AT5G63180

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0006447
Physical Location & Seq
Reverse (-)
25340914 .. 25343369
2456 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G63180.1

Sequence Viewer

Length: 1299 bp
ATGTTTCGTCCCAATTCTCTTTTAATACCTTCAAATTTATCAACAACAAAAAGCCAAAGAAACACAATGCTAAATTCTTCATATCTATCCTTCGCACTTATCTTTTTCTGCTGCATTTTGTTCTCCGCTCTCGCTTCGTCTTTGCCCGTTTCCGACCCTGAGCTTGTTGTCGAGGAAGTACACAGAAAAATAAACGAGTCCATATCAAGAAGGAAGCTAGGGTTCTTCTCGTGCGGGAGTGGTAATCCAATCGATGATTGTTGGCGATGCGACAAGGATTGGGAGAAAAACCGAAAACGGTTAGCAGACTGTGGTATCGGTTTTGGCAAGAACGCTATTGGCGGTCGTGATGGTGAAATCTATGTGGTCACGGATCCAGGAAACGATGATCCAGTAAACCCTAGACCGGGAACACTAAGATACGCAGTCATTCAAGATGAACCGCTATGGATCATTTTTAAGCGAGACATGACGATCCAACTAAAAGAAGAACTCATCATGAATTCTTTCAAAACCCTAGACGGACGAGGAGCCTCCGTACACATCTCCGGTGGGCCATGTATAACCATACAATATGTAACCAACATCATCATCCATGGTTTACACATACATGACTGCAAGCAAGGTGGGAATACTTACGTACGTGACTCACCAGAGCATTACGGATATAGAACGGTATCCGACGGTGACGGTGTGTCAATATTCGGTGGAAGCCACGTGTGGGTTGATCATTGCTCGCTATCGAATTGCAACGACGGGTTAATTGATGCAATTCGTGGATCAACGGCTATAACGATCTCGAACAATTATTTGACGCATCATAATAAGGTTATGTTATTGGGACACAGTGATACGTACGAACAAGACAAGAACATGCAAGTCACTATCGCTTTTAACCATTTTGGAGAAGGCCTCGTCCAAAGAATGCCAAGGTGTAGACATGGATATTTCCATGTGGTGAACAATGACTATACACATTGGGAAATGTATGCAATTGGAGGAAGTGCTAATCCTACCATCAACTCTCAAGGCAACCGTTTTCTTGCTCCTGATGACTCATCTAGCAAAGAGGTAACAAAGCACGAGGATGCGCCGGAAGACGAATGGAGAAATTGGAATTGGAGATCTGAAGGAGATCTACTGCTTAATGGTGCATTCTTCACCTATTCTGGTGCTGGACCAGCTAAATCATCAAGCTATTCAAAAGCTTCGAGTCTAGCCGCGAGACCGTCCTCTCATGTTGGTGAGATAACTATAGCCTCGGGTGCACTCAGCTGCAAAAGGGGTTCTCATTGTTGA
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

432

Amino Acids

47.89

Weight (kDa)

6.41

Isoelectric Point (pI)

35.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 188 - 363 1.5e-20 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)
AccBSI CCGCTC 1 cut(s) 128
AccI GTMKAC 1 cut(s) 937
AccII CGCG 1 cut(s) 1223
AciI CCGC 5 cut(s) 126, 234, 342, 443, 1221
AclWI GGATC 6 cut(s) 368, 381, 383, 458, 469, 787
AcsI RAATTY 3 cut(s) 34, 73, 502
AcuI CTGAAG 1 cut(s) 1149
AcvI CACGTG 1 cut(s) 718
AfaI GTAC 4 cut(s) 180, 540, 642, 857
AfiI CCNNNNNNNGG 3 cut(s) 406, 407, 721
AflIII ACRYGT 1 cut(s) 717
AgsI TTSAA 4 cut(s) 33, 434, 511, 1203
AhdI GACNNNNNGTC 1 cut(s) 694
AjnI CCWGG 1 cut(s) 376
AjuI GAANNNNNNNTTGG 2 cut(s) 1102, 1134
AluBI AGCT 6 cut(s) 163, 217, 1184, 1197, 1208, 1275
AluI AGCT 6 cut(s) 163, 217, 1184, 1197, 1208, 1275
Alw21I GWGCWC 1 cut(s) 1270
Alw26I GTCTC 2 cut(s) 459, 1219
Alw44I GTGCAC 1 cut(s) 1266
AlwI GGATC 6 cut(s) 368, 381, 383, 458, 469, 787
Ama87I CYCGRG 1 cut(s) 1261
AoxI GGCC 2 cut(s) 554, 910
ApaLI GTGCAC 1 cut(s) 1266
ApeKI GCWGC 2 cut(s) 111, 1275
ApoI RAATTY 3 cut(s) 34, 73, 502
Asp700I GAANNNNTTC 1 cut(s) 506
AspLEI GCGC 1 cut(s) 1093
AspS9I GGNCC 2 cut(s) 554, 1178
AsuC2I CCSGG 1 cut(s) 408
AsuHPI GGTGA 6 cut(s) 365, 642, 698, 970, 1153, 1256
AvaI CYCGRG 1 cut(s) 1261
AvaII GGWCC 1 cut(s) 1178
BaeGI GKGCMC 1 cut(s) 1270
BaeI ACNNNNGTAYC 2 cut(s) 298, 331
BamHI GGATCC 1 cut(s) 373
BarI GAAGNNNNNNTAC 2 cut(s) 1122, 1154
BauI CACGAG 2 cut(s) 229, 1082
BbrPI CACGTG 1 cut(s) 718
BbsI GAAGAC 1 cut(s) 1104
Bbv12I GWGCWC 1 cut(s) 1270
BbvI GCAGC 2 cut(s) 98, 1262
BccI CCATC 2 cut(s) 344, 1025
BceAI ACGGC 1 cut(s) 801
BciT130I CCWGG 1 cut(s) 378
BciVI GTATCC 1 cut(s) 688
BclI TGATCA 1 cut(s) 727
BcnI CCSGG 1 cut(s) 408
BcoDI GTCTC 2 cut(s) 459, 1219
BfaI CTAG 5 cut(s) 218, 402, 518, 1062, 1217
BfmI CTRYAG 1 cut(s) 1254
BfuI GTATCC 1 cut(s) 688
BglII AGATCT 2 cut(s) 1124, 1135
BisI GCNGC 3 cut(s) 112, 1221, 1276
BlsI GCNGC 3 cut(s) 113, 1222, 1277
Bme1390I CCNGG 2 cut(s) 378, 408
Bme18I GGWCC 1 cut(s) 1178
BmeRI GACNNNNNGTC 1 cut(s) 694
BmeT110I CYCGRG 1 cut(s) 1261
BmgT120I GGNCC 2 cut(s) 554, 1178
BmiI GGNNCC 2 cut(s) 375, 532
BmrFI CCNGG 2 cut(s) 378, 408
BmsI GCATC 4 cut(s) 257, 757, 826, 1078
BpiI GAAGAC 1 cut(s) 1104
BplI GAGNNNNNCTC 2 cut(s) 897, 929
Bpu10I CCTNAGC 1 cut(s) 159
BpuEI CTTGAG 1 cut(s) 1011
BpuMI CCSGG 1 cut(s) 408
Bsa29I ATCGAT 1 cut(s) 252
BsaAI YACGTR 4 cut(s) 640, 644, 718, 855
BsaI GGTCTC 1 cut(s) 1219
BsaJI CCNNGG 3 cut(s) 595, 929, 1260
BsaWI WCCGGW 1 cut(s) 548
BsaXI ACNNNNNCTCC 2 cut(s) 522, 552
Bsc4I CCNNNNNNNGG 3 cut(s) 406, 407, 721
Bse1I ACTGG 1 cut(s) 392
Bse3DI GCAATG 1 cut(s) 730
BseBI CCWGG 1 cut(s) 378
BseCI ATCGAT 1 cut(s) 252
BseDI CCNNGG 3 cut(s) 595, 929, 1260
BseGI GGATG 2 cut(s) 591, 1093
BseLI CCNNNNNNNGG 3 cut(s) 406, 407, 721
BseMI GCAATG 1 cut(s) 730
BseMII CTCAG 2 cut(s) 150, 1285
BseNI ACTGG 1 cut(s) 392
BseRI GAGGAG 1 cut(s) 543
BseSI GKGCMC 1 cut(s) 1270
BseXI GCAGC 2 cut(s) 98, 1262
Bsh1236I CGCG 1 cut(s) 1223
Bsh1285I CGRYCG 1 cut(s) 346
BshFI GGCC 2 cut(s) 556, 912
BshVI ATCGAT 1 cut(s) 252
BsiEI CGRYCG 1 cut(s) 346
BsiHKAI GWGCWC 1 cut(s) 1270
BsiHKCI CYCGRG 1 cut(s) 1261
BsiSI CCGG 3 cut(s) 407, 549, 1094
BsiWI CGTACG 2 cut(s) 640, 855
BslFI GGGAC 1 cut(s) 855
BslI CCNNNNNNNGG 3 cut(s) 406, 407, 721
BsmAI GTCTC 2 cut(s) 459, 1219
BsmFI GGGAC 1 cut(s) 855
BsmI GAATGC 2 cut(s) 930, 1154
BsnI GGCC 2 cut(s) 556, 912
Bso31I GGTCTC 1 cut(s) 1219
BsoBI CYCGRG 1 cut(s) 1261
Bsp1286I GDGCHC 1 cut(s) 1270
Bsp143I GATC 9 cut(s) 373, 388, 450, 474, 727, 779, 795, 1124, 1135
Bsp19I CCATGG 1 cut(s) 595
BspACI CCGC 5 cut(s) 126, 234, 342, 443, 1221
BspANI GGCC 2 cut(s) 556, 912
BspCNI CTCAG 2 cut(s) 151, 1284
BspDI ATCGAT 1 cut(s) 252
BspFNI CGCG 1 cut(s) 1223
BspHI TCATGA 1 cut(s) 498
BspLI GGNNCC 2 cut(s) 375, 532
BspPI GGATC 6 cut(s) 368, 381, 383, 458, 469, 787
BspTNI GGTCTC 1 cut(s) 1219
BsrBI CCGCTC 1 cut(s) 128
BsrDI GCAATG 1 cut(s) 730
BsrI ACTGG 1 cut(s) 392
BssECI CCNNGG 3 cut(s) 595, 929, 1260
BssMI GATC 9 cut(s) 373, 388, 450, 474, 727, 779, 795, 1124, 1135
BssSI CACGAG 2 cut(s) 229, 1082
BssT1I CCWWGG 2 cut(s) 595, 929
Bst2BI CACGAG 2 cut(s) 229, 1082
Bst2UI CCWGG 1 cut(s) 378
Bst4CI ACNGT 8 cut(s) 300, 311, 676, 686, 692, 848, 1037, 1230
BstBAI YACGTR 4 cut(s) 640, 644, 718, 855
BstC8I GCNNGC 2 cut(s) 620, 737
BstDEI CTNAG 3 cut(s) 159, 416, 1271
BstDSI CCRYGG 1 cut(s) 595
BstF5I GGATG 2 cut(s) 591, 1093
BstFNI CGCG 1 cut(s) 1223
BstHHI GCGC 1 cut(s) 1093
BstKTI GATC 9 cut(s) 376, 391, 453, 477, 730, 782, 798, 1127, 1138
BstMAI GTCTC 2 cut(s) 459, 1219
BstMBI GATC 9 cut(s) 373, 388, 450, 474, 727, 779, 795, 1124, 1135
BstMCI CGRYCG 1 cut(s) 346
BstMWI GCNNNNNNNGC 2 cut(s) 1181, 1265
BstNI CCWGG 1 cut(s) 378
BstNSI RCATGY 1 cut(s) 877
BstSCI CCNGG 2 cut(s) 376, 406
BstSFI CTRYAG 1 cut(s) 1254
BstSLI GKGCMC 1 cut(s) 1270
BstSNI TACGTA 2 cut(s) 640, 855
BstUI CGCG 1 cut(s) 1223
BstV1I GCAGC 2 cut(s) 98, 1262
BstV2I GAAGAC 1 cut(s) 1104
BstX2I RGATCY 3 cut(s) 373, 1124, 1135
BstYI RGATCY 3 cut(s) 373, 1124, 1135
Bsu15I ATCGAT 1 cut(s) 252
BsuI GTATCC 1 cut(s) 688
BsuRI GGCC 2 cut(s) 556, 912
BsuTUI ATCGAT 1 cut(s) 252
BtgI CCRYGG 1 cut(s) 595
BtgZI GCGATG 1 cut(s) 280
BtsCI GGATG 2 cut(s) 591, 1093
BtsIMutI CAGTG 1 cut(s) 853
Cac8I GCNNGC 2 cut(s) 620, 737
CciI TCATGA 1 cut(s) 498
CfoI GCGC 1 cut(s) 1093
Cfr13I GGNCC 2 cut(s) 554, 1178
ClaI ATCGAT 1 cut(s) 252
CseI GACGC 1 cut(s) 823
Csp6I GTAC 4 cut(s) 179, 539, 641, 856
CspCI CAANNNNNGTGG 2 cut(s) 607, 642
CviAII CATG 9 cut(s) 469, 499, 558, 596, 611, 874, 941, 953, 1238
CviQI GTAC 4 cut(s) 179, 539, 641, 856
DdeI CTNAG 3 cut(s) 159, 416, 1271
DpnI GATC 9 cut(s) 375, 390, 452, 476, 729, 781, 797, 1126, 1137
DpnII GATC 9 cut(s) 373, 388, 450, 474, 727, 779, 795, 1124, 1135
DriI GACNNNNNGTC 1 cut(s) 694
Eam1105I GACNNNNNGTC 1 cut(s) 694
Eco105I TACGTA 2 cut(s) 640, 855
Eco130I CCWWGG 2 cut(s) 595, 929
Eco147I AGGCCT 1 cut(s) 912
Eco31I GGTCTC 1 cut(s) 1219
Eco47I GGWCC 1 cut(s) 1178
Eco57I CTGAAG 1 cut(s) 1149
Eco72I CACGTG 1 cut(s) 718
Eco88I CYCGRG 1 cut(s) 1261
EcoRI GAATTC 1 cut(s) 502
EcoRII CCWGG 1 cut(s) 376
EcoT14I CCWWGG 2 cut(s) 595, 929
ErhI CCWWGG 2 cut(s) 595, 929
FaeI CATG 9 cut(s) 472, 502, 561, 599, 614, 877, 944, 956, 1241
FaqI GGGAC 1 cut(s) 855
FatI CATG 9 cut(s) 468, 498, 557, 595, 610, 873, 940, 952, 1237
FauI CCCGC 1 cut(s) 227
FbaI TGATCA 1 cut(s) 727
FblI GTMKAC 1 cut(s) 937
Fnu4HI GCNGC 3 cut(s) 112, 1221, 1276
FokI GGATG 2 cut(s) 578, 1100
Fsp4HI GCNGC 3 cut(s) 112, 1221, 1276
FspBI CTAG 5 cut(s) 218, 402, 518, 1062, 1217
GlaI GCGC 1 cut(s) 1092
GluI GCNGC 3 cut(s) 112, 1221, 1276
HaeIII GGCC 2 cut(s) 556, 912
HapII CCGG 3 cut(s) 407, 549, 1094
HgaI GACGC 1 cut(s) 823
HhaI GCGC 1 cut(s) 1093
Hin1II CATG 9 cut(s) 472, 502, 561, 599, 614, 877, 944, 956, 1241
Hin6I GCGC 1 cut(s) 1091
HinP1I GCGC 1 cut(s) 1091
HindIII AAGCTT 1 cut(s) 1206
HinfI GANTC 4 cut(s) 197, 647, 1055, 1213
HpaII CCGG 3 cut(s) 407, 549, 1094
HphI GGTGA 6 cut(s) 365, 642, 698, 970, 1153, 1256
Hpy166II GTNNAC 7 cut(s) 181, 397, 541, 602, 938, 961, 1268
Hpy188I TCNGA 3 cut(s) 154, 682, 1129
Hpy188III TCNNGA 6 cut(s) 207, 347, 434, 499, 799, 1049
Hpy8I GTNNAC 7 cut(s) 181, 397, 541, 602, 938, 961, 1268
Hpy99I CGWCG 2 cut(s) 686, 758
HpyAV CCTTC 5 cut(s) 39, 100, 204, 902, 1124
HpyCH4III ACNGT 8 cut(s) 300, 311, 676, 686, 692, 848, 1037, 1230
HpyCH4IV ACGT 4 cut(s) 639, 643, 717, 854
HpyCH4V TGCA 9 cut(s) 114, 618, 750, 770, 877, 992, 1154, 1268, 1278
HpyF10VI GCNNNNNNNGC 2 cut(s) 1181, 1265
HpyF3I CTNAG 3 cut(s) 159, 416, 1271
HpySE526I ACGT 4 cut(s) 639, 643, 717, 854
Hsp92II CATG 9 cut(s) 472, 502, 561, 599, 614, 877, 944, 956, 1241
HspAI GCGC 1 cut(s) 1091
Ksp22I TGATCA 1 cut(s) 727
Kzo9I GATC 9 cut(s) 373, 388, 450, 474, 727, 779, 795, 1124, 1135
LmnI GCTCC 2 cut(s) 530, 1051
Lsp1109I GCAGC 2 cut(s) 98, 1262
LweI GCATC 4 cut(s) 257, 757, 826, 1078
MaeI CTAG 5 cut(s) 218, 402, 518, 1062, 1217
MaeII ACGT 4 cut(s) 639, 643, 717, 854
MaeIII GTNAC 6 cut(s) 367, 577, 644, 686, 880, 1072
MalI GATC 9 cut(s) 375, 390, 452, 476, 729, 781, 797, 1126, 1137
MbiI CCGCTC 1 cut(s) 128
MboI GATC 9 cut(s) 373, 388, 450, 474, 727, 779, 795, 1124, 1135
MboII GAAGA 5 cut(s) 69, 217, 500, 1109, 1150
MfeI CAATTG 1 cut(s) 993
MflI RGATCY 3 cut(s) 373, 1124, 1135
MhlI GDGCHC 1 cut(s) 1270
MlyI GAGTC 4 cut(s) 206, 641, 1049, 1222
MmeI TCCRAC 3 cut(s) 177, 502, 705
MnlI CCTC 9 cut(s) 166, 521, 544, 923, 992, 1063, 1078, 1243, 1270
MroXI GAANNNNTTC 1 cut(s) 506
MseI TTAA 5 cut(s) 23, 459, 761, 894, 1146
MslI CAYNNNNRTG 3 cut(s) 609, 1086, 1242
MspA1I CMGCKG 1 cut(s) 1275
MspI CCGG 3 cut(s) 407, 549, 1094
MspR9I CCNGG 2 cut(s) 378, 408
MunI CAATTG 1 cut(s) 993
Mva1269I GAATGC 2 cut(s) 930, 1154
MvaI CCWGG 1 cut(s) 378
MvnI CGCG 1 cut(s) 1223
MwoI GCNNNNNNNGC 2 cut(s) 1181, 1265
NciI CCSGG 1 cut(s) 408
NcoI CCATGG 1 cut(s) 595
NdeII GATC 9 cut(s) 373, 388, 450, 474, 727, 779, 795, 1124, 1135
NlaIII CATG 9 cut(s) 472, 502, 561, 599, 614, 877, 944, 956, 1241
NlaIV GGNNCC 2 cut(s) 375, 532
NmuCI GTSAC 4 cut(s) 367, 644, 686, 880
NspI RCATGY 1 cut(s) 877
PagI TCATGA 1 cut(s) 498
PceI AGGCCT 1 cut(s) 912
PcsI WCGNNNNNNNCGW 1 cut(s) 791
PctI GAATGC 2 cut(s) 930, 1154
PdmI GAANNNNTTC 1 cut(s) 506
Pfl23II CGTACG 2 cut(s) 640, 855
PfoI TCCNGGA 1 cut(s) 376
PkrI GCNGC 3 cut(s) 113, 1222, 1277
PleI GAGTC 4 cut(s) 205, 641, 1049, 1221
PmaCI CACGTG 1 cut(s) 718
PmlI CACGTG 1 cut(s) 718
PpsI GAGTC 4 cut(s) 205, 641, 1049, 1221
Ppu21I YACGTR 4 cut(s) 640, 644, 718, 855
Psp6I CCWGG 1 cut(s) 376
PspCI CACGTG 1 cut(s) 718
PspGI CCWGG 1 cut(s) 376
PspLI CGTACG 2 cut(s) 640, 855
PspN4I GGNNCC 2 cut(s) 375, 532
PspPI GGNCC 2 cut(s) 554, 1178
PsuI RGATCY 3 cut(s) 373, 1124, 1135
PvuII CAGCTG 1 cut(s) 1275
RsaI GTAC 4 cut(s) 180, 540, 642, 857
RsaNI GTAC 4 cut(s) 179, 539, 641, 856
RseI CAYNNNNRTG 3 cut(s) 609, 1086, 1242
SaqAI TTAA 5 cut(s) 23, 459, 761, 894, 1146
SatI GCNGC 3 cut(s) 112, 1221, 1276
Sau3AI GATC 9 cut(s) 373, 388, 450, 474, 727, 779, 795, 1124, 1135
Sau96I GGNCC 2 cut(s) 554, 1178
SchI GAGTC 4 cut(s) 206, 641, 1049, 1222
ScrFI CCNGG 2 cut(s) 378, 408
SduI GDGCHC 1 cut(s) 1270
SfaNI GCATC 4 cut(s) 257, 757, 826, 1078
SfcI CTRYAG 1 cut(s) 1254
SinI GGWCC 1 cut(s) 1178
SmiMI CAYNNNNRTG 3 cut(s) 609, 1086, 1242
SmlI CTYRAG 1 cut(s) 1026
SmoI CTYRAG 1 cut(s) 1026
SnaBI TACGTA 2 cut(s) 640, 855
SseBI AGGCCT 1 cut(s) 912
SsiI CCGC 5 cut(s) 126, 234, 342, 443, 1221
SspI AATATT 1 cut(s) 702
SspMI CTAG 5 cut(s) 218, 402, 518, 1062, 1217
StuI AGGCCT 1 cut(s) 912
StyD4I CCNGG 2 cut(s) 376, 406
StyI CCWWGG 2 cut(s) 595, 929
TaaI ACNGT 8 cut(s) 300, 311, 676, 686, 692, 848, 1037, 1230
TaiI ACGT 4 cut(s) 642, 646, 720, 857
TaqI TCGA 5 cut(s) 171, 252, 743, 800, 1211
TatI WGTACW 1 cut(s) 178
TauI GCSGC 1 cut(s) 1223
Tru1I TTAA 5 cut(s) 23, 459, 761, 894, 1146
Tru9I TTAA 5 cut(s) 23, 459, 761, 894, 1146
TscAI CASTG 1 cut(s) 853
TseFI GTSAC 4 cut(s) 367, 644, 686, 880
TseI GCWGC 2 cut(s) 111, 1275
Tsp45I GTSAC 4 cut(s) 367, 644, 686, 880
TspDTI ATGAA 3 cut(s) 69, 453, 515
TspGWI ACGGA 4 cut(s) 386, 526, 537, 678
TspRI CASTG 1 cut(s) 853
VneI GTGCAC 1 cut(s) 1266
VpaK11BI GGWCC 1 cut(s) 1178
XapI RAATTY 3 cut(s) 34, 73, 502
XceI RCATGY 1 cut(s) 877
XmiI GTMKAC 1 cut(s) 937
XmnI GAANNNNTTC 1 cut(s) 506
XspI CTAG 5 cut(s) 218, 402, 518, 1062, 1217
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.