AT4G24780

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0006447
Physical Location & Seq
Reverse (-)
12770221 .. 12772479
2259 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G24780.1

Sequence Viewer

Length: 1227 bp
ATGAAAATGCAGACGAAGAAGCTCTTTATCACCATTGTCTCCTTTCTTCTCTATGCTCCATTGTTCTTATCTTCACCAGTTCCTGACCCTGAATCTGTCGTTGAAGAAGTTCACAAGAGCATTAATGCGTCGGTTGCAGGAAGAAGGAAGTTAGGTTACCTCTCATGTACGACCGGTAACCCAATCGACGACTGTTGGCGTTGTGACCCTCACTGGGAGCAACACCGTCAACGTCTCGCTGACTGCGCCATTGGATTCGGCAAAAACGCCATCGGTGGCCGTGACGGTCGGATCTACGTGGTCACCGACTCAGGAAACGACAACCCAGTTAGCCCCAAGCCCGGAACTTTAAGACACGCCGTGGTCCAAGACGAGCCACTCTGGATCATCTTCCAACGAGACATGACGATTCAGCTCAAAGAAGAGCTAATCATGAACTCATTCAAGACCATCGATGGCCGTGGTGCTTCCGTACACATCTCTGGTGGGCCTTGTATAACGATCCAGTACGTGACCAACATTATCATCCATGGGATTCATATCCATGATTGCAAGCAAGGTGGCAACGCTATGGTGCGGAGCTCTCCACGGCATTTCGGGTGGAGAACGATATCGGACGGTGATGGTGTCTCTATCTTTGGAGGAAGTCATGTTTGGGTTGACCATTGTTCGTTCTCTAACTGTGAAGATGGACTTATTGATGCTATCATGGGCTCGACGGCTATCACTTTGTCTAACAATCATATGACACATCATGATAAGGTCATGTTGCTTGGTCATAGTGATACTTACAGTCGTGACAAGAATATGCAAGTTACCATTGCTTTTAACCATTTTGGTGAAGGCCTTGTCCAAAGAATGCCCAGGTGTAGACATGGATACTTCCATGTGGTGAACAATGACTACACACATTGGGAGATGTATGCGATTGGTGGAAGTGCTAATCCTACAATCAATAGTCAAGGGAACAGATTTTTGGCACCCAATATCAGATTTAGCAAAGAAGTGACTAAGCATGAGGACGCGCCTGAGAGCGAGTGGAAGAGATGGAATTGGAGATCTTCCGGAGATTTGTTGCTAAACGGTGCGTTTTTTACTCCGTCTGGTGGTGCAGCCTCGTCTAGCTATGCAAAGGCTTCGAGCCTTGGGGCTAAACCGTCTTCTCTAGTTGGACCATTGACGTCTACTTCTGGTGCACTGAATTGCCGTAAAGGTTCCCGTTGCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0008150 GO:0009605 GO:0009607 GO:0009624 GO:0016020 GO:0043207 GO:0050896 GO:0051704 GO:0051707
KEGG Pathways
Metabolic & Signaling
ko00040 ko02024 map00040 map02024
Pfam Domains
Protein Families
Pec_lyase_C

Protein Analysis

408

Amino Acids

45.01

Weight (kDa)

8.44

Isoelectric Point (pI)

39.94

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 166 - 338 8.4e-19 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)
AatII GACGTC 1 cut(s) 1184
AccB1I GGYRCC 1 cut(s) 979
AccI GTMKAC 2 cut(s) 871, 1184
AccII CGCG 1 cut(s) 1025
AccIII TCCGGA 1 cut(s) 1064
AciI CCGC 1 cut(s) 577
AclWI GGATC 3 cut(s) 299, 392, 496
AcoI YGGCCR 2 cut(s) 277, 457
AcyI GRCGYC 1 cut(s) 1181
AdeI CACNNNGTG 1 cut(s) 361
AfaI GTAC 3 cut(s) 169, 474, 509
AfiI CCNNNNNNNGG 3 cut(s) 214, 341, 1106
AgeI ACCGGT 1 cut(s) 173
AgsI TTSAA 2 cut(s) 104, 445
AjnI CCWGG 1 cut(s) 863
AjuI GAANNNNNNNTTGG 4 cut(s) 637, 669, 959, 991
AluBI AGCT 5 cut(s) 22, 415, 427, 582, 1125
AluI AGCT 5 cut(s) 22, 415, 427, 582, 1125
Alw21I GWGCWC 2 cut(s) 584, 1198
Alw26I GTCTC 4 cut(s) 43, 239, 393, 634
Alw44I GTGCAC 1 cut(s) 1194
AlwI GGATC 3 cut(s) 299, 392, 496
AlwNI CAGNNNCTG 1 cut(s) 83
Aor13HI TCCGGA 1 cut(s) 1064
AoxI GGCC 4 cut(s) 277, 457, 488, 844
ApaLI GTGCAC 1 cut(s) 1194
ApeKI GCWGC 1 cut(s) 1112
AseI ATTAAT 1 cut(s) 123
AsiGI ACCGGT 1 cut(s) 173
Asp700I GAANNNNTTC 2 cut(s) 108, 440
AspLEI GCGC 2 cut(s) 248, 1027
AspS9I GGNCC 3 cut(s) 364, 488, 1172
AsuC2I CCSGG 1 cut(s) 342
AsuHPI GGTGA 6 cut(s) 22, 66, 295, 632, 851, 904
AvaII GGWCC 2 cut(s) 364, 1172
BaeGI GKGCMC 1 cut(s) 1198
BanI GGYRCC 1 cut(s) 979
BanII GRGCYC 2 cut(s) 584, 716
BarI GAAGNNNNNNTAC 2 cut(s) 140, 172
BbsI GAAGAC 1 cut(s) 1152
Bbv12I GWGCWC 2 cut(s) 584, 1198
BbvI GCAGC 1 cut(s) 1124
BccI CCATC 6 cut(s) 278, 449, 458, 617, 683, 1041
BceAI ACGGC 6 cut(s) 264, 344, 444, 605, 735, 1191
BcgI CGANNNNNNTGC 2 cut(s) 1119, 1153
BciT130I CCWGG 1 cut(s) 865
BciVI GTATCC 1 cut(s) 872
BcnI CCSGG 1 cut(s) 342
BcoDI GTCTC 4 cut(s) 43, 239, 393, 634
BfaI CTAG 2 cut(s) 1122, 1166
BfuI GTATCC 1 cut(s) 872
BglII AGATCT 1 cut(s) 1058
BisI GCNGC 1 cut(s) 1113
BlsI GCNGC 1 cut(s) 1114
Bme1390I CCNGG 2 cut(s) 342, 865
Bme18I GGWCC 2 cut(s) 364, 1172
BmgT120I GGNCC 3 cut(s) 364, 488, 1172
BmiI GGNNCC 2 cut(s) 981, 1216
BmrFI CCNGG 2 cut(s) 342, 865
BmrI ACTGGG 2 cut(s) 223, 320
BmsI GCATC 1 cut(s) 691
BmuI ACTGGG 2 cut(s) 223, 320
BpiI GAAGAC 1 cut(s) 1152
BpuMI CCSGG 1 cut(s) 342
Bsa29I ATCGAT 1 cut(s) 453
BsaAI YACGTR 2 cut(s) 298, 511
BsaBI GATNNNNATC 1 cut(s) 539
BsaHI GRCGYC 1 cut(s) 1181
BsaJI CCNNGG 6 cut(s) 360, 460, 529, 587, 863, 1144
BsaWI WCCGGW 2 cut(s) 173, 1064
Bsc4I CCNNNNNNNGG 3 cut(s) 214, 341, 1106
Bse118I RCCGGY 1 cut(s) 173
Bse1I ACTGG 4 cut(s) 77, 218, 326, 505
Bse3DI GCAATG 1 cut(s) 819
Bse8I GATNNNNATC 1 cut(s) 539
BseAI TCCGGA 1 cut(s) 1064
BseBI CCWGG 1 cut(s) 865
BseCI ATCGAT 1 cut(s) 453
BseDI CCNNGG 6 cut(s) 360, 460, 529, 587, 863, 1144
BseGI GGATG 1 cut(s) 525
BseJI GATNNNNATC 1 cut(s) 539
BseLI CCNNNNNNNGG 3 cut(s) 214, 341, 1106
BseMI GCAATG 1 cut(s) 819
BseMII CTCAG 2 cut(s) 324, 1020
BseNI ACTGG 4 cut(s) 77, 218, 326, 505
BseSI GKGCMC 1 cut(s) 1198
BseXI GCAGC 1 cut(s) 1124
BsgI GTGCAG 1 cut(s) 1131
Bsh1236I CGCG 1 cut(s) 1025
Bsh1285I CGRYCG 2 cut(s) 174, 289
BshFI GGCC 4 cut(s) 279, 459, 490, 846
BshNI GGYRCC 1 cut(s) 979
BshTI ACCGGT 1 cut(s) 173
BshVI ATCGAT 1 cut(s) 453
BsiEI CGRYCG 2 cut(s) 174, 289
BsiHKAI GWGCWC 2 cut(s) 584, 1198
BsiSI CCGG 3 cut(s) 174, 342, 1065
BslI CCNNNNNNNGG 3 cut(s) 214, 341, 1106
BsmAI GTCTC 4 cut(s) 43, 239, 393, 634
BsmBI CGTCTC 1 cut(s) 239
BsmI GAATGC 1 cut(s) 864
BsnI GGCC 4 cut(s) 279, 459, 490, 846
Bsp1286I GDGCHC 3 cut(s) 584, 716, 1198
Bsp13I TCCGGA 1 cut(s) 1064
Bsp143I GATC 4 cut(s) 291, 384, 501, 1058
Bsp19I CCATGG 1 cut(s) 529
BspACI CCGC 1 cut(s) 577
BspANI GGCC 4 cut(s) 279, 459, 490, 846
BspCNI CTCAG 2 cut(s) 323, 1021
BspDI ATCGAT 1 cut(s) 453
BspEI TCCGGA 1 cut(s) 1064
BspFNI CGCG 1 cut(s) 1025
BspHI TCATGA 2 cut(s) 432, 754
BspLI GGNNCC 2 cut(s) 981, 1216
BspPI GGATC 3 cut(s) 299, 392, 496
BspQI GCTCTTC 1 cut(s) 417
BspT107I GGYRCC 1 cut(s) 979
BsrDI GCAATG 1 cut(s) 819
BsrFI RCCGGY 1 cut(s) 173
BsrI ACTGG 4 cut(s) 77, 218, 326, 505
BssAI RCCGGY 1 cut(s) 173
BssECI CCNNGG 6 cut(s) 360, 460, 529, 587, 863, 1144
BssMI GATC 4 cut(s) 291, 384, 501, 1058
BssNI GRCGYC 1 cut(s) 1181
BssT1I CCWWGG 2 cut(s) 529, 1144
Bst2UI CCWGG 1 cut(s) 865
Bst4CI ACNGT 8 cut(s) 194, 227, 287, 620, 683, 794, 1085, 1158
Bst6I CTCTTC 2 cut(s) 417, 1037
BstACI GRCGYC 1 cut(s) 1181
BstBAI YACGTR 2 cut(s) 298, 511
BstC8I GCNNGC 1 cut(s) 554
BstDEI CTNAG 3 cut(s) 310, 1011, 1029
BstDSI CCRYGG 4 cut(s) 360, 460, 529, 587
BstEII GGTNACC 3 cut(s) 155, 176, 301
BstF5I GGATG 1 cut(s) 525
BstFNI CGCG 1 cut(s) 1025
BstHHI GCGC 2 cut(s) 248, 1027
BstKTI GATC 4 cut(s) 294, 387, 504, 1061
BstMAI GTCTC 4 cut(s) 43, 239, 393, 634
BstMBI GATC 4 cut(s) 291, 384, 501, 1058
BstMCI CGRYCG 2 cut(s) 174, 289
BstMWI GCNNNNNNNGC 2 cut(s) 134, 245
BstNI CCWGG 1 cut(s) 865
BstPI GGTNACC 3 cut(s) 155, 176, 301
BstSCI CCNGG 2 cut(s) 340, 863
BstSLI GKGCMC 1 cut(s) 1198
BstUI CGCG 1 cut(s) 1025
BstV1I GCAGC 1 cut(s) 1124
BstV2I GAAGAC 1 cut(s) 1152
BstX2I RGATCY 2 cut(s) 291, 1058
BstYI RGATCY 2 cut(s) 291, 1058
Bsu15I ATCGAT 1 cut(s) 453
BsuI GTATCC 1 cut(s) 872
BsuRI GGCC 4 cut(s) 279, 459, 490, 846
BsuTUI ATCGAT 1 cut(s) 453
BtgI CCRYGG 4 cut(s) 360, 460, 529, 587
BtsCI GGATG 1 cut(s) 525
BtsIMutI CAGTG 2 cut(s) 211, 1196
Cac8I GCNNGC 1 cut(s) 554
CaiI CAGNNNCTG 1 cut(s) 83
CciI TCATGA 2 cut(s) 432, 754
CfoI GCGC 2 cut(s) 248, 1027
Cfr10I RCCGGY 1 cut(s) 173
Cfr13I GGNCC 3 cut(s) 364, 488, 1172
ClaI ATCGAT 1 cut(s) 453
CseI GACGC 2 cut(s) 117, 1031
Csp6I GTAC 3 cut(s) 168, 473, 508
CspAI ACCGGT 1 cut(s) 173
CspCI CAANNNNNGTGG 2 cut(s) 541, 576
CviQI GTAC 3 cut(s) 168, 473, 508
DdeI CTNAG 3 cut(s) 310, 1011, 1029
DpnI GATC 4 cut(s) 293, 386, 503, 1060
DpnII GATC 4 cut(s) 291, 384, 501, 1058
DraIII CACNNNGTG 1 cut(s) 361
EaeI YGGCCR 2 cut(s) 277, 457
Eam1104I CTCTTC 2 cut(s) 417, 1037
EarI CTCTTC 2 cut(s) 417, 1037
Ecl136II GAGCTC 1 cut(s) 582
Eco130I CCWWGG 2 cut(s) 529, 1144
Eco147I AGGCCT 1 cut(s) 846
Eco24I GRGCYC 2 cut(s) 584, 716
Eco32I GATATC 1 cut(s) 612
Eco47I GGWCC 2 cut(s) 364, 1172
Eco53kI GAGCTC 1 cut(s) 582
Eco91I GGTNACC 3 cut(s) 155, 176, 301
EcoICRI GAGCTC 1 cut(s) 582
EcoO65I GGTNACC 3 cut(s) 155, 176, 301
EcoRII CCWGG 1 cut(s) 863
EcoRV GATATC 1 cut(s) 612
EcoT14I CCWWGG 2 cut(s) 529, 1144
EcoT38I GRGCYC 2 cut(s) 584, 716
ErhI CCWWGG 2 cut(s) 529, 1144
Esp3I CGTCTC 1 cut(s) 239
FalI AAGNNNNNCTT 4 cut(s) 8, 40, 678, 710
FauNDI CATATG 1 cut(s) 744
FblI GTMKAC 2 cut(s) 871, 1184
Fnu4HI GCNGC 1 cut(s) 1113
FokI GGATG 1 cut(s) 512
FriOI GRGCYC 2 cut(s) 584, 716
Fsp4HI GCNGC 1 cut(s) 1113
FspBI CTAG 2 cut(s) 1122, 1166
GlaI GCGC 2 cut(s) 247, 1026
GluI GCNGC 1 cut(s) 1113
HaeIII GGCC 4 cut(s) 279, 459, 490, 846
HapII CCGG 3 cut(s) 174, 342, 1065
HgaI GACGC 2 cut(s) 117, 1031
HhaI GCGC 2 cut(s) 248, 1027
Hin1I GRCGYC 1 cut(s) 1181
Hin6I GCGC 2 cut(s) 246, 1025
HinP1I GCGC 2 cut(s) 246, 1025
HincII GTYRAC 2 cut(s) 230, 661
HindII GTYRAC 2 cut(s) 230, 661
HinfI GANTC 5 cut(s) 92, 255, 308, 409, 535
HpaII CCGG 3 cut(s) 174, 342, 1065
HphI GGTGA 6 cut(s) 22, 66, 295, 632, 851, 904
Hpy166II GTNNAC 8 cut(s) 112, 230, 475, 661, 872, 895, 1185, 1196
Hpy188I TCNGA 3 cut(s) 291, 616, 992
Hpy188III TCNNGA 8 cut(s) 83, 312, 382, 433, 445, 755, 797, 1065
Hpy8I GTNNAC 8 cut(s) 112, 230, 475, 661, 872, 895, 1185, 1196
Hpy99I CGWCG 3 cut(s) 133, 191, 721
HpyAV CCTTC 2 cut(s) 138, 836
HpyCH4III ACNGT 8 cut(s) 194, 227, 287, 620, 683, 794, 1085, 1158
HpyCH4IV ACGT 4 cut(s) 232, 297, 510, 1181
HpyCH4V TGCA 7 cut(s) 10, 137, 552, 811, 1112, 1130, 1196
HpyF10VI GCNNNNNNNGC 2 cut(s) 134, 245
HpyF3I CTNAG 3 cut(s) 310, 1011, 1029
HpySE526I ACGT 4 cut(s) 232, 297, 510, 1181
Hsp92I GRCGYC 1 cut(s) 1181
HspAI GCGC 2 cut(s) 246, 1025
Kpn2I TCCGGA 1 cut(s) 1064
Kzo9I GATC 4 cut(s) 291, 384, 501, 1058
LguI GCTCTTC 1 cut(s) 417
LmnI GCTCC 3 cut(s) 61, 217, 579
Lsp1109I GCAGC 1 cut(s) 1124
LweI GCATC 1 cut(s) 691
MaeI CTAG 2 cut(s) 1122, 1166
MaeII ACGT 4 cut(s) 232, 297, 510, 1181
MaeIII GTNAC 9 cut(s) 155, 176, 203, 281, 301, 511, 797, 814, 1006
MalI GATC 4 cut(s) 293, 386, 503, 1060
MboI GATC 4 cut(s) 291, 384, 501, 1058
MflI RGATCY 2 cut(s) 291, 1058
MhlI GDGCHC 3 cut(s) 584, 716, 1198
MluCI AATT 2 cut(s) 1051, 1201
MlyI GAGTC 1 cut(s) 302
MmeI TCCRAC 3 cut(s) 269, 418, 1150
MnlI CCTC 5 cut(s) 170, 219, 635, 1012, 1126
MroI TCCGGA 1 cut(s) 1064
MroXI GAANNNNTTC 2 cut(s) 108, 440
MseI TTAA 3 cut(s) 123, 350, 828
MslI CAYNNNNRTG 2 cut(s) 543, 837
MspI CCGG 3 cut(s) 174, 342, 1065
MspR9I CCNGG 2 cut(s) 342, 865
Mva1269I GAATGC 1 cut(s) 864
MvaI CCWGG 1 cut(s) 865
MvnI CGCG 1 cut(s) 1025
MwoI GCNNNNNNNGC 2 cut(s) 134, 245
NciI CCSGG 1 cut(s) 342
NcoI CCATGG 1 cut(s) 529
NdeI CATATG 1 cut(s) 744
NdeII GATC 4 cut(s) 291, 384, 501, 1058
NlaIV GGNNCC 2 cut(s) 981, 1216
NmuCI GTSAC 6 cut(s) 203, 281, 301, 511, 797, 1006
PagI TCATGA 2 cut(s) 432, 754
PceI AGGCCT 1 cut(s) 846
PciSI GCTCTTC 1 cut(s) 417
PcsI WCGNNNNNNNCGW 1 cut(s) 303
PctI GAATGC 1 cut(s) 864
PdmI GAANNNNTTC 2 cut(s) 108, 440
PfeI GAWTC 4 cut(s) 92, 255, 409, 535
PinAI ACCGGT 1 cut(s) 173
PkrI GCNGC 1 cut(s) 1114
PleI GAGTC 1 cut(s) 302
PpsI GAGTC 1 cut(s) 302
Ppu21I YACGTR 2 cut(s) 298, 511
PshBI ATTAAT 1 cut(s) 123
Psp124BI GAGCTC 1 cut(s) 584
Psp6I CCWGG 1 cut(s) 863
PspEI GGTNACC 3 cut(s) 155, 176, 301
PspGI CCWGG 1 cut(s) 863
PspN4I GGNNCC 2 cut(s) 981, 1216
PspPI GGNCC 3 cut(s) 364, 488, 1172
PsrI GAACNNNNNNTAC 2 cut(s) 887, 919
PstNI CAGNNNCTG 1 cut(s) 83
PsuI RGATCY 2 cut(s) 291, 1058
RsaI GTAC 3 cut(s) 169, 474, 509
RsaNI GTAC 3 cut(s) 168, 473, 508
RseI CAYNNNNRTG 2 cut(s) 543, 837
SacI GAGCTC 1 cut(s) 584
SapI GCTCTTC 1 cut(s) 417
SaqAI TTAA 3 cut(s) 123, 350, 828
SatI GCNGC 1 cut(s) 1113
Sau3AI GATC 4 cut(s) 291, 384, 501, 1058
Sau96I GGNCC 3 cut(s) 364, 488, 1172
SchI GAGTC 1 cut(s) 302
ScrFI CCNGG 2 cut(s) 342, 865
SduI GDGCHC 3 cut(s) 584, 716, 1198
SfaNI GCATC 1 cut(s) 691
SinI GGWCC 2 cut(s) 364, 1172
SmiMI CAYNNNNRTG 2 cut(s) 543, 837
Sse9I AATT 2 cut(s) 1051, 1201
SseBI AGGCCT 1 cut(s) 846
SsiI CCGC 1 cut(s) 577
SspMI CTAG 2 cut(s) 1122, 1166
SstI GAGCTC 1 cut(s) 584
StuI AGGCCT 1 cut(s) 846
StyD4I CCNGG 2 cut(s) 340, 863
StyI CCWWGG 2 cut(s) 529, 1144
TaaI ACNGT 8 cut(s) 194, 227, 287, 620, 683, 794, 1085, 1158
TaiI ACGT 4 cut(s) 235, 300, 513, 1184
TaqI TCGA 4 cut(s) 186, 453, 716, 1139
TasI AATT 2 cut(s) 1051, 1201
TfiI GAWTC 4 cut(s) 92, 255, 409, 535
Tru1I TTAA 3 cut(s) 123, 350, 828
Tru9I TTAA 3 cut(s) 123, 350, 828
TscAI CASTG 2 cut(s) 218, 1203
TseFI GTSAC 6 cut(s) 203, 281, 301, 511, 797, 1006
TseI GCWGC 1 cut(s) 1112
Tsp45I GTSAC 6 cut(s) 203, 281, 301, 511, 797, 1006
TspDTI ATGAA 3 cut(s) 17, 449, 527
TspGWI ACGGA 2 cut(s) 460, 1089
TspRI CASTG 2 cut(s) 218, 1203
VneI GTGCAC 1 cut(s) 1194
VpaK11BI GGWCC 2 cut(s) 364, 1172
VspI ATTAAT 1 cut(s) 123
XmiI GTMKAC 2 cut(s) 871, 1184
XmnI GAANNNNTTC 2 cut(s) 108, 440
XspI CTAG 2 cut(s) 1122, 1166
ZraI GACGTC 1 cut(s) 1182
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.