AT5G09280

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0008415
Physical Location & Seq
Reverse (-)
2880423 .. 2881597
1175 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G09280.1

Sequence Viewer

Length: 894 bp
ATGACGGGAAATATCGGTAAAGGAGTCACACAATACAAAGTAACCGACCCGTCTGATGATCCTCTGAACCCTAAACCTGGAACCCTAAGATACGGAGCAACACTCGTCAAAGGTAAAAAATGGATCACATTCAAAAGAAACATGAAGATCAAGCTTCATAAACCGCTTCTAATCAGCAGCTTCACGGCACTCGATGGTCGAGGTGCTAGTGTTCACATCTCGGGTCCCGCTTGCCTCATAGTCTATAGAGCCACCGATGTGATCATTCATGGGCTTAAGATCCATGATTGTAAAGCTCATCCACCAAGCTCAGTGATGGGACCTGACTCAAAGATCATCCAACTTGGACACATGGATGGCGACGCTATCAGGCTAGTCACGGCTAAGAAAGTATGGATCGACCACAACACTCTCTATGATTGCGAAGACGGTCTTCTAGATGTCACACTAGGGAGTACTGACGTCACAGTGTCGAACAATTGGTTTAGGAACCAGGACAAGGTCATGCTTCTTGGACATGATGATGGCTATGTAAAAGACAAAGATATGAGGGTAACTGTTGTGTTTAACCACTTTGGTCCTAATTGCAACCAGAGAATGCCAAGAGTGAGACATGGATATGCTCATGTTGCCAATAACTATTACCAAGGATGGACTCAATATGCAATTGGAGGAAGCATGAGCCCTCGTGTAAAGAGTGAATCAAACTATTTCGTGGCACCAAAATCCGGAAGCAAAGAGGTGTTGGAAAAGCACGGCCCAATTACGGCCCAGATCAAAGGTTCACAGTCGCAAACGCTAAACAGGTTAAAGTACTCACTTCTTCAGCCGGAGCGTTACACTGCACCAGAAACTCCGTCTGTTAGTACAACAACGCTTAACATGACTTTTTAG
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

297

Amino Acids

32.97

Weight (kDa)

9.46

Isoelectric Point (pI)

25.61

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 114 - 266 8.6e-27 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)
AatII GACGTC 1 cut(s) 465
AccB1I GGYRCC 1 cut(s) 718
AccIII TCCGGA 1 cut(s) 728
AciI CCGC 2 cut(s) 164, 228
AclWI GGATC 4 cut(s) 53, 131, 274, 404
AcuI CTGAAG 1 cut(s) 809
AcyI GRCGYC 1 cut(s) 462
AfaI GTAC 3 cut(s) 457, 815, 868
AfiI CCNNNNNNNGG 4 cut(s) 77, 499, 728, 766
AflII CTTAAG 1 cut(s) 275
AgsI TTSAA 1 cut(s) 133
AjnI CCWGG 2 cut(s) 76, 492
AleI CACNNNNGTG 1 cut(s) 257
AluBI AGCT 4 cut(s) 154, 180, 296, 309
AluI AGCT 4 cut(s) 154, 180, 296, 309
Alw26I GTCTC 1 cut(s) 604
AlwI GGATC 4 cut(s) 53, 131, 274, 404
Ama87I CYCGRG 1 cut(s) 220
Aor13HI TCCGGA 1 cut(s) 728
AoxI GGCC 2 cut(s) 757, 768
ApeKI GCWGC 1 cut(s) 177
AspS9I GGNCC 5 cut(s) 224, 320, 578, 758, 769
AvaI CYCGRG 1 cut(s) 220
AvaII GGWCC 3 cut(s) 224, 320, 578
BanI GGYRCC 1 cut(s) 718
BanII GRGCYC 1 cut(s) 686
BauI CACGAG 1 cut(s) 687
BbsI GAAGAC 2 cut(s) 425, 432
BbvI GCAGC 1 cut(s) 189
BccI CCATC 5 cut(s) 188, 310, 350, 518, 645
BceAI ACGGC 4 cut(s) 201, 396, 772, 783
BciT130I CCWGG 2 cut(s) 78, 494
BclI TGATCA 1 cut(s) 261
BcoDI GTCTC 1 cut(s) 604
BfaI CTAG 4 cut(s) 207, 374, 437, 449
BfmI CTRYAG 1 cut(s) 244
BfrI CTTAAG 1 cut(s) 275
BisI GCNGC 1 cut(s) 178
BlsI GCNGC 1 cut(s) 179
BmcAI AGTACT 2 cut(s) 457, 815
Bme1390I CCNGG 2 cut(s) 78, 494
Bme18I GGWCC 3 cut(s) 224, 320, 578
BmeT110I CYCGRG 1 cut(s) 220
BmgT120I GGNCC 5 cut(s) 224, 320, 578, 758, 769
BmiI GGNNCC 6 cut(s) 82, 225, 226, 321, 491, 720
BmrFI CCNGG 2 cut(s) 78, 494
BpiI GAAGAC 2 cut(s) 425, 432
BplI GAGNNNNNCTC 2 cut(s) 87, 119
BsaHI GRCGYC 1 cut(s) 462
BsaJI CCNNGG 1 cut(s) 646
BsaWI WCCGGW 1 cut(s) 728
Bsc4I CCNNNNNNNGG 4 cut(s) 77, 499, 728, 766
BseAI TCCGGA 1 cut(s) 728
BseBI CCWGG 2 cut(s) 78, 494
BseDI CCNNGG 1 cut(s) 646
BseGI GGATG 4 cut(s) 298, 336, 361, 656
BseLI CCNNNNNNNGG 4 cut(s) 77, 499, 728, 766
BseMII CTCAG 1 cut(s) 324
BseXI GCAGC 1 cut(s) 189
BsgI GTGCAG 1 cut(s) 828
BshFI GGCC 2 cut(s) 759, 770
BshNI GGYRCC 1 cut(s) 718
BsiHKCI CYCGRG 1 cut(s) 220
BsiSI CCGG 2 cut(s) 729, 830
BslFI GGGAC 2 cut(s) 210, 333
BslI CCNNNNNNNGG 4 cut(s) 77, 499, 728, 766
BsmAI GTCTC 1 cut(s) 604
BsmFI GGGAC 2 cut(s) 210, 333
BsmI GAATGC 1 cut(s) 603
BsnI GGCC 2 cut(s) 759, 770
BsoBI CYCGRG 1 cut(s) 220
Bsp1286I GDGCHC 1 cut(s) 686
Bsp13I TCCGGA 1 cut(s) 728
Bsp143I GATC 8 cut(s) 58, 123, 147, 261, 279, 333, 396, 774
BspACI CCGC 2 cut(s) 164, 228
BspANI GGCC 2 cut(s) 759, 770
BspCNI CTCAG 1 cut(s) 323
BspEI TCCGGA 1 cut(s) 728
BspLI GGNNCC 6 cut(s) 82, 225, 226, 321, 491, 720
BspPI GGATC 4 cut(s) 53, 131, 274, 404
BspT107I GGYRCC 1 cut(s) 718
BspTI CTTAAG 1 cut(s) 275
BssECI CCNNGG 1 cut(s) 646
BssMI GATC 8 cut(s) 58, 123, 147, 261, 279, 333, 396, 774
BssNI GRCGYC 1 cut(s) 462
BssSI CACGAG 1 cut(s) 687
BssT1I CCWWGG 1 cut(s) 646
Bst2BI CACGAG 1 cut(s) 687
Bst2UI CCWGG 2 cut(s) 78, 494
Bst4CI ACNGT 4 cut(s) 431, 469, 559, 789
BstACI GRCGYC 1 cut(s) 462
BstAFI CTTAAG 1 cut(s) 275
BstC8I GCNNGC 1 cut(s) 232
BstDEI CTNAG 3 cut(s) 86, 310, 384
BstF5I GGATG 4 cut(s) 298, 336, 361, 656
BstKTI GATC 8 cut(s) 61, 126, 150, 264, 282, 336, 399, 777
BstMAI GTCTC 1 cut(s) 604
BstMBI GATC 8 cut(s) 58, 123, 147, 261, 279, 333, 396, 774
BstMWI GCNNNNNNNGC 1 cut(s) 629
BstNI CCWGG 2 cut(s) 78, 494
BstSCI CCNGG 2 cut(s) 76, 492
BstSFI CTRYAG 1 cut(s) 244
BstV1I GCAGC 1 cut(s) 189
BstV2I GAAGAC 2 cut(s) 425, 432
BstX2I RGATCY 1 cut(s) 279
BstYI RGATCY 1 cut(s) 279
BsuRI GGCC 2 cut(s) 759, 770
BtsCI GGATG 4 cut(s) 298, 336, 361, 656
BtsI GCAGTG 1 cut(s) 840
BtsIMutI CAGTG 3 cut(s) 318, 474, 840
Cac8I GCNNGC 1 cut(s) 232
Cfr13I GGNCC 5 cut(s) 224, 320, 578, 758, 769
CseI GACGC 1 cut(s) 371
Csp6I GTAC 3 cut(s) 456, 814, 867
CviQI GTAC 3 cut(s) 456, 814, 867
DdeI CTNAG 3 cut(s) 86, 310, 384
DpnI GATC 8 cut(s) 60, 125, 149, 263, 281, 335, 398, 776
DpnII GATC 8 cut(s) 58, 123, 147, 261, 279, 333, 396, 774
Eco130I CCWWGG 1 cut(s) 646
Eco24I GRGCYC 1 cut(s) 686
Eco47I GGWCC 3 cut(s) 224, 320, 578
Eco57I CTGAAG 1 cut(s) 809
Eco88I CYCGRG 1 cut(s) 220
EcoO109I RGGNCCY 2 cut(s) 224, 320
EcoRII CCWGG 2 cut(s) 76, 492
EcoT14I CCWWGG 1 cut(s) 646
EcoT38I GRGCYC 1 cut(s) 686
ErhI CCWWGG 1 cut(s) 646
FalI AAGNNNNNCTT 2 cut(s) 417, 449
FaqI GGGAC 2 cut(s) 210, 333
FauI CCCGC 1 cut(s) 235
FbaI TGATCA 1 cut(s) 261
Fnu4HI GCNGC 1 cut(s) 178
FokI GGATG 4 cut(s) 285, 323, 368, 663
FriOI GRGCYC 1 cut(s) 686
Fsp4HI GCNGC 1 cut(s) 178
FspBI CTAG 4 cut(s) 207, 374, 437, 449
GluI GCNGC 1 cut(s) 178
HaeIII GGCC 2 cut(s) 759, 770
HapII CCGG 2 cut(s) 729, 830
HgaI GACGC 1 cut(s) 371
Hin1I GRCGYC 1 cut(s) 462
HindIII AAGCTT 1 cut(s) 152
HinfI GANTC 4 cut(s) 24, 326, 655, 701
HpaII CCGG 2 cut(s) 729, 830
Hpy166II GTNNAC 2 cut(s) 214, 785
Hpy188I TCNGA 2 cut(s) 55, 66
Hpy188III TCNNGA 2 cut(s) 437, 729
Hpy8I GTNNAC 2 cut(s) 214, 785
Hpy99I CGWCG 1 cut(s) 365
HpyCH4III ACNGT 4 cut(s) 431, 469, 559, 789
HpyCH4IV ACGT 1 cut(s) 462
HpyCH4V TGCA 3 cut(s) 588, 665, 845
HpyF10VI GCNNNNNNNGC 1 cut(s) 629
HpyF3I CTNAG 3 cut(s) 86, 310, 384
HpySE526I ACGT 1 cut(s) 462
Hsp92I GRCGYC 1 cut(s) 462
KflI GGGWCCC 1 cut(s) 224
Kpn2I TCCGGA 1 cut(s) 728
Ksp22I TGATCA 1 cut(s) 261
Kzo9I GATC 8 cut(s) 58, 123, 147, 261, 279, 333, 396, 774
LmnI GCTCC 2 cut(s) 95, 832
Lsp1109I GCAGC 1 cut(s) 189
MaeI CTAG 4 cut(s) 207, 374, 437, 449
MaeII ACGT 1 cut(s) 462
MaeIII GTNAC 7 cut(s) 25, 40, 376, 442, 463, 553, 836
MalI GATC 8 cut(s) 60, 125, 149, 263, 281, 335, 398, 776
MboI GATC 8 cut(s) 58, 123, 147, 261, 279, 333, 396, 774
MboII GAAGA 4 cut(s) 157, 425, 437, 815
MfeI CAATTG 2 cut(s) 478, 666
MflI RGATCY 1 cut(s) 279
MhlI GDGCHC 1 cut(s) 686
MluCI AATT 4 cut(s) 478, 583, 666, 762
MlyI GAGTC 3 cut(s) 33, 320, 649
MmeI TCCRAC 2 cut(s) 364, 726
MnlI CCTC 7 cut(s) 72, 194, 245, 543, 665, 696, 733
MroI TCCGGA 1 cut(s) 728
MseI TTAA 4 cut(s) 276, 567, 809, 879
MslI CAYNNNNRTG 4 cut(s) 257, 354, 522, 618
MspCI CTTAAG 1 cut(s) 275
MspI CCGG 2 cut(s) 729, 830
MspR9I CCNGG 2 cut(s) 78, 494
MunI CAATTG 2 cut(s) 478, 666
Mva1269I GAATGC 1 cut(s) 603
MvaI CCWGG 2 cut(s) 78, 494
MwoI GCNNNNNNNGC 1 cut(s) 629
NdeII GATC 8 cut(s) 58, 123, 147, 261, 279, 333, 396, 774
NlaIV GGNNCC 6 cut(s) 82, 225, 226, 321, 491, 720
NmuCI GTSAC 4 cut(s) 25, 376, 442, 463
OliI CACNNNNGTG 1 cut(s) 257
PctI GAATGC 1 cut(s) 603
PfeI GAWTC 1 cut(s) 701
PflFI GACNNNGTC 1 cut(s) 500
PkrI GCNGC 1 cut(s) 179
PleI GAGTC 3 cut(s) 32, 320, 649
PpsI GAGTC 3 cut(s) 32, 320, 649
PpuMI RGGWCCY 2 cut(s) 224, 320
Psp5II RGGWCCY 2 cut(s) 224, 320
Psp6I CCWGG 2 cut(s) 76, 492
PspGI CCWGG 2 cut(s) 76, 492
PspN4I GGNNCC 6 cut(s) 82, 225, 226, 321, 491, 720
PspPI GGNCC 5 cut(s) 224, 320, 578, 758, 769
PspPPI RGGWCCY 2 cut(s) 224, 320
PsuI RGATCY 1 cut(s) 279
PsyI GACNNNGTC 1 cut(s) 500
RsaI GTAC 3 cut(s) 457, 815, 868
RsaNI GTAC 3 cut(s) 456, 814, 867
RseI CAYNNNNRTG 4 cut(s) 257, 354, 522, 618
SaqAI TTAA 4 cut(s) 276, 567, 809, 879
SatI GCNGC 1 cut(s) 178
Sau3AI GATC 8 cut(s) 58, 123, 147, 261, 279, 333, 396, 774
Sau96I GGNCC 5 cut(s) 224, 320, 578, 758, 769
ScaI AGTACT 2 cut(s) 457, 815
SchI GAGTC 3 cut(s) 33, 320, 649
ScrFI CCNGG 2 cut(s) 78, 494
SduI GDGCHC 1 cut(s) 686
SfcI CTRYAG 1 cut(s) 244
SinI GGWCC 3 cut(s) 224, 320, 578
SmiMI CAYNNNNRTG 4 cut(s) 257, 354, 522, 618
SmlI CTYRAG 1 cut(s) 275
SmoI CTYRAG 1 cut(s) 275
Sse9I AATT 4 cut(s) 478, 583, 666, 762
SsiI CCGC 2 cut(s) 164, 228
SspMI CTAG 4 cut(s) 207, 374, 437, 449
StyD4I CCNGG 2 cut(s) 76, 492
StyI CCWWGG 1 cut(s) 646
TaaI ACNGT 4 cut(s) 431, 469, 559, 789
TaiI ACGT 1 cut(s) 465
TaqI TCGA 4 cut(s) 192, 199, 399, 473
TasI AATT 4 cut(s) 478, 583, 666, 762
TatI WGTACW 3 cut(s) 455, 813, 866
TfiI GAWTC 1 cut(s) 701
Tru1I TTAA 4 cut(s) 276, 567, 809, 879
Tru9I TTAA 4 cut(s) 276, 567, 809, 879
TscAI CASTG 3 cut(s) 318, 474, 847
TseFI GTSAC 4 cut(s) 25, 376, 442, 463
TseI GCWGC 1 cut(s) 177
Tsp45I GTSAC 4 cut(s) 25, 376, 442, 463
TspDTI ATGAA 3 cut(s) 146, 158, 257
TspGWI ACGGA 2 cut(s) 108, 846
TspRI CASTG 3 cut(s) 318, 474, 847
Tth111I GACNNNGTC 1 cut(s) 500
Vha464I CTTAAG 1 cut(s) 275
VpaK11BI GGWCC 3 cut(s) 224, 320, 578
XbaI TCTAGA 1 cut(s) 436
XspI CTAG 4 cut(s) 207, 374, 437, 449
ZraI GACGTC 1 cut(s) 463
ZrmI AGTACT 2 cut(s) 457, 815
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.