s) 50, 304, 720, 1122
PspFI CCCAGC 1 cut(s) 221
PspGI CCWGG 4 cut(s) 50, 304, 720, 1122
PspN4I GGNNCC 2 cut(s) 549, 808
PspPI GGNCC 2 cut(s) 548, 806
PspPPI RGGWCCY 1 cut(s) 548
PsrI GAACNNNNNNTAC 2 cut(s) 854, 886
PstNI CAGNNNCTG 1 cut(s) 156
PsyI GACNNNGTC 1 cut(s) 1159
RsaI GTAC 4 cut(s) 91, 758, 794, 872
RsaNI GTAC 4 cut(s) 90, 757, 793, 871
RseI CAYNNNNRTG 4 cut(s) 750, 788, 1177, 1195
SaqAI TTAA 4 cut(s) 378, 474, 602, 921
SatI GCNGC 1 cut(s) 135
Sau3AI GATC 6 cut(s) 144, 274, 333, 351, 521, 680
Sau96I GGNCC 2 cut(s) 548, 806
ScaI AGTACT 1 cut(s) 91
SchI GAGTC 2 cut(s) 14, 789
ScrFI CCNGG 5 cut(s) 52, 306, 451, 722, 1124
SduI GDGCHC 2 cut(s) 209, 1174
SfaNI GCATC 3 cut(s) 580, 620, 1187
SfcI CTRYAG 1 cut(s) 1029
SfuI TTCGAA 1 cut(s) 505
SinI GGWCC 2 cut(s) 548, 806
SmiMI CAYNNNNRTG 4 cut(s) 750, 788, 1177, 1195
SmlI CTYRAG 1 cut(s) 85
SmoI CTYRAG 1 cut(s) 85
SphI GCATGC 1 cut(s) 462
Sse9I AATT 8 cut(s) 37, 46, 172, 375, 603, 706, 865, 1019
SsiI CCGC 2 cut(s) 132, 135
SspI AATATT 1 cut(s) 439
SspMI CTAG 1 cut(s) 915
StyD4I CCNGG 5 cut(s) 50, 304, 449, 720, 1122
StyI CCWWGG 3 cut(s) 615, 739, 830
TaaI ACNGT 6 cut(s) 152, 469, 518, 659, 888, 995
TaiI ACGT 3 cut(s) 243, 672, 762
TaqI TCGA 5 cut(s) 147, 505, 520, 683, 838
TaqII GACCGA 1 cut(s) 701
TasI AATT 8 cut(s) 37, 46, 172, 375, 603, 706, 865, 1019
TatI WGTACW 3 cut(s) 89, 792, 870
TauI GCSGC 1 cut(s) 137
TfiI GAWTC 3 cut(s) 507, 835, 910
Tru1I TTAA 4 cut(s) 378, 474, 602, 921
Tru9I TTAA 4 cut(s) 378, 474, 602, 921
TscAI CASTG 3 cut(s) 399, 418, 521
TseFI GTSAC 7 cut(s) 76, 253, 268, 281, 781, 882, 970
Tsp45I GTSAC 7 cut(s) 76, 253, 268, 281, 781, 882, 970
TspDTI ATGAA 2 cut(s) 923, 931
TspGWI ACGGA 1 cut(s) 858
TspRI CASTG 3 cut(s) 399, 418, 521
Tth111I GACNNNGTC 1 cut(s) 1159
Van91I CCANNNNNTGG 3 cut(s) 51, 621, 708
VneI GTGCAC 1 cut(s) 1170
VpaK11BI GGWCC 2 cut(s) 548, 806
XapI RAATTY 1 cut(s) 1019
XceI RCATGY 3 cut(s) 373, 462, 857
XspI CTAG 1 cut(s) 915
ZrmI AGTACT 1 cut(s) 91
Zsp2I ATGCAT 2 cut(s) 292, 460
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.