MD06G1241300.v1.1

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr06
OG0008415
Physical Location & Seq
Reverse (-)
37089581 .. 37093187
3607 bp
Loading structure...
UTR
Exon/CDS
Intron
MD06G1241300.v1.1.491

Sequence Viewer

Length: 1173 bp
ATGGCTTCTCATCCCGGAAATCTTAATGCCAATATGCGGTGCTTGTTTTTGGGCCTTTTCATCGTCATTATCGTCGGCTTCGCTCCAAACCCTATTTTGGCTAAGAAAACAAAAGTTGATGGAATGAAATTGAACGTGATTGACAGTTGCTGGAGATGGAACTCGAATTGGAGAAGTAACCGGCAGGAACTTGCGTCATGTTCAGTGGGATTTGCTGGGAAAATGAGCAACAACGCAGGAAGTGATGTCAAATACTATCAAGTCACAGACCCTAGTGATAATGCGTTGGACCCCACACCAGGAACTTTGAGATATGGGGTTACCATGATCAGAGGGAAAAAGTGGATCACCTTTCGGAGGGACATGCGGATTCAGCTCCAGAAACCACTTCTCATTAGTAGTTTTACTGCCATTGATGGAAGAGGTGCTACTGTTCACATTGCCGGCAATGCGTGTTTGGCAAGCGATGTAATCATCCATGGACTACGAATCCACCATTGTCGATCCCAACCAGCAAGCTCAGTTATGGGTCCAGATGGAAAGATAAGGCAACTAGGGCAGGTCGACGGAGATGCTATCAGGTTGGTAACTGCATCAAAGGTTTGGATAGACCACAATACACTCTACGAGTGCCAGGATGGCCTTCTCGATGTTACTCGAGGATCTAGCCTTATCACCATCTCCAACAATTGGTTCAGAGACCAGGACAAGGTTATGCTTCTCGGCCACGATGATGGCTACGTTCGGGACAGGAACATGAGGATCACCGTACTCTATAACCATTTTGGACCCAACTGCAACCAAAGAATGCCAAGGATTCGCTATGGATATGCACACGTCGTGAACAATCTCTACAGAGAATGGTCACAGTACGCCATCGGGGGAAGTATGAATCCTAGCGTTAAGAGTGAAGCCAACCTCTTTATTGCACCAAAATCGTTAAACAATAAAGAGATCACTTGGAGGAAGGACAGCATTGGGAACAAGAACTCATGGATATTTTACTCTGTACGAGATATCTTCGAAAATGGGGCTTCCTTCGTCCAATCAGGTACAGGTGGAGCAAAGCCTCACTATAACAGGGAACAAACTTTCCGAGTTGTTGACGCCAAATCCGTCCGGTCATTGACAAGGTCATCAGGCGCTTTAACGTGCATCAAATCCAGATGCTAA
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

391

Amino Acids

43.67

Weight (kDa)

9.73

Isoelectric Point (pI)

34.72

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 154 - 317 2.3e-24 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)
Acc36I ACCTGC 1 cut(s) 550
AccB7I CCANNNNNTGG 1 cut(s) 690
AccI GTMKAC 1 cut(s) 564
AciI CCGC 2 cut(s) 37, 367
AclWI GGATC 4 cut(s) 353, 498, 670, 770
AcoI YGGCCR 1 cut(s) 724
AcyI GRCGYC 1 cut(s) 1107
AdeI CACNNNGTG 1 cut(s) 841
AfaI GTAC 4 cut(s) 771, 872, 1011, 1054
AfiI CCNNNNNNNGG 6 cut(s) 36, 97, 299, 357, 690, 709
AflIII ACRYGT 1 cut(s) 835
AgsI TTSAA 1 cut(s) 133
AjiI CACGTC 1 cut(s) 838
AjnI CCWGG 3 cut(s) 298, 633, 702
AjuI GAANNNNNNNTTGG 2 cut(s) 677, 709
AloI GAACNNNNNNTCC 2 cut(s) 1077, 1109
AluBI AGCT 2 cut(s) 376, 519
AluI AGCT 2 cut(s) 376, 519
Alw26I GTCTC 1 cut(s) 693
AlwI GGATC 4 cut(s) 353, 498, 670, 770
AlwNI CAGNNNCTG 1 cut(s) 150
Ama87I CYCGRG 1 cut(s) 657
AoxI GGCC 3 cut(s) 52, 640, 724
AspLEI GCGC 1 cut(s) 1145
AspS9I GGNCC 4 cut(s) 52, 289, 530, 788
AsuC2I CCSGG 1 cut(s) 15
AsuHPI GGTGA 3 cut(s) 340, 667, 757
AsuII TTCGAA 1 cut(s) 1023
AvaI CYCGRG 1 cut(s) 657
AvaII GGWCC 3 cut(s) 289, 530, 788
BarI GAAGNNNNNNTAC 2 cut(s) 412, 444
BccI CCATC 8 cut(s) 113, 150, 410, 530, 632, 686, 728, 884
BcgI CGANNNNNNTGC 4 cut(s) 554, 588, 918, 952
BciT130I CCWGG 3 cut(s) 300, 635, 704
BclI TGATCA 1 cut(s) 327
BcnI CCSGG 1 cut(s) 15
BcoDI GTCTC 1 cut(s) 693
BfaI CTAG 4 cut(s) 273, 554, 666, 897
BfmI CTRYAG 1 cut(s) 853
BfoI RGCGCY 1 cut(s) 1146
BfuAI ACCTGC 1 cut(s) 550
BglI GCCNNNNNGGC 1 cut(s) 639
Bme1390I CCNGG 4 cut(s) 15, 300, 635, 704
Bme18I GGWCC 3 cut(s) 289, 530, 788
BmeT110I CYCGRG 1 cut(s) 657
BmgBI CACGTC 1 cut(s) 838
BmgT120I GGNCC 4 cut(s) 52, 289, 530, 788
BmiI GGNNCC 3 cut(s) 291, 531, 790
BmrFI CCNGG 4 cut(s) 15, 300, 635, 704
BmsI GCATC 4 cut(s) 562, 602, 1157, 1164
BpmI CTGGAG 2 cut(s) 172, 362
Bpu14I TTCGAA 1 cut(s) 1023
BpuMI CCSGG 1 cut(s) 15
BsaHI GRCGYC 1 cut(s) 1107
BsaI GGTCTC 1 cut(s) 693
BsaJI CCNNGG 2 cut(s) 478, 812
BsaWI WCCGGW 1 cut(s) 1119
Bsc4I CCNNNNNNNGG 6 cut(s) 36, 97, 299, 357, 690, 709
Bse118I RCCGGY 2 cut(s) 180, 443
Bse3DI GCAATG 2 cut(s) 438, 454
BseBI CCWGG 3 cut(s) 300, 635, 704
BseDI CCNNGG 2 cut(s) 478, 812
BseGI GGATG 3 cut(s) 10, 474, 643
BseLI CCNNNNNNNGG 6 cut(s) 36, 97, 299, 357, 690, 709
BseMI GCAATG 2 cut(s) 438, 454
BseMII CTCAG 1 cut(s) 534
BseYI CCCAGC 1 cut(s) 215
BshFI GGCC 3 cut(s) 54, 642, 726
BsiHKCI CYCGRG 1 cut(s) 657
BsiSI CCGG 4 cut(s) 15, 181, 444, 1120
BslFI GGGAC 2 cut(s) 374, 761
BslI CCNNNNNNNGG 6 cut(s) 36, 97, 299, 357, 690, 709
BsmAI GTCTC 1 cut(s) 693
BsmFI GGGAC 2 cut(s) 374, 761
BsmI GAATGC 1 cut(s) 813
BsnI GGCC 3 cut(s) 54, 642, 726
Bso31I GGTCTC 1 cut(s) 693
BsoBI CYCGRG 1 cut(s) 657
Bsp119I TTCGAA 1 cut(s) 1023
Bsp143I GATC 6 cut(s) 327, 345, 503, 662, 762, 954
Bsp19I CCATGG 1 cut(s) 478
BspACI CCGC 2 cut(s) 37, 367
BspANI GGCC 3 cut(s) 54, 642, 726
BspCNI CTCAG 1 cut(s) 533
BspLI GGNNCC 3 cut(s) 291, 531, 790
BspMI ACCTGC 1 cut(s) 550
BspPI GGATC 4 cut(s) 353, 498, 670, 770
BspT104I TTCGAA 1 cut(s) 1023
BspTNI GGTCTC 1 cut(s) 693
BsrDI GCAATG 2 cut(s) 438, 454
BsrFI RCCGGY 2 cut(s) 180, 443
BssAI RCCGGY 2 cut(s) 180, 443
BssECI CCNNGG 2 cut(s) 478, 812
BssMI GATC 6 cut(s) 327, 345, 503, 662, 762, 954
BssNI GRCGYC 1 cut(s) 1107
BssT1I CCWWGG 2 cut(s) 478, 812
Bst2UI CCWGG 3 cut(s) 300, 635, 704
Bst4CI ACNGT 4 cut(s) 146, 433, 769, 870
Bst6I CTCTTC 1 cut(s) 415
BstACI GRCGYC 1 cut(s) 1107
BstBI TTCGAA 1 cut(s) 1023
BstC8I GCNNGC 3 cut(s) 445, 463, 517
BstDEI CTNAG 2 cut(s) 102, 520
BstDSI CCRYGG 1 cut(s) 478
BstEII GGTNACC 1 cut(s) 319
BstENI CCTNNNNNAGG 1 cut(s) 355
BstF5I GGATG 3 cut(s) 10, 474, 643
BstH2I RGCGCY 1 cut(s) 1146
BstHHI GCGC 1 cut(s) 1145
BstKTI GATC 6 cut(s) 330, 348, 506, 665, 765, 957
BstMAI GTCTC 1 cut(s) 693
BstMBI GATC 6 cut(s) 327, 345, 503, 662, 762, 954
BstMWI GCNNNNNNNGC 5 cut(s) 373, 449, 458, 556, 639
BstNI CCWGG 3 cut(s) 300, 635, 704
BstNSI RCATGY 1 cut(s) 367
BstPI GGTNACC 1 cut(s) 319
BstSCI CCNGG 4 cut(s) 13, 298, 633, 702
BstSFI CTRYAG 1 cut(s) 853
BstX2I RGATCY 1 cut(s) 662
BstXI CCANNNNNNTGG 1 cut(s) 734
BstYI RGATCY 1 cut(s) 662
BsuRI GGCC 3 cut(s) 54, 642, 726
BtgI CCRYGG 1 cut(s) 478
BtgZI GCGATG 1 cut(s) 480
BtrI CACGTC 1 cut(s) 838
BtsCI GGATG 3 cut(s) 10, 474, 643
BtsIMutI CAGTG 1 cut(s) 210
BveI ACCTGC 1 cut(s) 550
Cac8I GCNNGC 3 cut(s) 445, 463, 517
CaiI CAGNNNCTG 1 cut(s) 150
CfoI GCGC 1 cut(s) 1145
Cfr10I RCCGGY 2 cut(s) 180, 443
Cfr13I GGNCC 4 cut(s) 52, 289, 530, 788
CseI GACGC 2 cut(s) 183, 1115
Csp6I GTAC 4 cut(s) 770, 871, 1010, 1053
CviAII CATG 6 cut(s) 198, 325, 364, 479, 757, 993
CviQI GTAC 4 cut(s) 770, 871, 1010, 1053
DdeI CTNAG 2 cut(s) 102, 520
DpnI GATC 6 cut(s) 329, 347, 505, 664, 764, 956
DpnII GATC 6 cut(s) 327, 345, 503, 662, 762, 954
DraIII CACNNNGTG 1 cut(s) 841
EaeI YGGCCR 1 cut(s) 724
Eam1104I CTCTTC 1 cut(s) 415
EarI CTCTTC 1 cut(s) 415
Eco130I CCWWGG 2 cut(s) 478, 812
Eco31I GGTCTC 1 cut(s) 693
Eco32I GATATC 1 cut(s) 1018
Eco47I GGWCC 3 cut(s) 289, 530, 788
Eco88I CYCGRG 1 cut(s) 657
Eco91I GGTNACC 1 cut(s) 319
EcoNI CCTNNNNNAGG 1 cut(s) 355
EcoO65I GGTNACC 1 cut(s) 319
EcoRII CCWGG 3 cut(s) 298, 633, 702
EcoRV GATATC 1 cut(s) 1018
EcoT14I CCWWGG 2 cut(s) 478, 812
ErhI CCWWGG 2 cut(s) 478, 812
FaeI CATG 6 cut(s) 201, 328, 367, 482, 760, 996
FaqI GGGAC 2 cut(s) 374, 761
FatI CATG 6 cut(s) 197, 324, 363, 478, 756, 992
FbaI TGATCA 1 cut(s) 327
FblI GTMKAC 1 cut(s) 564
FokI GGATG 2 cut(s) 461, 650
FspBI CTAG 4 cut(s) 273, 554, 666, 897
GlaI GCGC 1 cut(s) 1144
GsaI CCCAGC 1 cut(s) 219
GsuI CTGGAG 2 cut(s) 172, 362
HaeII RGCGCY 1 cut(s) 1146
HaeIII GGCC 3 cut(s) 54, 642, 726
HapII CCGG 4 cut(s) 15, 181, 444, 1120
HgaI GACGC 2 cut(s) 183, 1115
HhaI GCGC 1 cut(s) 1145
Hin1I GRCGYC 1 cut(s) 1107
Hin1II CATG 6 cut(s) 201, 328, 367, 482, 760, 996
Hin6I GCGC 1 cut(s) 1143
HinP1I GCGC 1 cut(s) 1143
HincII GTYRAC 2 cut(s) 565, 1105
HindII GTYRAC 2 cut(s) 565, 1105
HinfI GANTC 4 cut(s) 370, 489, 817, 892
HpaII CCGG 4 cut(s) 15, 181, 444, 1120
HphI GGTGA 3 cut(s) 340, 667, 757
Hpy166II GTNNAC 4 cut(s) 436, 565, 844, 1105
Hpy188I TCNGA 4 cut(s) 332, 357, 698, 1097
Hpy188III TCNNGA 6 cut(s) 379, 533, 647, 746, 841, 1164
Hpy8I GTNNAC 4 cut(s) 436, 565, 844, 1105
Hpy99I CGWCG 3 cut(s) 77, 569, 842
HpyAV CCTTC 3 cut(s) 653, 961, 1048
HpyCH4III ACNGT 4 cut(s) 146, 433, 769, 870
HpyCH4IV ACGT 4 cut(s) 135, 741, 837, 1151
HpyCH4V TGCA 5 cut(s) 593, 798, 833, 929, 1155
HpyF10VI GCNNNNNNNGC 5 cut(s) 373, 449, 458, 556, 639
HpyF3I CTNAG 2 cut(s) 102, 520
HpySE526I ACGT 4 cut(s) 135, 741, 837, 1151
Hsp92I GRCGYC 1 cut(s) 1107
Hsp92II CATG 6 cut(s) 201, 328, 367, 482, 760, 996
HspAI GCGC 1 cut(s) 1143
KroI GCCGGC 1 cut(s) 443
KroNI GCCGGC 1 cut(s) 445
Ksp22I TGATCA 1 cut(s) 327
Kzo9I GATC 6 cut(s) 327, 345, 503, 662, 762, 954
LmnI GCTCC 3 cut(s) 88, 381, 1061
LweI GCATC 4 cut(s) 562, 602, 1157, 1164
MaeI CTAG 4 cut(s) 273, 554, 666, 897
MaeII ACGT 4 cut(s) 135, 741, 837, 1151
MaeIII GTNAC 6 cut(s) 176, 262, 319, 586, 652, 864
MalI GATC 6 cut(s) 329, 347, 505, 664, 764, 956
MboI GATC 6 cut(s) 327, 345, 503, 662, 762, 954
MboII GAAGA 2 cut(s) 432, 1012
MfeI CAATTG 1 cut(s) 688
MflI RGATCY 1 cut(s) 662
MluCI AATT 3 cut(s) 128, 166, 688
MmeI TCCRAC 2 cut(s) 267, 708
MnlI CCTC 8 cut(s) 326, 351, 416, 653, 753, 929, 957, 1080
MroNI GCCGGC 1 cut(s) 443
MseI TTAA 4 cut(s) 24, 903, 941, 1148
MslI CAYNNNNRTG 1 cut(s) 732
MspI CCGG 4 cut(s) 15, 181, 444, 1120
MspR9I CCNGG 4 cut(s) 15, 300, 635, 704
MunI CAATTG 1 cut(s) 688
Mva1269I GAATGC 1 cut(s) 813
MvaI CCWGG 3 cut(s) 300, 635, 704
MwoI GCNNNNNNNGC 5 cut(s) 373, 449, 458, 556, 639
NaeI GCCGGC 1 cut(s) 445
NciI CCSGG 1 cut(s) 15
NcoI CCATGG 1 cut(s) 478
NdeII GATC 6 cut(s) 327, 345, 503, 662, 762, 954
NgoMIV GCCGGC 1 cut(s) 443
NlaIII CATG 6 cut(s) 201, 328, 367, 482, 760, 996
NlaIV GGNNCC 3 cut(s) 291, 531, 790
NmeAIII GCCGAG 1 cut(s) 702
NmuCI GTSAC 2 cut(s) 262, 864
NspI RCATGY 1 cut(s) 367
NspV TTCGAA 1 cut(s) 1023
PaeR7I CTCGAG 1 cut(s) 657
PcsI WCGNNNNNNNCGW 2 cut(s) 69, 1113
PctI GAATGC 1 cut(s) 813
PdiI GCCGGC 1 cut(s) 445
PfeI GAWTC 4 cut(s) 370, 489, 817, 892
PflFI GACNNNGTC 1 cut(s) 1132
PflMI CCANNNNNTGG 1 cut(s) 690
PfoI TCCNGGA 1 cut(s) 13
Psp6I CCWGG 3 cut(s) 298, 633, 702
PspEI GGTNACC 1 cut(s) 319
PspFI CCCAGC 1 cut(s) 215
PspGI CCWGG 3 cut(s) 298, 633, 702
PspN4I GGNNCC 3 cut(s) 291, 531, 790
PspPI GGNCC 4 cut(s) 52, 289, 530, 788
PspXI VCTCGAGB 1 cut(s) 657
PsrI GAACNNNNNNTAC 2 cut(s) 836, 868
PstNI CAGNNNCTG 1 cut(s) 150
PsuI RGATCY 1 cut(s) 662
PsyI GACNNNGTC 1 cut(s) 1132
RsaI GTAC 4 cut(s) 771, 872, 1011, 1054
RsaNI GTAC 4 cut(s) 770, 871, 1010, 1053
RseI CAYNNNNRTG 1 cut(s) 732
SalI GTCGAC 1 cut(s) 563
SaqAI TTAA 4 cut(s) 24, 903, 941, 1148
Sau3AI GATC 6 cut(s) 327, 345, 503, 662, 762, 954
Sau96I GGNCC 4 cut(s) 52, 289, 530, 788
ScrFI CCNGG 4 cut(s) 15, 300, 635, 704
SfaNI GCATC 4 cut(s) 562, 602, 1157, 1164
SfcI CTRYAG 1 cut(s) 853
Sfr274I CTCGAG 1 cut(s) 657
SfuI TTCGAA 1 cut(s) 1023
SinI GGWCC 3 cut(s) 289, 530, 788
SlaI CTCGAG 1 cut(s) 657
SmiMI CAYNNNNRTG 1 cut(s) 732
SmlI CTYRAG 1 cut(s) 657
SmoI CTYRAG 1 cut(s) 657
Sse9I AATT 3 cut(s) 128, 166, 688
SsiI CCGC 2 cut(s) 37, 367
SspMI CTAG 4 cut(s) 273, 554, 666, 897
StyD4I CCNGG 4 cut(s) 13, 298, 633, 702
StyI CCWWGG 2 cut(s) 478, 812
TaaI ACNGT 4 cut(s) 146, 433, 769, 870
TaiI ACGT 4 cut(s) 138, 744, 840, 1154
TaqI TCGA 6 cut(s) 164, 502, 564, 648, 658, 1023
TasI AATT 3 cut(s) 128, 166, 688
TfiI GAWTC 4 cut(s) 370, 489, 817, 892
Tru1I TTAA 4 cut(s) 24, 903, 941, 1148
Tru9I TTAA 4 cut(s) 24, 903, 941, 1148
TscAI CASTG 1 cut(s) 210
TseFI GTSAC 2 cut(s) 262, 864
Tsp45I GTSAC 2 cut(s) 262, 864
TspDTI ATGAA 3 cut(s) 49, 140, 905
TspGWI ACGGA 2 cut(s) 582, 1105
TspRI CASTG 1 cut(s) 210
Tth111I GACNNNGTC 1 cut(s) 1132
Van91I CCANNNNNTGG 1 cut(s) 690
VpaK11BI GGWCC 3 cut(s) 289, 530, 788
XagI CCTNNNNNAGG 1 cut(s) 355
XceI RCATGY 1 cut(s) 367
XhoI CTCGAG 1 cut(s) 657
XmiI GTMKAC 1 cut(s) 564
XspI CTAG 4 cut(s) 273, 554, 666, 897
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.