AT3G24670

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0008200
Physical Location & Seq
Reverse (-)
9005939 .. 9008801
2863 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G24670.1

Sequence Viewer

Length: 1323 bp
ATGGTGATCTTTAGCAGAAGCTTCTTAGCTCTCTCAACGACTCTAATCATTCTAGCATTATGTATAAATTCATCAACAATGGCTCAAGAAACAGAGGACCTAAACTCTCATAGCTCGAGTAATTCATCAACGGCTAATAAGTTACCTAACGACGACGGTGCATGGAATGAACACGCAGTTAAAAACCCAGAAGAAGTAGCTGCAATGGTCGATATGAAAATAAAGAACAGTACAGAGCGGAGGAGGTTAGGATTCTTCTCATGCGCCACCGGAAACCCAATAGACGACTGTTGGAGATGTGATCGGAATTGGCATCTCCGACGAAAGCGTCTCGCGAATTGCGCGATCGGATTCGGTCGTAACGCTATCGGAGGACGAGATGGTCGTTACTACGTAGTCACAGATCCATCTGACCACGACGCGGTTAATCCACGACCAGGAACACTCCGTCACGCTGTGATACAAGACCGTCCGTTATGGATCGTCTTCAAGCGAGACATGGTGATTACTCTAACTCAAGAGCTAATCATGAACAGCTTCAAAACAATCGATGGAAGAGGCGTGAACGTTGCAATCGCAGGCGGTGCTTGTATTACGATTCAGTATGTGACGAATATTATCATCCATGGGATTAATGTACATGATTGTAGAAGAACTGGTAATGCTATGGTTCGAAGCTCGCCGTCGCATTATGGGTGGAGGACTATGGCGGATGGTGATGCTATATCGATATTTGGATCGAGTCATATTTGGATTGATCATAACTCTTTGTCTAATTGTGCTGATGGTTTGATTGATGCTATTATGGGATCTACTGCTATTACTATCTCCAATAACTACATGACTCACCACAACGAGGTTATGTTGATGGGGCATAGTGATTCGTACACTAGAGACAAGTTGATGCAAGTGACAATAGCATATAACCATTTTGGGGAAGGGCTTATACAGAGAATGCCGAGGTGTAGACATGGTTATTTCCATGTTGTAAACAATGATTATACTCATTGGGTAATGTATGCAATTGGTGGAAGTGCTAACCCTACTATCAATAGTCAAGGCAATCGTTTCCTTGCCCCGGGCAACCCTTTCGCCAAAGAGGTGACAAAGAGGGTAGGTTCATGGCAAGGGGAATGGAAGCAATGGAACTGGAGATCTCAAGGAGACCTAATGCTCAACGGTGCCTACTTCACTAAATCTGGAGCTGCTGCTCCTGCAAGCTATGCCAGAGCCTCTAGCTTGGGAGCTAAACCAGCTTCTGTAGTAAGTATGCTTACCTACAGCTCCGGTGCCCTTAAATGCAGGATCGGTATGCGGTGTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0016020
KEGG Pathways
Metabolic & Signaling
ko00040 ko02024 map00040 map02024
Pfam Domains
Protein Families
Pec_lyase_C

Protein Analysis

440

Amino Acids

48.76

Weight (kDa)

9.09

Isoelectric Point (pI)

40.06

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 177 - 374 1.1e-18 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)
AasI GACNNNNNNGTC 2 cut(s) 327, 381
AccB1I GGYRCC 2 cut(s) 1181, 1289
AccBSI CCGCTC 1 cut(s) 238
AccI GTMKAC 1 cut(s) 967
AccII CGCG 3 cut(s) 335, 344, 422
AciI CCGC 5 cut(s) 238, 422, 582, 710, 1315
AclI AACGTT 1 cut(s) 567
AclWI GGATC 5 cut(s) 398, 488, 745, 817, 1313
AcsI RAATTY 1 cut(s) 67
AdeI CACNNNGTG 1 cut(s) 457
AfaI GTAC 3 cut(s) 232, 639, 887
AfiI CCNNNNNNNGG 5 cut(s) 421, 437, 856, 934, 1078
AgsI TTSAA 2 cut(s) 490, 541
AjnI CCWGG 1 cut(s) 436
Alw26I GTCTC 4 cut(s) 335, 489, 888, 1158
AlwI GGATC 5 cut(s) 398, 488, 745, 817, 1313
AlwNI CAGNNNCTG 1 cut(s) 1259
Ama87I CYCGRG 2 cut(s) 115, 1078
ApeKI GCWGC 3 cut(s) 200, 1205, 1208
ApoI RAATTY 1 cut(s) 67
AseI ATTAAT 1 cut(s) 633
Asp700I GAANNNNTTC 1 cut(s) 536
AspLEI GCGC 2 cut(s) 266, 344
AspS9I GGNCC 1 cut(s) 97
AsuC2I CCSGG 2 cut(s) 1079, 1080
AsuHPI GGTGA 5 cut(s) 16, 514, 728, 839, 1114
AsuII TTCGAA 1 cut(s) 673
AvaI CYCGRG 2 cut(s) 115, 1078
AvaII GGWCC 1 cut(s) 97
BaeGI GKGCMC 1 cut(s) 1294
BanI GGYRCC 2 cut(s) 1181, 1289
BarI GAAGNNNNNNTAC 2 cut(s) 930, 962
BbsI GAAGAC 1 cut(s) 478
BbvI GCAGC 3 cut(s) 187, 1192, 1195
BccI CCATC 6 cut(s) 374, 415, 545, 707, 779, 862
BceAI ACGGC 2 cut(s) 147, 667
BcgI CGANNNNNNTGC 4 cut(s) 140, 174, 1072, 1106
BciT130I CCWGG 1 cut(s) 438
BclI TGATCA 1 cut(s) 757
BcnI CCSGG 2 cut(s) 1079, 1080
BcoDI GTCTC 4 cut(s) 335, 489, 888, 1158
BfaI CTAG 3 cut(s) 53, 891, 1236
BfmI CTRYAG 2 cut(s) 1260, 1279
BglII AGATCT 1 cut(s) 1154
BisI GCNGC 3 cut(s) 201, 1206, 1209
BlsI GCNGC 3 cut(s) 202, 1207, 1210
Bme1390I CCNGG 3 cut(s) 438, 1079, 1080
Bme18I GGWCC 1 cut(s) 97
BmeT110I CYCGRG 2 cut(s) 115, 1078
BmgT120I GGNCC 1 cut(s) 97
BmiI GGNNCC 2 cut(s) 1183, 1291
BmrFI CCNGG 3 cut(s) 438, 1079, 1080
BmsI GCATC 4 cut(s) 322, 709, 787, 894
BpiI GAAGAC 1 cut(s) 478
BpmI CTGGAG 2 cut(s) 1171, 1221
Bpu14I TTCGAA 1 cut(s) 673
BpuEI CTTGAG 3 cut(s) 69, 501, 1143
BpuMI CCSGG 2 cut(s) 1079, 1080
Bsa29I ATCGAT 2 cut(s) 549, 728
BsaAI YACGTR 1 cut(s) 394
BsaI GGTCTC 1 cut(s) 1158
BsaJI CCNNGG 4 cut(s) 625, 959, 1077, 1078
BsaWI WCCGGW 2 cut(s) 269, 1286
Bsc4I CCNNNNNNNGG 5 cut(s) 421, 437, 856, 934, 1078
Bse1I ACTGG 2 cut(s) 661, 1154
Bse3DI GCAATG 2 cut(s) 210, 1148
BseBI CCWGG 1 cut(s) 438
BseCI ATCGAT 2 cut(s) 549, 728
BseDI CCNNGG 4 cut(s) 625, 959, 1077, 1078
BseGI GGATG 2 cut(s) 621, 718
BseLI CCNNNNNNNGG 5 cut(s) 421, 437, 856, 934, 1078
BseMI GCAATG 2 cut(s) 210, 1148
BseNI ACTGG 2 cut(s) 661, 1154
BseRI GAGGAG 1 cut(s) 256
BseSI GKGCMC 1 cut(s) 1294
BseXI GCAGC 3 cut(s) 187, 1192, 1195
Bsh1236I CGCG 3 cut(s) 335, 344, 422
Bsh1285I CGRYCG 2 cut(s) 348, 358
BshNI GGYRCC 2 cut(s) 1181, 1289
BshVI ATCGAT 2 cut(s) 549, 728
BsiEI CGRYCG 2 cut(s) 348, 358
BsiHKCI CYCGRG 2 cut(s) 115, 1078
BsiSI CCGG 3 cut(s) 270, 1079, 1287
BslI CCNNNNNNNGG 5 cut(s) 421, 437, 856, 934, 1078
BsmAI GTCTC 4 cut(s) 335, 489, 888, 1158
BsmBI CGTCTC 1 cut(s) 335
BsmI GAATGC 1 cut(s) 960
Bso31I GGTCTC 1 cut(s) 1158
BsoBI CYCGRG 2 cut(s) 115, 1078
Bsp119I TTCGAA 1 cut(s) 673
Bsp1286I GDGCHC 1 cut(s) 1294
Bsp1407I TGTACA 1 cut(s) 637
Bsp19I CCATGG 1 cut(s) 625
Bsp68I TCGCGA 1 cut(s) 335
BspACI CCGC 5 cut(s) 238, 422, 582, 710, 1315
BspDI ATCGAT 2 cut(s) 549, 728
BspFNI CGCG 3 cut(s) 335, 344, 422
BspHI TCATGA 1 cut(s) 528
BspLI GGNNCC 2 cut(s) 1183, 1291
BspPI GGATC 5 cut(s) 398, 488, 745, 817, 1313
BspT104I TTCGAA 1 cut(s) 673
BspT107I GGYRCC 2 cut(s) 1181, 1289
BspTNI GGTCTC 1 cut(s) 1158
BsrBI CCGCTC 1 cut(s) 238
BsrDI GCAATG 2 cut(s) 210, 1148
BsrGI TGTACA 1 cut(s) 637
BsrI ACTGG 2 cut(s) 661, 1154
BssECI CCNNGG 4 cut(s) 625, 959, 1077, 1078
BssT1I CCWWGG 1 cut(s) 625
Bst2UI CCWGG 1 cut(s) 438
Bst4CI ACNGT 5 cut(s) 158, 230, 290, 470, 1181
Bst6I CTCTTC 1 cut(s) 550
BstAPI GCANNNNNTGC 2 cut(s) 584, 1223
BstAUI TGTACA 1 cut(s) 637
BstBAI YACGTR 1 cut(s) 394
BstBI TTCGAA 1 cut(s) 673
BstC8I GCNNGC 3 cut(s) 580, 680, 1219
BstDEI CTNAG 1 cut(s) 25
BstDSI CCRYGG 1 cut(s) 625
BstF5I GGATG 2 cut(s) 621, 718
BstFNI CGCG 3 cut(s) 335, 344, 422
BstHHI GCGC 2 cut(s) 266, 344
BstMAI GTCTC 4 cut(s) 335, 489, 888, 1158
BstMCI CGRYCG 2 cut(s) 348, 358
BstMWI GCNNNNNNNGC 5 cut(s) 341, 584, 1214, 1223, 1253
BstNI CCWGG 1 cut(s) 438
BstSCI CCNGG 3 cut(s) 436, 1077, 1078
BstSFI CTRYAG 2 cut(s) 1260, 1279
BstSLI GKGCMC 1 cut(s) 1294
BstSNI TACGTA 1 cut(s) 394
BstUI CGCG 3 cut(s) 335, 344, 422
BstV1I GCAGC 3 cut(s) 187, 1192, 1195
BstV2I GAAGAC 1 cut(s) 478
BstX2I RGATCY 3 cut(s) 403, 809, 1154
BstYI RGATCY 3 cut(s) 403, 809, 1154
Bsu15I ATCGAT 2 cut(s) 549, 728
BsuTUI ATCGAT 2 cut(s) 549, 728
BtgI CCRYGG 1 cut(s) 625
BtsCI GGATG 2 cut(s) 621, 718
BtuMI TCGCGA 1 cut(s) 335
Cac8I GCNNGC 3 cut(s) 580, 680, 1219
CaiI CAGNNNCTG 1 cut(s) 1259
CciI TCATGA 1 cut(s) 528
CfoI GCGC 2 cut(s) 266, 344
Cfr13I GGNCC 1 cut(s) 97
Cfr9I CCCGGG 1 cut(s) 1078
ClaI ATCGAT 2 cut(s) 549, 728
CseI GACGC 2 cut(s) 317, 428
Csp6I GTAC 3 cut(s) 231, 638, 886
CviQI GTAC 3 cut(s) 231, 638, 886
DdeI CTNAG 1 cut(s) 25
DraIII CACNNNGTG 1 cut(s) 457
DrdI GACNNNNNNGTC 2 cut(s) 327, 381
DseDI GACNNNNNNGTC 2 cut(s) 327, 381
Eam1104I CTCTTC 1 cut(s) 550
EarI CTCTTC 1 cut(s) 550
EciI GGCGGA 1 cut(s) 725
Eco105I TACGTA 1 cut(s) 394
Eco130I CCWWGG 1 cut(s) 625
Eco31I GGTCTC 1 cut(s) 1158
Eco47I GGWCC 1 cut(s) 97
Eco88I CYCGRG 2 cut(s) 115, 1078
EcoO109I RGGNCCY 1 cut(s) 97
EcoRII CCWGG 1 cut(s) 436
EcoT14I CCWWGG 1 cut(s) 625
ErhI CCWWGG 1 cut(s) 625
Esp3I CGTCTC 1 cut(s) 335
FbaI TGATCA 1 cut(s) 757
FblI GTMKAC 1 cut(s) 967
Fnu4HI GCNGC 3 cut(s) 201, 1206, 1209
FokI GGATG 2 cut(s) 608, 725
Fsp4HI GCNGC 3 cut(s) 201, 1206, 1209
FspBI CTAG 3 cut(s) 53, 891, 1236
GlaI GCGC 2 cut(s) 265, 343
GluI GCNGC 3 cut(s) 201, 1206, 1209
GsuI CTGGAG 2 cut(s) 1171, 1221
HapII CCGG 3 cut(s) 270, 1079, 1287
HgaI GACGC 2 cut(s) 317, 428
HhaI GCGC 2 cut(s) 266, 344
Hin6I GCGC 2 cut(s) 264, 342
HinP1I GCGC 2 cut(s) 264, 342
HindIII AAGCTT 1 cut(s) 19
HinfI GANTC 7 cut(s) 40, 252, 351, 598, 742, 844, 881
HpaII CCGG 3 cut(s) 270, 1079, 1287
HphI GGTGA 5 cut(s) 16, 514, 728, 839, 1114
Hpy166II GTNNAC 4 cut(s) 565, 888, 968, 991
Hpy188I TCNGA 5 cut(s) 306, 320, 350, 371, 412
Hpy188III TCNNGA 5 cut(s) 86, 334, 518, 529, 1200
Hpy8I GTNNAC 4 cut(s) 565, 888, 968, 991
Hpy99I CGWCG 5 cut(s) 155, 158, 324, 422, 688
HpyAV CCTTC 1 cut(s) 932
HpyCH4III ACNGT 5 cut(s) 158, 230, 290, 470, 1181
HpyCH4IV ACGT 2 cut(s) 393, 567
HpyCH4V TGCA 7 cut(s) 161, 203, 572, 907, 1022, 1217, 1302
HpyF10VI GCNNNNNNNGC 5 cut(s) 341, 584, 1214, 1223, 1253
HpyF3I CTNAG 1 cut(s) 25
HpySE526I ACGT 2 cut(s) 393, 567
HspAI GCGC 2 cut(s) 264, 342
Ksp22I TGATCA 1 cut(s) 757
LmnI GCTCC 4 cut(s) 1202, 1216, 1244, 1289
Lsp1109I GCAGC 3 cut(s) 187, 1192, 1195
LweI GCATC 4 cut(s) 322, 709, 787, 894
MaeI CTAG 3 cut(s) 53, 891, 1236
MaeII ACGT 2 cut(s) 393, 567
MaeIII GTNAC 8 cut(s) 141, 359, 386, 397, 449, 607, 910, 1102
MbiI CCGCTC 1 cut(s) 238
MboII GAAGA 5 cut(s) 203, 247, 478, 567, 663
MfeI CAATTG 1 cut(s) 1023
MflI RGATCY 3 cut(s) 403, 809, 1154
MhlI GDGCHC 1 cut(s) 1294
MluCI AATT 6 cut(s) 67, 121, 307, 337, 775, 1023
MlyI GAGTC 3 cut(s) 34, 751, 838
MmeI TCCRAC 2 cut(s) 272, 343
MroXI GAANNNNTTC 1 cut(s) 536
MseI TTAA 4 cut(s) 180, 426, 633, 1296
MspI CCGG 3 cut(s) 270, 1079, 1287
MspR9I CCNGG 3 cut(s) 438, 1079, 1080
MunI CAATTG 1 cut(s) 1023
Mva1269I GAATGC 1 cut(s) 960
MvaI CCWGG 1 cut(s) 438
MvnI CGCG 3 cut(s) 335, 344, 422
MwoI GCNNNNNNNGC 5 cut(s) 341, 584, 1214, 1223, 1253
NciI CCSGG 2 cut(s) 1079, 1080
NcoI CCATGG 1 cut(s) 625
NlaIV GGNNCC 2 cut(s) 1183, 1291
NmeAIII GCCGAG 1 cut(s) 984
NmuCI GTSAC 5 cut(s) 397, 449, 607, 910, 1102
NruI TCGCGA 1 cut(s) 335
NspV TTCGAA 1 cut(s) 673
PaeR7I CTCGAG 1 cut(s) 115
PagI TCATGA 1 cut(s) 528
PcsI WCGNNNNNNNCGW 1 cut(s) 382
PctI GAATGC 1 cut(s) 960
PdmI GAANNNNTTC 1 cut(s) 536
PfeI GAWTC 4 cut(s) 252, 351, 598, 881
PkrI GCNGC 3 cut(s) 202, 1207, 1210
Ple19I CGATCG 1 cut(s) 348
PleI GAGTC 3 cut(s) 34, 750, 838
PpsI GAGTC 3 cut(s) 34, 750, 838
Ppu21I YACGTR 1 cut(s) 394
PpuMI RGGWCCY 1 cut(s) 97
PshBI ATTAAT 1 cut(s) 633
Psp1406I AACGTT 1 cut(s) 567
Psp5II RGGWCCY 1 cut(s) 97
Psp6I CCWGG 1 cut(s) 436
PspGI CCWGG 1 cut(s) 436
PspN4I GGNNCC 2 cut(s) 1183, 1291
PspPI GGNCC 1 cut(s) 97
PspPPI RGGWCCY 1 cut(s) 97
PspXI VCTCGAGB 1 cut(s) 115
PstNI CAGNNNCTG 1 cut(s) 1259
PsuI RGATCY 3 cut(s) 403, 809, 1154
PvuI CGATCG 1 cut(s) 348
RruI TCGCGA 1 cut(s) 335
RsaI GTAC 3 cut(s) 232, 639, 887
RsaNI GTAC 3 cut(s) 231, 638, 886
SaqAI TTAA 4 cut(s) 180, 426, 633, 1296
SatI GCNGC 3 cut(s) 201, 1206, 1209
Sau96I GGNCC 1 cut(s) 97
SchI GAGTC 3 cut(s) 34, 751, 838
ScrFI CCNGG 3 cut(s) 438, 1079, 1080
SduI GDGCHC 1 cut(s) 1294
SfaNI GCATC 4 cut(s) 322, 709, 787, 894
SfcI CTRYAG 2 cut(s) 1260, 1279
Sfr274I CTCGAG 1 cut(s) 115
SfuI TTCGAA 1 cut(s) 673
SinI GGWCC 1 cut(s) 97
SlaI CTCGAG 1 cut(s) 115
SmaI CCCGGG 1 cut(s) 1080
SmlI CTYRAG 4 cut(s) 84, 115, 516, 1158
SmoI CTYRAG 4 cut(s) 84, 115, 516, 1158
SnaBI TACGTA 1 cut(s) 394
Sse9I AATT 6 cut(s) 67, 121, 307, 337, 775, 1023
SsiI CCGC 5 cut(s) 238, 422, 582, 710, 1315
SspI AATATT 1 cut(s) 616
SspMI CTAG 3 cut(s) 53, 891, 1236
StyD4I CCNGG 3 cut(s) 436, 1077, 1078
StyI CCWWGG 1 cut(s) 625
TaaI ACNGT 5 cut(s) 158, 230, 290, 470, 1181
TaiI ACGT 2 cut(s) 396, 570
TaqI TCGA 6 cut(s) 116, 210, 549, 673, 728, 740
TaqII GACCGA 1 cut(s) 344
TasI AATT 6 cut(s) 67, 121, 307, 337, 775, 1023
TatI WGTACW 2 cut(s) 230, 637
TfiI GAWTC 4 cut(s) 252, 351, 598, 881
Tru1I TTAA 4 cut(s) 180, 426, 633, 1296
Tru9I TTAA 4 cut(s) 180, 426, 633, 1296
TseFI GTSAC 5 cut(s) 397, 449, 607, 910, 1102
TseI GCWGC 3 cut(s) 200, 1205, 1208
Tsp45I GTSAC 5 cut(s) 397, 449, 607, 910, 1102
TspDTI ATGAA 6 cut(s) 60, 114, 183, 230, 545, 1110
TspGWI ACGGA 2 cut(s) 437, 462
TspMI CCCGGG 1 cut(s) 1078
VpaK11BI GGWCC 1 cut(s) 97
VspI ATTAAT 1 cut(s) 633
XapI RAATTY 1 cut(s) 67
XhoI CTCGAG 1 cut(s) 115
XmaI CCCGGG 1 cut(s) 1078
XmiI GTMKAC 1 cut(s) 967
XmnI GAANNNNTTC 1 cut(s) 536
XspI CTAG 3 cut(s) 53, 891, 1236
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.