AT4G13210

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0008200
Physical Location & Seq
Forward (+)
7669948 .. 7673376
3429 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G13210.1

Sequence Viewer

Length: 1206 bp
ATGAGAGCTCAAGAAATACATCAACGTTTATCAGACGGTGAATGGCATGAACACGCCGTTAAAGACCCAGAAGAAATAGCAGCAATGGTCGATATGAGCATACGTAACAGTACGTATCGTAGAAAGCTAGGGTTCTTCTCCTCATGCTCAACAGGAAACCCAATAGATGATTGTTGGCGATGCGATAAAAAATGGCATCGCCGAAGAAAGCGATTAGCGGATTGCGCGATCGGTTTCGGACGTAACGCAGTCGGAGGCCGTGATGGACGTTACTACATTGTTACTGATCCATCTGATCATGATCCGGTTACACCAAAACCCGGTACACTCCGGTACGCTGTTATACAAGACGAACCGCTATGGATCGTCTTTAAACGTGACATGGTCATTACTTTAAGCCAAGAACTAATCATGAATAGCTTCAAAACTATCGATGGTCGTGGTGTCAACGTGCATATAGCTGGTGGTGCATGTCTCACGGTTCAGTACGTTACGAATATTATCATCCATGGGATAAATATTCATGATTGTAAGCGAACTGGTAACGCTATGGTTAGGAGTTCGGAGAGTCATTATGGTTGGAGAACGATGGCGGATGGTGATGGTATTTCGATTTTTGGATCTAGTCATATTTGGATTGATCATAATTCTCTTTCGAGTTGTGCTGATGGATTGATAGACGCAATTATGGGATCTACTGCTATTACCATCTCTAATAATTATCTCACTCACCACAACGAGGCTATTTTGTTGGGGCATACCGATTCATACACCAGAGACAAAATGATGCAAGTAACCATTGCATACAACCATTTTGGAGAAGGTCTTATACAGAGAATGCCAAGGTGCAGGCATGGATACTTTCACGTAGTAAACAATGATTACACTCACTGGGAAATGTATGCAATTGGTGGAAGTGCTAACCCTACCATCAATAGTCAAGGAAACCGGTTCCTTGCCCCGGGAAACCGTTTCGCCAAGGAGGTGACGAAACGGGTAGGTGCAGGGAAAGGAGAATGGAACAATTGGAATTGGAGATCCCAAGGAGACTTAATGCTAAATGGTGCCTACTTTACTTCATCTGGAGCTGGAGCTTCTGCAAATTACGCCAGAGCCTCTAGTTTGGCTGCTAAATCATCTTCCCTTGTAGGTATGCTTACCTCTAGCTCGGGTGCTTTGAAATGCAGGATCGGTACACTTTGTTAA
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

401

Amino Acids

44.56

Weight (kDa)

8.85

Isoelectric Point (pI)

40.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 138 - 363 1.7e-17 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)
AccB1I GGYRCC 1 cut(s) 1064
AccII CGCG 1 cut(s) 227
AciI CCGC 3 cut(s) 218, 356, 593
AclI AACGTT 1 cut(s) 25
AclWI GGATC 7 cut(s) 281, 296, 371, 628, 700, 1032, 1196
AfaI GTAC 5 cut(s) 112, 325, 335, 488, 1195
AfiI CCNNNNNNNGG 3 cut(s) 320, 739, 961
AgeI ACCGGT 1 cut(s) 948
AgsI TTSAA 2 cut(s) 424, 1180
AluBI AGCT 7 cut(s) 8, 127, 420, 461, 1088, 1094, 1167
AluI AGCT 7 cut(s) 8, 127, 420, 461, 1088, 1094, 1167
Alw21I GWGCWC 1 cut(s) 10
Alw26I GTCTC 3 cut(s) 479, 771, 1041
AlwI GGATC 7 cut(s) 281, 296, 371, 628, 700, 1032, 1196
Ama87I CYCGRG 2 cut(s) 961, 1168
AoxI GGCC 1 cut(s) 256
ApeKI GCWGC 2 cut(s) 80, 1127
AsiGI ACCGGT 1 cut(s) 948
Asp700I GAANNNNTTC 1 cut(s) 419
AspLEI GCGC 1 cut(s) 227
AsuC2I CCSGG 3 cut(s) 321, 962, 963
AsuHPI GGTGA 4 cut(s) 50, 611, 722, 997
AvaI CYCGRG 2 cut(s) 961, 1168
BanI GGYRCC 1 cut(s) 1064
BanII GRGCYC 1 cut(s) 10
BarI GAAGNNNNNNTAC 2 cut(s) 813, 845
Bbv12I GWGCWC 1 cut(s) 10
BbvI GCAGC 2 cut(s) 92, 1114
BccI CCATC 9 cut(s) 257, 298, 428, 583, 590, 596, 662, 716, 938
BceAI ACGGC 2 cut(s) 41, 243
BciVI GTATCC 1 cut(s) 851
BclI TGATCA 2 cut(s) 295, 640
BcnI CCSGG 3 cut(s) 321, 962, 963
BcoDI GTCTC 3 cut(s) 479, 771, 1041
BfaI CTAG 4 cut(s) 128, 624, 1119, 1164
BfuI GTATCC 1 cut(s) 851
BisI GCNGC 2 cut(s) 81, 1128
BlsI GCNGC 2 cut(s) 82, 1129
Bme1390I CCNGG 3 cut(s) 321, 962, 963
BmeT110I CYCGRG 2 cut(s) 961, 1168
BmiI GGNNCC 2 cut(s) 953, 1066
BmrFI CCNGG 3 cut(s) 321, 962, 963
BmrI ACTGGG 1 cut(s) 901
BmsI GCATC 3 cut(s) 170, 205, 777
BmuI ACTGGG 1 cut(s) 901
BpmI CTGGAG 2 cut(s) 1104, 1110
BpuMI CCSGG 3 cut(s) 321, 962, 963
Bsa29I ATCGAT 1 cut(s) 432
BsaAI YACGTR 3 cut(s) 104, 114, 868
BsaBI GATNNNNATC 1 cut(s) 300
BsaJI CCNNGG 6 cut(s) 508, 842, 960, 961, 978, 1042
BsaWI WCCGGW 3 cut(s) 304, 330, 948
Bsc4I CCNNNNNNNGG 3 cut(s) 320, 739, 961
Bse118I RCCGGY 1 cut(s) 948
Bse1I ACTGG 2 cut(s) 544, 896
Bse3DI GCAATG 2 cut(s) 90, 798
Bse8I GATNNNNATC 1 cut(s) 300
BseCI ATCGAT 1 cut(s) 432
BseDI CCNNGG 6 cut(s) 508, 842, 960, 961, 978, 1042
BseGI GGATG 2 cut(s) 504, 601
BseJI GATNNNNATC 1 cut(s) 300
BseLI CCNNNNNNNGG 3 cut(s) 320, 739, 961
BseMI GCAATG 2 cut(s) 90, 798
BseNI ACTGG 2 cut(s) 544, 896
BseRI GAGGAG 1 cut(s) 130
BseXI GCAGC 2 cut(s) 92, 1114
BsgI GTGCAG 2 cut(s) 868, 1023
Bsh1236I CGCG 1 cut(s) 227
Bsh1285I CGRYCG 1 cut(s) 231
BshFI GGCC 1 cut(s) 258
BshNI GGYRCC 1 cut(s) 1064
BshTI ACCGGT 1 cut(s) 948
BshVI ATCGAT 1 cut(s) 432
BsiEI CGRYCG 1 cut(s) 231
BsiHKAI GWGCWC 1 cut(s) 10
BsiHKCI CYCGRG 2 cut(s) 961, 1168
BsiSI CCGG 5 cut(s) 305, 321, 331, 949, 962
BslI CCNNNNNNNGG 3 cut(s) 320, 739, 961
BsmAI GTCTC 3 cut(s) 479, 771, 1041
BsmI GAATGC 1 cut(s) 843
BsnI GGCC 1 cut(s) 258
BsoBI CYCGRG 2 cut(s) 961, 1168
Bsp1286I GDGCHC 1 cut(s) 10
Bsp19I CCATGG 1 cut(s) 508
BspACI CCGC 3 cut(s) 218, 356, 593
BspANI GGCC 1 cut(s) 258
BspDI ATCGAT 1 cut(s) 432
BspFNI CGCG 1 cut(s) 227
BspHI TCATGA 3 cut(s) 298, 411, 523
BspLI GGNNCC 2 cut(s) 953, 1066
BspPI GGATC 7 cut(s) 281, 296, 371, 628, 700, 1032, 1196
BspT107I GGYRCC 1 cut(s) 1064
BsrDI GCAATG 2 cut(s) 90, 798
BsrFI RCCGGY 1 cut(s) 948
BsrI ACTGG 2 cut(s) 544, 896
BssAI RCCGGY 1 cut(s) 948
BssECI CCNNGG 6 cut(s) 508, 842, 960, 961, 978, 1042
BssT1I CCWWGG 4 cut(s) 508, 842, 978, 1042
Bst4CI ACNGT 4 cut(s) 38, 110, 481, 971
BstBAI YACGTR 3 cut(s) 104, 114, 868
BstC8I GCNNGC 1 cut(s) 851
BstDSI CCRYGG 1 cut(s) 508
BstF5I GGATG 2 cut(s) 504, 601
BstFNI CGCG 1 cut(s) 227
BstHHI GCGC 1 cut(s) 227
BstMAI GTCTC 3 cut(s) 479, 771, 1041
BstMCI CGRYCG 1 cut(s) 231
BstMWI GCNNNNNNNGC 3 cut(s) 224, 467, 1106
BstNSI RCATGY 1 cut(s) 474
BstSCI CCNGG 3 cut(s) 319, 960, 961
BstSNI TACGTA 2 cut(s) 104, 114
BstUI CGCG 1 cut(s) 227
BstV1I GCAGC 2 cut(s) 92, 1114
BstX2I RGATCY 3 cut(s) 620, 692, 1037
BstYI RGATCY 3 cut(s) 620, 692, 1037
Bsu15I ATCGAT 1 cut(s) 432
BsuI GTATCC 1 cut(s) 851
BsuRI GGCC 1 cut(s) 258
BsuTUI ATCGAT 1 cut(s) 432
BtgI CCRYGG 1 cut(s) 508
BtgZI GCGATG 2 cut(s) 182, 193
BtsCI GGATG 2 cut(s) 504, 601
BtsIMutI CAGTG 1 cut(s) 889
Cac8I GCNNGC 1 cut(s) 851
CciI TCATGA 3 cut(s) 298, 411, 523
CfoI GCGC 1 cut(s) 227
Cfr10I RCCGGY 1 cut(s) 948
Cfr9I CCCGGG 1 cut(s) 961
ClaI ATCGAT 1 cut(s) 432
CseI GACGC 1 cut(s) 689
Csp6I GTAC 5 cut(s) 111, 324, 334, 487, 1194
CspAI ACCGGT 1 cut(s) 948
CviAII CATG 9 cut(s) 47, 144, 299, 382, 412, 471, 509, 524, 854
CviQI GTAC 5 cut(s) 111, 324, 334, 487, 1194
DraI TTTAAA 1 cut(s) 373
EciI GGCGGA 1 cut(s) 608
Ecl136II GAGCTC 1 cut(s) 8
Eco105I TACGTA 2 cut(s) 104, 114
Eco130I CCWWGG 4 cut(s) 508, 842, 978, 1042
Eco24I GRGCYC 1 cut(s) 10
Eco53kI GAGCTC 1 cut(s) 8
Eco88I CYCGRG 2 cut(s) 961, 1168
EcoICRI GAGCTC 1 cut(s) 8
EcoT14I CCWWGG 4 cut(s) 508, 842, 978, 1042
EcoT38I GRGCYC 1 cut(s) 10
ErhI CCWWGG 4 cut(s) 508, 842, 978, 1042
FaeI CATG 9 cut(s) 50, 147, 302, 385, 415, 474, 512, 527, 857
FatI CATG 9 cut(s) 46, 143, 298, 381, 411, 470, 508, 523, 853
FbaI TGATCA 2 cut(s) 295, 640
Fnu4HI GCNGC 2 cut(s) 81, 1128
FokI GGATG 2 cut(s) 491, 608
FriOI GRGCYC 1 cut(s) 10
Fsp4HI GCNGC 2 cut(s) 81, 1128
FspBI CTAG 4 cut(s) 128, 624, 1119, 1164
GlaI GCGC 1 cut(s) 226
GluI GCNGC 2 cut(s) 81, 1128
GsuI CTGGAG 2 cut(s) 1104, 1110
HaeIII GGCC 1 cut(s) 258
HapII CCGG 5 cut(s) 305, 321, 331, 949, 962
HgaI GACGC 1 cut(s) 689
HhaI GCGC 1 cut(s) 227
Hin1II CATG 9 cut(s) 50, 147, 302, 385, 415, 474, 512, 527, 857
Hin6I GCGC 1 cut(s) 225
HinP1I GCGC 1 cut(s) 225
HincII GTYRAC 1 cut(s) 448
HindII GTYRAC 1 cut(s) 448
HinfI GANTC 2 cut(s) 568, 764
HpaII CCGG 5 cut(s) 305, 321, 331, 949, 962
HphI GGTGA 4 cut(s) 50, 611, 722, 997
Hpy166II GTNNAC 4 cut(s) 326, 448, 874, 1196
Hpy188I TCNGA 5 cut(s) 34, 239, 254, 295, 565
Hpy188III TCNNGA 5 cut(s) 11, 299, 412, 524, 1083
Hpy8I GTNNAC 4 cut(s) 326, 448, 874, 1196
HpyAV CCTTC 1 cut(s) 815
HpyCH4III ACNGT 4 cut(s) 38, 110, 481, 971
HpyCH4IV ACGT 9 cut(s) 25, 103, 113, 241, 268, 376, 450, 489, 867
HpyCH4V TGCA 9 cut(s) 454, 470, 790, 803, 849, 905, 1004, 1100, 1185
HpyF10VI GCNNNNNNNGC 3 cut(s) 224, 467, 1106
HpySE526I ACGT 9 cut(s) 25, 103, 113, 241, 268, 376, 450, 489, 867
Hsp92II CATG 9 cut(s) 50, 147, 302, 385, 415, 474, 512, 527, 857
HspAI GCGC 1 cut(s) 225
Ksp22I TGATCA 2 cut(s) 295, 640
LmnI GCTCC 2 cut(s) 1085, 1091
Lsp1109I GCAGC 2 cut(s) 92, 1114
LweI GCATC 3 cut(s) 170, 205, 777
MaeI CTAG 4 cut(s) 128, 624, 1119, 1164
MaeII ACGT 9 cut(s) 25, 103, 113, 241, 268, 376, 450, 489, 867
MboII GAAGA 4 cut(s) 83, 127, 216, 1131
MfeI CAATTG 2 cut(s) 906, 1024
MflI RGATCY 3 cut(s) 620, 692, 1037
MhlI GDGCHC 1 cut(s) 10
MluCI AATT 7 cut(s) 646, 684, 718, 906, 1024, 1030, 1102
MlyI GAGTC 1 cut(s) 577
MmeI TCCRAC 2 cut(s) 232, 560
MnlI CCTC 6 cut(s) 151, 248, 733, 976, 1126, 1171
MroXI GAANNNNTTC 1 cut(s) 419
MseI TTAA 5 cut(s) 60, 372, 395, 1052, 1204
MspI CCGG 5 cut(s) 305, 321, 331, 949, 962
MspR9I CCNGG 3 cut(s) 321, 962, 963
MunI CAATTG 2 cut(s) 906, 1024
Mva1269I GAATGC 1 cut(s) 843
MvnI CGCG 1 cut(s) 227
MwoI GCNNNNNNNGC 3 cut(s) 224, 467, 1106
NciI CCSGG 3 cut(s) 321, 962, 963
NcoI CCATGG 1 cut(s) 508
NlaIII CATG 9 cut(s) 50, 147, 302, 385, 415, 474, 512, 527, 857
NlaIV GGNNCC 2 cut(s) 953, 1066
NmuCI GTSAC 2 cut(s) 377, 985
NspI RCATGY 1 cut(s) 474
PagI TCATGA 3 cut(s) 298, 411, 523
PctI GAATGC 1 cut(s) 843
PdmI GAANNNNTTC 1 cut(s) 419
PfeI GAWTC 1 cut(s) 764
PflFI GACNNNGTC 1 cut(s) 383
PinAI ACCGGT 1 cut(s) 948
PkrI GCNGC 2 cut(s) 82, 1129
Ple19I CGATCG 1 cut(s) 231
PleI GAGTC 1 cut(s) 576
PpsI GAGTC 1 cut(s) 576
Ppu21I YACGTR 3 cut(s) 104, 114, 868
Psp124BI GAGCTC 1 cut(s) 10
Psp1406I AACGTT 1 cut(s) 25
PspN4I GGNNCC 2 cut(s) 953, 1066
PsuI RGATCY 3 cut(s) 620, 692, 1037
PsyI GACNNNGTC 1 cut(s) 383
PvuI CGATCG 1 cut(s) 231
RsaI GTAC 5 cut(s) 112, 325, 335, 488, 1195
RsaNI GTAC 5 cut(s) 111, 324, 334, 487, 1194
SacI GAGCTC 1 cut(s) 10
SaqAI TTAA 5 cut(s) 60, 372, 395, 1052, 1204
SatI GCNGC 2 cut(s) 81, 1128
SchI GAGTC 1 cut(s) 577
ScrFI CCNGG 3 cut(s) 321, 962, 963
SduI GDGCHC 1 cut(s) 10
SfaNI GCATC 3 cut(s) 170, 205, 777
SmaI CCCGGG 1 cut(s) 963
SmlI CTYRAG 1 cut(s) 9
SmoI CTYRAG 1 cut(s) 9
SnaBI TACGTA 2 cut(s) 104, 114
Sse9I AATT 7 cut(s) 646, 684, 718, 906, 1024, 1030, 1102
SsiI CCGC 3 cut(s) 218, 356, 593
SspI AATATT 2 cut(s) 499, 520
SspMI CTAG 4 cut(s) 128, 624, 1119, 1164
SstI GAGCTC 1 cut(s) 10
StyD4I CCNGG 3 cut(s) 319, 960, 961
StyI CCWWGG 4 cut(s) 508, 842, 978, 1042
TaaI ACNGT 4 cut(s) 38, 110, 481, 971
TaiI ACGT 9 cut(s) 28, 106, 116, 244, 271, 379, 453, 492, 870
TaqI TCGA 4 cut(s) 90, 432, 611, 656
TasI AATT 7 cut(s) 646, 684, 718, 906, 1024, 1030, 1102
TfiI GAWTC 1 cut(s) 764
Tru1I TTAA 5 cut(s) 60, 372, 395, 1052, 1204
Tru9I TTAA 5 cut(s) 60, 372, 395, 1052, 1204
TscAI CASTG 1 cut(s) 896
TseFI GTSAC 2 cut(s) 377, 985
TseI GCWGC 2 cut(s) 80, 1127
Tsp45I GTSAC 2 cut(s) 377, 985
TspDTI ATGAA 5 cut(s) 63, 428, 512, 756, 1068
TspMI CCCGGG 1 cut(s) 961
TspRI CASTG 1 cut(s) 896
Tth111I GACNNNGTC 1 cut(s) 383
XceI RCATGY 1 cut(s) 474
XmaI CCCGGG 1 cut(s) 961
XmnI GAANNNNTTC 1 cut(s) 419
XspI CTAG 4 cut(s) 128, 624, 1119, 1164
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.