AT3G27400

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0015791
Physical Location & Seq
Forward (+)
10140200 .. 10143249
3050 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G27400.1

Sequence Viewer

Length: 1239 bp
ATGGTTTCGTATTCTAATAATCATTTTGCATACGCATTTCTACTTCTTCTAACAATCGGTAACACGCTTGCATTTTCTTCGAGTTTGCCGGATCATGTTCAAGATCCAAATCTAGTCGTTGACGACGTTAACAGAAGTGTATTCAATGCGTCAAGGAGGAGCTTGGCCTACCTATCTTGTAGAACCGGAAATCCTATTGACGATTGTTGGCGGTGTGACCCTAATTGGGAAACAAACCGCCAACGGTTAGCAGATTGTGCCATTGGATTTGGCAAAAATGCTATCGGAGGGCGCAAAGGTCGAATCTATGTAGTTACGGATCCTGCCAACGACGATCCCGTAAACCCTAGACCTGGGACTCTAAGATATGCAGTGACACAAGAAGAACCATTATGGATCATTTTCAAGAGAGATATGGTCATTAGGCTCAAAAAAGAACTTATCATCACATCTTTCAAGACCATTGATGGTAGAGGCTCGAGTGTTCACATTACCGATGGACCATGCTTAAAGATCCACTATGCAACTAACATCATAATTCATGGCATTAACATCCATGACTGTAAACCAGGATCAGGTGGCATGATTAAAGATGGTCCACATCACACCGGGTGGTGGATGCAGTCCGATGGAGACGCGGTGGCGATATTTGGAGGGAAACACGTGTGGATTGACCATTGCTCGTTGTCGAACTGCGATGATGGACTCATAGACGCTATACATGGTTCCACGGCTATAACCATATCGAACAATCATATGACGCACCATGATAAGGTCATGCTTTTAGGACATAGCGATAGTTACACGCAGGACAAGAACATGCAAGTCACAATTGCGTTTAACCATTTCGGAGAAGGACTCGTTCAAAGAATGCCACGGTGCAGGCATGGATATTTCCATGTAGTGAACAATGATTATACTCACTGGGAAATGTATGCAATCGGTGGAAGTGCTTCTCCAACTATATACAGCCAAGGGAATAGATTTCTTGCTCCTAACACCCGCTTTAATAAAGAGGTTACAAAACATGAAGATGCACCCGAAAGCAAATGGAGAGATTGGAATTGGAGATCGGAAGGCGATATGTTGTTGAACGGAGCTTATTTCCGCGAGTCCGGTGCTGAAGCTCCGTCTACTTATGCAAGAGCTTCAAGCCTGAGTGCGAGGCCATCGTCACTTGTGGGTTCCATCACCACGACAGCAGGCACTTTGAGTTGTCGGCGAGGCCGTCGCTGTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005576 GO:0008150 GO:0009605 GO:0009607 GO:0009624 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

412

Amino Acids

45.98

Weight (kDa)

8.0

Isoelectric Point (pI)

38.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 150 - 345 6.4e-23 Pectate lyase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0015791)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G27400 AT3G27400
fragaria_vesca FvH4_6g52190
malus_domestica MD09G1019900.v1.1
prunus_persica Prupe.3G296600_v2.0.a1
pyrus_communis pycom111g01650
rosa_chinensis RchiOBHm_Chr2g0173681
rosa_laevigata RLG00000022214
rosa_multiflora Rmu_sc0002538.1_g000007
rosa_rugosa Rorug02G0572300
rosa_samantha Rh2AG651200 Rh2BG661600 Rh2CG626600 Rh2DG676900
rosa_wichuraiana Rw2G053440

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 1133
AccII CGCG 2 cut(s) 638, 1110
AciI CCGC 5 cut(s) 211, 238, 638, 1003, 1108
AclWI GGATC 8 cut(s) 98, 99, 314, 327, 329, 404, 508, 580
AcuI CTGAAG 1 cut(s) 1143
AcvI CACGTG 1 cut(s) 664
AdeI CACNNNGTG 1 cut(s) 612
AfiI CCNNNNNNNGG 5 cut(s) 226, 353, 575, 615, 772
AflIII ACRYGT 2 cut(s) 661, 663
AgsI TTSAA 7 cut(s) 101, 145, 406, 457, 866, 1093, 1152
AjnI CCWGG 2 cut(s) 352, 568
AloI GAACNNNNNNTCC 2 cut(s) 175, 207
AluBI AGCT 4 cut(s) 162, 1100, 1127, 1148
AluI AGCT 4 cut(s) 162, 1100, 1127, 1148
Alw26I GTCTC 1 cut(s) 627
AlwI GGATC 8 cut(s) 98, 99, 314, 327, 329, 404, 508, 580
Ama87I CYCGRG 1 cut(s) 478
AoxI GGCC 3 cut(s) 165, 1166, 1225
Asp700I GAANNNNTTC 1 cut(s) 952
AspLEI GCGC 1 cut(s) 294
AspS9I GGNCC 2 cut(s) 500, 596
AsuC2I CCSGG 1 cut(s) 610
AsuHPI GGTGA 1 cut(s) 1183
AvaI CYCGRG 1 cut(s) 478
AvaII GGWCC 2 cut(s) 500, 596
BamHI GGATCC 1 cut(s) 319
BbrPI CACGTG 1 cut(s) 664
BccI CCATC 7 cut(s) 461, 491, 587, 623, 695, 1177, 1196
BceAI ACGGC 2 cut(s) 747, 1212
BcgI CGANNNNNNTGC 4 cut(s) 60, 94, 1100, 1134
BciT130I CCWGG 2 cut(s) 354, 570
BcnI CCSGG 1 cut(s) 610
BcoDI GTCTC 1 cut(s) 627
BfaI CTAG 2 cut(s) 113, 348
Bme1390I CCNGG 3 cut(s) 354, 570, 610
Bme18I GGWCC 2 cut(s) 500, 596
BmeT110I CYCGRG 1 cut(s) 478
BmgT120I GGNCC 2 cut(s) 500, 596
BmiI GGNNCC 3 cut(s) 321, 727, 1186
BmrFI CCNGG 3 cut(s) 354, 570, 610
BmrI ACTGGG 1 cut(s) 934
BmsI GCATC 2 cut(s) 609, 1024
BmuI ACTGGG 1 cut(s) 934
BplI GAGNNNNNCTC 2 cut(s) 843, 875
BpuMI CCSGG 1 cut(s) 610
BsaAI YACGTR 1 cut(s) 664
BsaBI GATNNNNATC 1 cut(s) 108
BsaJI CCNNGG 4 cut(s) 353, 729, 875, 973
BsaWI WCCGGW 2 cut(s) 185, 1115
BsaXI ACNNNNNCTCC 2 cut(s) 624, 654
Bsc4I CCNNNNNNNGG 5 cut(s) 226, 353, 575, 615, 772
Bse1I ACTGG 1 cut(s) 929
Bse3DI GCAATG 1 cut(s) 676
Bse8I GATNNNNATC 1 cut(s) 108
BseBI CCWGG 2 cut(s) 354, 570
BseDI CCNNGG 4 cut(s) 353, 729, 875, 973
BseGI GGATG 2 cut(s) 552, 624
BseJI GATNNNNATC 1 cut(s) 108
BseLI CCNNNNNNNGG 5 cut(s) 226, 353, 575, 615, 772
BseMI GCAATG 1 cut(s) 676
BseMII CTCAG 1 cut(s) 1148
BseNI ACTGG 1 cut(s) 929
BseRI GAGGAG 1 cut(s) 172
BsgI GTGCAG 1 cut(s) 901
Bsh1236I CGCG 2 cut(s) 638, 1110
BshFI GGCC 3 cut(s) 167, 1168, 1227
BsiHKCI CYCGRG 1 cut(s) 478
BsiSI CCGG 4 cut(s) 89, 186, 609, 1116
BslFI GGGAC 1 cut(s) 370
BslI CCNNNNNNNGG 5 cut(s) 226, 353, 575, 615, 772
BsmAI GTCTC 1 cut(s) 627
BsmBI CGTCTC 1 cut(s) 627
BsmFI GGGAC 1 cut(s) 370
BsmI GAATGC 1 cut(s) 876
BsnI GGCC 3 cut(s) 167, 1168, 1227
BsoBI CYCGRG 1 cut(s) 478
Bsp143I GATC 8 cut(s) 91, 103, 319, 334, 396, 513, 572, 1070
BspACI CCGC 5 cut(s) 211, 238, 638, 1003, 1108
BspANI GGCC 3 cut(s) 167, 1168, 1227
BspCNI CTCAG 1 cut(s) 1149
BspFNI CGCG 2 cut(s) 638, 1110
BspLI GGNNCC 3 cut(s) 321, 727, 1186
BspPI GGATC 8 cut(s) 98, 99, 314, 327, 329, 404, 508, 580
BsrDI GCAATG 1 cut(s) 676
BsrI ACTGG 1 cut(s) 929
BssECI CCNNGG 4 cut(s) 353, 729, 875, 973
BssMI GATC 8 cut(s) 91, 103, 319, 334, 396, 513, 572, 1070
BssT1I CCWWGG 1 cut(s) 973
Bst2UI CCWGG 2 cut(s) 354, 570
Bst4CI ACNGT 3 cut(s) 246, 563, 879
BstAPI GCANNNNNTGC 1 cut(s) 257
BstBAI YACGTR 1 cut(s) 664
BstC8I GCNNGC 3 cut(s) 69, 884, 1204
BstDEI CTNAG 2 cut(s) 362, 1157
BstDSI CCRYGG 2 cut(s) 729, 875
BstF5I GGATG 2 cut(s) 552, 624
BstFNI CGCG 2 cut(s) 638, 1110
BstHHI GCGC 1 cut(s) 294
BstKTI GATC 8 cut(s) 94, 106, 322, 337, 399, 516, 575, 1073
BstMAI GTCTC 1 cut(s) 627
BstMBI GATC 8 cut(s) 91, 103, 319, 334, 396, 513, 572, 1070
BstMWI GCNNNNNNNGC 1 cut(s) 257
BstNI CCWGG 2 cut(s) 354, 570
BstNSI RCATGY 1 cut(s) 823
BstSCI CCNGG 3 cut(s) 352, 568, 608
BstUI CGCG 2 cut(s) 638, 1110
BstX2I RGATCY 3 cut(s) 103, 319, 513
BstYI RGATCY 3 cut(s) 103, 319, 513
BsuRI GGCC 3 cut(s) 167, 1168, 1227
BtgI CCRYGG 2 cut(s) 729, 875
BtgZI GCGATG 1 cut(s) 711
BtsCI GGATG 2 cut(s) 552, 624
BtsI GCAGTG 1 cut(s) 378
BtsIMutI CAGTG 2 cut(s) 378, 922
Cac8I GCNNGC 3 cut(s) 69, 884, 1204
CfoI GCGC 1 cut(s) 294
Cfr13I GGNCC 2 cut(s) 500, 596
CseI GACGC 4 cut(s) 138, 644, 722, 769
DdeI CTNAG 2 cut(s) 362, 1157
DpnI GATC 8 cut(s) 93, 105, 321, 336, 398, 515, 574, 1072
DpnII GATC 8 cut(s) 91, 103, 319, 334, 396, 513, 572, 1070
DraIII CACNNNGTG 1 cut(s) 612
Eco130I CCWWGG 1 cut(s) 973
Eco47I GGWCC 2 cut(s) 500, 596
Eco57I CTGAAG 1 cut(s) 1143
Eco72I CACGTG 1 cut(s) 664
Eco88I CYCGRG 1 cut(s) 478
EcoRII CCWGG 2 cut(s) 352, 568
EcoT14I CCWWGG 1 cut(s) 973
ErhI CCWWGG 1 cut(s) 973
Esp3I CGTCTC 1 cut(s) 627
FaqI GGGAC 1 cut(s) 370
FauI CCCGC 1 cut(s) 1010
FauNDI CATATG 1 cut(s) 756
FblI GTMKAC 1 cut(s) 1133
FokI GGATG 2 cut(s) 539, 631
FspBI CTAG 2 cut(s) 113, 348
GlaI GCGC 1 cut(s) 293
HaeIII GGCC 3 cut(s) 167, 1168, 1227
HapII CCGG 4 cut(s) 89, 186, 609, 1116
HgaI GACGC 4 cut(s) 138, 644, 722, 769
HhaI GCGC 1 cut(s) 294
Hin6I GCGC 1 cut(s) 292
HinP1I GCGC 1 cut(s) 292
HincII GTYRAC 2 cut(s) 121, 130
HindII GTYRAC 2 cut(s) 121, 130
HinfI GANTC 5 cut(s) 303, 358, 705, 858, 1112
HpaI GTTAAC 1 cut(s) 130
HpaII CCGG 4 cut(s) 89, 186, 609, 1116
HphI GGTGA 1 cut(s) 1183
Hpy166II GTNNAC 8 cut(s) 121, 130, 343, 487, 566, 599, 907, 1134
Hpy188I TCNGA 4 cut(s) 287, 628, 851, 1075
Hpy188III TCNNGA 3 cut(s) 101, 406, 457
Hpy8I GTNNAC 8 cut(s) 121, 130, 343, 487, 566, 599, 907, 1134
Hpy99I CGWCG 3 cut(s) 128, 335, 1233
HpyAV CCTTC 2 cut(s) 848, 1070
HpyCH4III ACNGT 3 cut(s) 246, 563, 879
HpyCH4IV ACGT 2 cut(s) 126, 663
HpyF10VI GCNNNNNNNGC 1 cut(s) 257
HpyF3I CTNAG 2 cut(s) 362, 1157
HpySE526I ACGT 2 cut(s) 126, 663
HspAI GCGC 1 cut(s) 292
KspAI GTTAAC 1 cut(s) 130
Kzo9I GATC 8 cut(s) 91, 103, 319, 334, 396, 513, 572, 1070
LmnI GCTCC 4 cut(s) 159, 997, 1097, 1132
LweI GCATC 2 cut(s) 609, 1024
MaeI CTAG 2 cut(s) 113, 348
MaeII ACGT 2 cut(s) 126, 663
MaeIII GTNAC 8 cut(s) 59, 215, 313, 373, 800, 826, 1018, 1173
MalI GATC 8 cut(s) 93, 105, 321, 336, 398, 515, 574, 1072
MboI GATC 8 cut(s) 91, 103, 319, 334, 396, 513, 572, 1070
MboII GAAGA 4 cut(s) 38, 69, 395, 1043
MfeI CAATTG 1 cut(s) 831
MflI RGATCY 3 cut(s) 103, 319, 513
MluCI AATT 4 cut(s) 223, 537, 831, 1063
MlyI GAGTC 4 cut(s) 352, 699, 852, 1121
MmeI TCCRAC 1 cut(s) 983
MnlI CCTC 7 cut(s) 150, 281, 467, 647, 1009, 1158, 1217
MroXI GAANNNNTTC 1 cut(s) 952
MseI TTAA 7 cut(s) 129, 509, 549, 588, 840, 1008, 1237
MslI CAYNNNNRTG 1 cut(s) 1032
MspI CCGG 4 cut(s) 89, 186, 609, 1116
MspR9I CCNGG 3 cut(s) 354, 570, 610
MunI CAATTG 1 cut(s) 831
Mva1269I GAATGC 1 cut(s) 876
MvaI CCWGG 2 cut(s) 354, 570
MvnI CGCG 2 cut(s) 638, 1110
MwoI GCNNNNNNNGC 1 cut(s) 257
NciI CCSGG 1 cut(s) 610
NdeI CATATG 1 cut(s) 756
NdeII GATC 8 cut(s) 91, 103, 319, 334, 396, 513, 572, 1070
NlaIV GGNNCC 3 cut(s) 321, 727, 1186
NmuCI GTSAC 4 cut(s) 215, 373, 826, 1173
NspI RCATGY 1 cut(s) 823
PaeR7I CTCGAG 1 cut(s) 478
PcsI WCGNNNNNNNCGW 3 cut(s) 123, 336, 1225
PctI GAATGC 1 cut(s) 876
PdmI GAANNNNTTC 1 cut(s) 952
PfeI GAWTC 1 cut(s) 303
PleI GAGTC 4 cut(s) 352, 699, 852, 1120
PmaCI CACGTG 1 cut(s) 664
PmlI CACGTG 1 cut(s) 664
PpsI GAGTC 4 cut(s) 352, 699, 852, 1120
Ppu21I YACGTR 1 cut(s) 664
Psp6I CCWGG 2 cut(s) 352, 568
PspCI CACGTG 1 cut(s) 664
PspGI CCWGG 2 cut(s) 352, 568
PspN4I GGNNCC 3 cut(s) 321, 727, 1186
PspPI GGNCC 2 cut(s) 500, 596
PspXI VCTCGAGB 1 cut(s) 478
PsuI RGATCY 3 cut(s) 103, 319, 513
RseI CAYNNNNRTG 1 cut(s) 1032
SaqAI TTAA 7 cut(s) 129, 509, 549, 588, 840, 1008, 1237
Sau3AI GATC 8 cut(s) 91, 103, 319, 334, 396, 513, 572, 1070
Sau96I GGNCC 2 cut(s) 500, 596
SchI GAGTC 4 cut(s) 352, 699, 852, 1121
ScrFI CCNGG 3 cut(s) 354, 570, 610
SfaNI GCATC 2 cut(s) 609, 1024
Sfr274I CTCGAG 1 cut(s) 478
SinI GGWCC 2 cut(s) 500, 596
SlaI CTCGAG 1 cut(s) 478
SmiMI CAYNNNNRTG 1 cut(s) 1032
SmlI CTYRAG 1 cut(s) 478
SmoI CTYRAG 1 cut(s) 478
Sse9I AATT 4 cut(s) 223, 537, 831, 1063
SsiI CCGC 5 cut(s) 211, 238, 638, 1003, 1108
SspMI CTAG 2 cut(s) 113, 348
StyD4I CCNGG 3 cut(s) 352, 568, 608
StyI CCWWGG 1 cut(s) 973
TaaI ACNGT 3 cut(s) 246, 563, 879
TaiI ACGT 2 cut(s) 129, 666
TaqI TCGA 5 cut(s) 80, 301, 479, 689, 746
TasI AATT 4 cut(s) 223, 537, 831, 1063
TfiI GAWTC 1 cut(s) 303
Tru1I TTAA 7 cut(s) 129, 509, 549, 588, 840, 1008, 1237
Tru9I TTAA 7 cut(s) 129, 509, 549, 588, 840, 1008, 1237
TscAI CASTG 2 cut(s) 378, 929
TseFI GTSAC 4 cut(s) 215, 373, 826, 1173
Tsp45I GTSAC 4 cut(s) 215, 373, 826, 1173
TspDTI ATGAA 2 cut(s) 530, 1044
TspGWI ACGGA 3 cut(s) 332, 1110, 1119
TspRI CASTG 2 cut(s) 378, 929
VpaK11BI GGWCC 2 cut(s) 500, 596
XceI RCATGY 1 cut(s) 823
XhoI CTCGAG 1 cut(s) 478
XmiI GTMKAC 1 cut(s) 1133
XmnI GAANNNNTTC 1 cut(s) 952
XspI CTAG 2 cut(s) 113, 348
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.