AT3G53190

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0007639
Physical Location & Seq
Forward (+)
19713799 .. 19717740
3942 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G53190.1

Sequence Viewer

Length: 1452 bp
ATGATGCTTCAAAGAAGCTGCATTGTACTTTTCTTCTCTCTTTTTCTGTTGGTTCCACAAATGGTTTTCTCGATGCTCAACAGAACTCTTCTTCTCATACCACATCCTGACCCGGAACTAGTCGCTTATCAAGTTCAGTGGAAAGTAAATGCATCTATAACAAGGCGTCAAGCTCTAGACACGACGGACCAGGCCGGTTCGACCCCGTGTATCACCGGTAACCCAATCGATGACTGTTGGAAATGTGACCCAAACTGGCCCAATAACAGACAAGGTCTAGCAGATTGTGGTATCGGGTTCGGACAGTACGCGTTGGGAGGCAAAGGTGGTCAGTTTTACTTTGTCACTGATTCTTCCGACGATGATGCCGTCAACCCTAAACCGGGCACTCTCAGATATGGGGTGATACAAGAAGAGCCATTGTGGATAGTGTTCCCAAGCAACATGATGATTAAACTAAAGCAAGAGCTAATATTCAATAGTTACAAGACACTTGATGGGAGAGGAGCTAATGTTCACATTGTTGGTGGTGGCTGCATCACTCTTCAATATGTCTCCAATATCATCATTCACAACATCCATATCCACCATTGTTACCAATCCGGGAATACTAACGTGCGGTCAAGTCCAACGCACTATGGGTTCAGAACGAAATCGGACGGTGATGGTATCTCTATATTCGGATCAAAGGACATTTGGATCGACCATTGTTCTCTATCGAGATGCAAGGACGGTCTGATAGATGCGGTAATGGGTTCCACAGGAATAACTATATCGAACAACTTCTTCTCTCACCATAATGAAGTCATGCTTCTTGGTCACAGCGACCACTATGAACCAGACAGTGGCATGCAGGTAACAATTGCGTTTAATCACTTTGGAGAGAAATTGATACAAAGGATGCCGAGGTGTCGACGTGGATATATCCATGTGGTTAATAACGATTTTACTCAATGGGAAATGTATGCCATTGGCGGTAGCGGTAACCCGACTATTAACAGTCAGGGTAACCGCTACACCGCCCCAACCAACCCGTTTGCCAAGGAGGTGACAAAGAGAGTGGAAACACCGGATGGTGATTGGAAAGGGTGGAATTGGAGATCGGAGGGGGACATTTTGGTGAATGGAGCCTTCTTCGTGGCATCCGGGGAAGGTGCGGAAATGAGGTATGAGAAGGCATATAGCGTCGAGCCTAAATCCGCCTCATTCATCACCCAAATCACATTTCACTCTGGTGTTCTTGGCGTTGGTGGCAGGAATAACAATCTGGGGATGTGGACTACTACTGGATCGGAAGGTACTAGCGGTTTAGATTCTTATAATGACTATACCGATGAAATGTCTGGCGCTGGTTCAACCAACCGGTTATCTTTTTCAGTTCTTGTTTTCTTGCTAAGTTCGATATCATATTTGGTCGTGTTCACTTCTTCAACCCAAATGTTTATGTTGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0016020 GO:0031224 GO:0031225 GO:0044425
KEGG Pathways
Metabolic & Signaling
ko00040 ko02024 map00040 map02024
Pfam Domains
Protein Families
Pec_lyase_C

Protein Analysis

483

Amino Acids

53.59

Weight (kDa)

6.0

Isoelectric Point (pI)

32.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 154 - 355 7.9e-23 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)
AanI TTATAA 1 cut(s) 1320
Acc36I ACCTGC 1 cut(s) 844
AccB7I CCANNNNNTGG 1 cut(s) 845
AccI GTMKAC 1 cut(s) 913
AccII CGCG 1 cut(s) 311
AciI CCGC 9 cut(s) 619, 746, 975, 981, 1012, 1020, 1157, 1200, 1305
AclWI GGATC 3 cut(s) 691, 707, 1297
AcyI GRCGYC 1 cut(s) 166
AfaI GTAC 3 cut(s) 27, 308, 1300
AfiI CCNNNNNNNGG 3 cut(s) 382, 383, 845
AflIII ACRYGT 1 cut(s) 309
AgeI ACCGGT 2 cut(s) 215, 1362
AgsI TTSAA 5 cut(s) 11, 478, 548, 1356, 1431
AhlI ACTAGT 1 cut(s) 118
AjiI CACGTC 1 cut(s) 917
AjnI CCWGG 1 cut(s) 189
AjuI GAANNNNNNNTTGG 2 cut(s) 1209, 1241
AleI CACNNNNGTG 1 cut(s) 1233
AloI GAACNNNNNNTCC 2 cut(s) 498, 530
AluBI AGCT 4 cut(s) 18, 173, 469, 509
AluI AGCT 4 cut(s) 18, 173, 469, 509
Alw26I GTCTC 1 cut(s) 559
AlwI GGATC 3 cut(s) 691, 707, 1297
AoxI GGCC 2 cut(s) 192, 257
ApeKI GCWGC 2 cut(s) 18, 534
AsiGI ACCGGT 2 cut(s) 215, 1362
Asp700I GAANNNNTTC 1 cut(s) 782
AspLEI GCGC 1 cut(s) 1349
AspS9I GGNCC 2 cut(s) 187, 258
AsuC2I CCSGG 4 cut(s) 113, 384, 604, 1147
AsuHPI GGTGA 8 cut(s) 205, 415, 674, 785, 1060, 1088, 1132, 1204
AvaII GGWCC 1 cut(s) 187
BaeGI GKGCMC 1 cut(s) 389
BbvI GCAGC 2 cut(s) 5, 521
BccI CCATC 3 cut(s) 491, 659, 1067
BceAI ACGGC 1 cut(s) 353
BcgI CGANNNNNNTGC 2 cut(s) 347, 381
BciT130I CCWGG 1 cut(s) 191
BcnI CCSGG 4 cut(s) 113, 384, 604, 1147
BcoDI GTCTC 1 cut(s) 559
BcuI ACTAGT 1 cut(s) 118
BfaI CTAG 4 cut(s) 119, 176, 278, 1302
BfoI RGCGCY 1 cut(s) 1350
BfuAI ACCTGC 1 cut(s) 844
BisI GCNGC 2 cut(s) 19, 535
BlsI GCNGC 2 cut(s) 20, 536
Bme1390I CCNGG 5 cut(s) 113, 191, 384, 604, 1147
Bme18I GGWCC 1 cut(s) 187
BmgBI CACGTC 1 cut(s) 917
BmgT120I GGNCC 2 cut(s) 187, 258
BmiI GGNNCC 3 cut(s) 54, 757, 1129
BmrFI CCNGG 5 cut(s) 113, 191, 384, 604, 1147
BmsI GCATC 8 cut(s) 63, 161, 355, 546, 713, 733, 891, 1151
BpuMI CCSGG 4 cut(s) 113, 384, 604, 1147
Bsa29I ATCGAT 1 cut(s) 228
BsaHI GRCGYC 1 cut(s) 166
BsaJI CCNNGG 3 cut(s) 905, 1041, 1146
BsaWI WCCGGW 3 cut(s) 215, 1069, 1362
BsaXI ACNNNNNCTCC 2 cut(s) 498, 528
Bsc4I CCNNNNNNNGG 3 cut(s) 382, 383, 845
Bse118I RCCGGY 3 cut(s) 194, 215, 1362
Bse1I ACTGG 2 cut(s) 260, 1291
BseBI CCWGG 1 cut(s) 191
BseCI ATCGAT 1 cut(s) 228
BseDI CCNNGG 3 cut(s) 905, 1041, 1146
BseGI GGATG 6 cut(s) 103, 576, 906, 1078, 1142, 1278
BseLI CCNNNNNNNGG 3 cut(s) 382, 383, 845
BseMII CTCAG 1 cut(s) 406
BseNI ACTGG 2 cut(s) 260, 1291
BseRI GAGGAG 1 cut(s) 519
BseSI GKGCMC 1 cut(s) 389
BseXI GCAGC 2 cut(s) 5, 521
Bsh1236I CGCG 1 cut(s) 311
BshFI GGCC 2 cut(s) 194, 259
BshTI ACCGGT 2 cut(s) 215, 1362
BshVI ATCGAT 1 cut(s) 228
BsiSI CCGG 8 cut(s) 113, 195, 216, 383, 603, 1070, 1146, 1363
BslFI GGGAC 1 cut(s) 1124
BslI CCNNNNNNNGG 3 cut(s) 382, 383, 845
BsmAI GTCTC 1 cut(s) 559
BsmFI GGGAC 1 cut(s) 1124
BsnI GGCC 2 cut(s) 194, 259
Bsp1286I GDGCHC 1 cut(s) 389
Bsp143I GATC 4 cut(s) 683, 699, 1100, 1289
BspACI CCGC 9 cut(s) 619, 746, 975, 981, 1012, 1020, 1157, 1200, 1305
BspANI GGCC 2 cut(s) 194, 259
BspCNI CTCAG 1 cut(s) 405
BspDI ATCGAT 1 cut(s) 228
BspFNI CGCG 1 cut(s) 311
BspLI GGNNCC 3 cut(s) 54, 757, 1129
BspMI ACCTGC 1 cut(s) 844
BspPI GGATC 3 cut(s) 691, 707, 1297
BspQI GCTCTTC 1 cut(s) 408
BsrFI RCCGGY 3 cut(s) 194, 215, 1362
BsrI ACTGG 2 cut(s) 260, 1291
BssAI RCCGGY 3 cut(s) 194, 215, 1362
BssECI CCNNGG 3 cut(s) 905, 1041, 1146
BssMI GATC 4 cut(s) 683, 699, 1100, 1289
BssNI GRCGYC 1 cut(s) 166
BssT1I CCWWGG 1 cut(s) 1041
Bst2UI CCWGG 1 cut(s) 191
Bst4CI ACNGT 6 cut(s) 236, 306, 662, 734, 845, 1001
Bst6I CTCTTC 3 cut(s) 93, 408, 549
BstACI GRCGYC 1 cut(s) 166
BstC8I GCNNGC 1 cut(s) 851
BstDEI CTNAG 2 cut(s) 392, 1394
BstEII GGTNACC 3 cut(s) 218, 983, 1007
BstF5I GGATG 6 cut(s) 103, 576, 906, 1078, 1142, 1278
BstFNI CGCG 1 cut(s) 311
BstH2I RGCGCY 1 cut(s) 1350
BstHHI GCGC 1 cut(s) 1349
BstKTI GATC 4 cut(s) 686, 702, 1103, 1292
BstMAI GTCTC 1 cut(s) 559
BstMBI GATC 4 cut(s) 683, 699, 1100, 1289
BstMWI GCNNNNNNNGC 1 cut(s) 1251
BstNI CCWGG 1 cut(s) 191
BstNSI RCATGY 1 cut(s) 853
BstPI GGTNACC 3 cut(s) 218, 983, 1007
BstSCI CCNGG 5 cut(s) 111, 189, 382, 602, 1145
BstSLI GKGCMC 1 cut(s) 389
BstUI CGCG 1 cut(s) 311
BstV1I GCAGC 2 cut(s) 5, 521
Bsu15I ATCGAT 1 cut(s) 228
BsuRI GGCC 2 cut(s) 194, 259
BsuTUI ATCGAT 1 cut(s) 228
BtrI CACGTC 1 cut(s) 917
BtsCI GGATG 6 cut(s) 103, 576, 906, 1078, 1142, 1278
BtsIMutI CAGTG 3 cut(s) 143, 345, 850
BveI ACCTGC 1 cut(s) 844
Cac8I GCNNGC 1 cut(s) 851
CfoI GCGC 1 cut(s) 1349
Cfr10I RCCGGY 3 cut(s) 194, 215, 1362
Cfr13I GGNCC 2 cut(s) 187, 258
ClaI ATCGAT 1 cut(s) 228
CseI GACGC 2 cut(s) 155, 1174
Csp6I GTAC 3 cut(s) 26, 307, 1299
CspAI ACCGGT 2 cut(s) 215, 1362
CspCI CAANNNNNGTGG 4 cut(s) 119, 154, 1041, 1076
CviAII CATG 4 cut(s) 445, 808, 850, 929
CviQI GTAC 3 cut(s) 26, 307, 1299
DdeI CTNAG 2 cut(s) 392, 1394
DpnI GATC 4 cut(s) 685, 701, 1102, 1291
DpnII GATC 4 cut(s) 683, 699, 1100, 1289
Eam1104I CTCTTC 3 cut(s) 93, 408, 549
EarI CTCTTC 3 cut(s) 93, 408, 549
EciI GGCGGA 1 cut(s) 1189
Eco130I CCWWGG 1 cut(s) 1041
Eco32I GATATC 1 cut(s) 1404
Eco47I GGWCC 1 cut(s) 187
Eco91I GGTNACC 3 cut(s) 218, 983, 1007
EcoO65I GGTNACC 3 cut(s) 218, 983, 1007
EcoRII CCWGG 1 cut(s) 189
EcoRV GATATC 1 cut(s) 1404
EcoT14I CCWWGG 1 cut(s) 1041
EcoT22I ATGCAT 1 cut(s) 154
ErhI CCWWGG 1 cut(s) 1041
FaeI CATG 4 cut(s) 448, 811, 853, 932
FalI AAGNNNNNCTT 2 cut(s) 795, 827
FaqI GGGAC 1 cut(s) 1124
FatI CATG 4 cut(s) 444, 807, 849, 928
FblI GTMKAC 1 cut(s) 913
Fnu4HI GCNGC 2 cut(s) 19, 535
FokI GGATG 6 cut(s) 90, 563, 913, 1085, 1129, 1285
Fsp4HI GCNGC 2 cut(s) 19, 535
FspBI CTAG 4 cut(s) 119, 176, 278, 1302
GlaI GCGC 1 cut(s) 1348
GluI GCNGC 2 cut(s) 19, 535
HaeII RGCGCY 1 cut(s) 1350
HaeIII GGCC 2 cut(s) 194, 259
HapII CCGG 8 cut(s) 113, 195, 216, 383, 603, 1070, 1146, 1363
HgaI GACGC 2 cut(s) 155, 1174
HhaI GCGC 1 cut(s) 1349
Hin1I GRCGYC 1 cut(s) 166
Hin1II CATG 4 cut(s) 448, 811, 853, 932
Hin6I GCGC 1 cut(s) 1347
HinP1I GCGC 1 cut(s) 1347
HincII GTYRAC 2 cut(s) 373, 914
HindII GTYRAC 2 cut(s) 373, 914
HinfI GANTC 2 cut(s) 350, 1313
HpaII CCGG 8 cut(s) 113, 195, 216, 383, 603, 1070, 1146, 1363
HphI GGTGA 8 cut(s) 205, 415, 674, 785, 1060, 1088, 1132, 1204
Hpy166II GTNNAC 5 cut(s) 373, 517, 914, 1278, 1422
Hpy188I TCNGA 9 cut(s) 302, 358, 395, 647, 658, 683, 738, 1105, 1294
Hpy188III TCNNGA 4 cut(s) 70, 107, 176, 720
Hpy8I GTNNAC 5 cut(s) 373, 517, 914, 1278, 1422
Hpy99I CGWCG 4 cut(s) 187, 362, 918, 1190
HpyAV CCTTC 4 cut(s) 1141, 1145, 1168, 1289
HpyCH4III ACNGT 6 cut(s) 236, 306, 662, 734, 845, 1001
HpyCH4IV ACGT 2 cut(s) 615, 916
HpyCH4V TGCA 5 cut(s) 21, 152, 537, 726, 853
HpyF10VI GCNNNNNNNGC 1 cut(s) 1251
HpyF3I CTNAG 2 cut(s) 392, 1394
HpySE526I ACGT 2 cut(s) 615, 916
Hsp92I GRCGYC 1 cut(s) 166
Hsp92II CATG 4 cut(s) 448, 811, 853, 932
HspAI GCGC 1 cut(s) 1347
Kzo9I GATC 4 cut(s) 683, 699, 1100, 1289
LguI GCTCTTC 1 cut(s) 408
LmnI GCTCC 2 cut(s) 506, 1127
Lsp1109I GCAGC 2 cut(s) 5, 521
LweI GCATC 8 cut(s) 63, 161, 355, 546, 713, 733, 891, 1151
MaeI CTAG 4 cut(s) 119, 176, 278, 1302
MaeII ACGT 2 cut(s) 615, 916
MalI GATC 4 cut(s) 685, 701, 1102, 1291
MboI GATC 4 cut(s) 683, 699, 1100, 1289
MboII GAAGA 9 cut(s) 25, 80, 83, 345, 425, 536, 778, 1126, 1419
MfeI CAATTG 1 cut(s) 861
MhlI GDGCHC 1 cut(s) 389
MluCI AATT 3 cut(s) 861, 887, 1093
MluI ACGCGT 1 cut(s) 309
MmeI TCCRAC 3 cut(s) 218, 381, 653
MnlI CCTC 7 cut(s) 311, 497, 900, 1039, 1099, 1158, 1213
Mph1103I ATGCAT 1 cut(s) 154
MroXI GAANNNNTTC 1 cut(s) 782
MseI TTAA 4 cut(s) 453, 870, 936, 996
MslI CAYNNNNRTG 3 cut(s) 798, 1118, 1233
MspI CCGG 8 cut(s) 113, 195, 216, 383, 603, 1070, 1146, 1363
MspR9I CCNGG 5 cut(s) 113, 191, 384, 604, 1147
MunI CAATTG 1 cut(s) 861
MvaI CCWGG 1 cut(s) 191
MvnI CGCG 1 cut(s) 311
MwoI GCNNNNNNNGC 1 cut(s) 1251
NciI CCSGG 4 cut(s) 113, 384, 604, 1147
NdeII GATC 4 cut(s) 683, 699, 1100, 1289
NlaIII CATG 4 cut(s) 448, 811, 853, 932
NlaIV GGNNCC 3 cut(s) 54, 757, 1129
NmeAIII GCCGAG 1 cut(s) 930
NmuCI GTSAC 4 cut(s) 245, 343, 818, 1048
NsiI ATGCAT 1 cut(s) 154
NspI RCATGY 1 cut(s) 853
OliI CACNNNNGTG 1 cut(s) 1233
PaeI GCATGC 1 cut(s) 853
PciSI GCTCTTC 1 cut(s) 408
PcsI WCGNNNNNNNCGW 1 cut(s) 366
PdmI GAANNNNTTC 1 cut(s) 782
PfeI GAWTC 2 cut(s) 350, 1313
PflFI GACNNNGTC 1 cut(s) 273
PflMI CCANNNNNTGG 1 cut(s) 845
PfoI TCCNGGA 1 cut(s) 602
PinAI ACCGGT 2 cut(s) 215, 1362
PkrI GCNGC 2 cut(s) 20, 536
PsiI TTATAA 1 cut(s) 1320
Psp6I CCWGG 1 cut(s) 189
PspEI GGTNACC 3 cut(s) 218, 983, 1007
PspGI CCWGG 1 cut(s) 189
PspN4I GGNNCC 3 cut(s) 54, 757, 1129
PspPI GGNCC 2 cut(s) 187, 258
PsyI GACNNNGTC 1 cut(s) 273
RsaI GTAC 3 cut(s) 27, 308, 1300
RsaNI GTAC 3 cut(s) 26, 307, 1299
RseI CAYNNNNRTG 3 cut(s) 798, 1118, 1233
SalI GTCGAC 1 cut(s) 912
SapI GCTCTTC 1 cut(s) 408
SaqAI TTAA 4 cut(s) 453, 870, 936, 996
SatI GCNGC 2 cut(s) 19, 535
Sau3AI GATC 4 cut(s) 683, 699, 1100, 1289
Sau96I GGNCC 2 cut(s) 187, 258
ScrFI CCNGG 5 cut(s) 113, 191, 384, 604, 1147
SduI GDGCHC 1 cut(s) 389
SfaNI GCATC 8 cut(s) 63, 161, 355, 546, 713, 733, 891, 1151
SinI GGWCC 1 cut(s) 187
SmiMI CAYNNNNRTG 3 cut(s) 798, 1118, 1233
SpeI ACTAGT 1 cut(s) 118
SphI GCATGC 1 cut(s) 853
Sse9I AATT 3 cut(s) 861, 887, 1093
SsiI CCGC 9 cut(s) 619, 746, 975, 981, 1012, 1020, 1157, 1200, 1305
SspI AATATT 1 cut(s) 474
SspMI CTAG 4 cut(s) 119, 176, 278, 1302
StyD4I CCNGG 5 cut(s) 111, 189, 382, 602, 1145
StyI CCWWGG 1 cut(s) 1041
TaaI ACNGT 6 cut(s) 236, 306, 662, 734, 845, 1001
TaiI ACGT 2 cut(s) 618, 919
TaqI TCGA 9 cut(s) 71, 200, 228, 702, 719, 776, 913, 1188, 1400
TasI AATT 3 cut(s) 861, 887, 1093
TatI WGTACW 1 cut(s) 25
TfiI GAWTC 2 cut(s) 350, 1313
Tru1I TTAA 4 cut(s) 453, 870, 936, 996
Tru9I TTAA 4 cut(s) 453, 870, 936, 996
TscAI CASTG 3 cut(s) 143, 352, 850
TseFI GTSAC 4 cut(s) 245, 343, 818, 1048
TseI GCWGC 2 cut(s) 18, 534
Tsp45I GTSAC 4 cut(s) 245, 343, 818, 1048
TspDTI ATGAA 4 cut(s) 816, 849, 1198, 1350
TspGWI ACGGA 1 cut(s) 200
TspRI CASTG 3 cut(s) 143, 352, 850
Tth111I GACNNNGTC 1 cut(s) 273
Van91I CCANNNNNTGG 1 cut(s) 845
VpaK11BI GGWCC 1 cut(s) 187
XbaI TCTAGA 1 cut(s) 175
XceI RCATGY 1 cut(s) 853
XmiI GTMKAC 1 cut(s) 913
XmnI GAANNNNTTC 1 cut(s) 782
XspI CTAG 4 cut(s) 119, 176, 278, 1302
Zsp2I ATGCAT 1 cut(s) 154
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.