AT4G22080

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0009756
Physical Location & Seq
Reverse (-)
11700555 .. 11702785
2231 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G22080.1

Sequence Viewer

Length: 1185 bp
ATGACTCTTTTCACCGTTTCGTGCCTCCTCGTGGTACTATTCTTATGTCATTCCTTGGTCCATGCCGAAAATAATGGTTATTACGGGTATACCCCCACGGTTGCCAACTACCTCCCCGAGAAACCGCAGAACATCATGAATCCGGTGGACTCCTGTTGGCGGCTCAAGTCTGACTGGGCTGCCAATCGTAAAGACCTAGCGGATTGCGTGGTTGGATTCGGTTCATCTACCTTGGGCGGAAAGAAAGGTAATTTATACGTTGTCACAAACCCTTACGACAATGCACAGAATCCTCAACCAGGTTCTTTGCGGTACGGCGTGATCCAAGCCAAACCATTGTGGATCACTTTCGCTAAGGATATGGTCATAACCCTAGAAAATGAGCTCATGGTCAATAGCTATAAAACCATTGATGGGAGAGGGGCAAAAGTAGAAATCGCATACGGACCATGCATCACGATACAAGACGTGACGAACGTAATCGTGCACGGGATCAGCATCCACGACTGCAAACCGGGGAAGTACGGTATGGTGAGGAGTAGCCCGACGCATGTTGGTCACCGTAAGGGATCGGACGGTGATGCGATCGCTATTTTCGGTTCATCGAATATTTGGATCGATCATTGTTACCTAGCGAGTTGTACGGACGGGCTCATCGATGTGATCCATGCTTCCACGGGAATCACTATTTCCAACAACTATTTCACTCAGCATGACAAAGTGATGTTACTTGGGCACAACGATGATTTTGTGCAAGATGTGAAAATGAAAGTGACCGTGGCATTCAATCATTTTGGACCAGGACTTGTGGAGAGAATGCCAAGAGTAAGACGAGGGTACGCTCATGTGGCAAACAATAGATACGATAAATGGATAATGTATGCAATTGGTGGTAGCGCCGATCCAACCATTTTTAGTGAAGGCAACTATTTCATTGCTTCTGATAAATCTAACAGCAAAGAGGTGACGAAGAGAGAAGTAAAAGGAGGATGGAACAATTGGAGATGGAGAACCTCAAAAGATGTTTTCAAGAACGGAGCTTACTTCGTACCTTCTGGTTATGGCAGCATTTCGCTACCTTACAGTTCTGCTCAGCGATTCACAGTAGCTCCGGGAAACTTGGTTCCTTCTTTAACTGCAGACGCTGGCCCTCTAAACTGCAACCGCAACGGCCCTTGTTATTAG
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

394

Amino Acids

43.48

Weight (kDa)

8.67

Isoelectric Point (pI)

27.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 128 - 325 6.6e-24 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: OG0009756)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G11920 AT1G30350 AT4G22080 AT4G22090
fragaria_vesca FvH4_3g01680
malus_domestica MD00G1202500.v1.1 MD05G1350000.v1.1 MD10G1324800.v1.1
prunus_persica Prupe.4G017400_v2.0.a1 Prupe.4G020600_v2.0.a1
pyrus_communis pycom10g27510
rosa_chinensis RchiOBHm_Chr5g0002531
rosa_laevigata RLG00000031037
rosa_multiflora Rmu_sc0010731.1_g000004
rosa_roxburghii Rroxscaffold_1G00073370
rosa_rugosa Rorug04G0396700
rosa_samantha Rh5AG020100 Rh5BG022800 Rh5CG022100 Rh5DG021200
rosa_wichuraiana Rw5G001850

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 89
AciI CCGC 6 cut(s) 125, 160, 200, 237, 310, 1165
AclWI GGATC 7 cut(s) 316, 350, 500, 577, 623, 658, 896
AfaI GTAC 6 cut(s) 36, 314, 524, 643, 839, 1050
AfiI CCNNNNNNNGG 4 cut(s) 31, 159, 299, 414
AgsI TTSAA 2 cut(s) 787, 1030
AjiI CACGTC 1 cut(s) 469
AjnI CCWGG 2 cut(s) 298, 799
AjuI GAANNNNNNNTTGG 2 cut(s) 686, 718
AloI GAACNNNNNNTCC 2 cut(s) 1107, 1139
AluBI AGCT 4 cut(s) 385, 399, 1040, 1109
AluI AGCT 4 cut(s) 385, 399, 1040, 1109
Alw21I GWGCWC 2 cut(s) 387, 489
Alw44I GTGCAC 1 cut(s) 485
AlwI GGATC 7 cut(s) 316, 350, 500, 577, 623, 658, 896
AlwNI CAGNNNCTG 1 cut(s) 1145
Ama87I CYCGRG 1 cut(s) 116
AoxI GGCC 2 cut(s) 1147, 1171
ApaLI GTGCAC 1 cut(s) 485
ApeKI GCWGC 2 cut(s) 179, 1065
AsiSI GCGATCGC 1 cut(s) 588
AspLEI GCGC 1 cut(s) 899
AspS9I GGNCC 5 cut(s) 58, 446, 797, 1148, 1172
AsuC2I CCSGG 2 cut(s) 516, 1113
AsuHPI GGTGA 5 cut(s) 4, 544, 551, 590, 976
AvaI CYCGRG 1 cut(s) 116
AvaII GGWCC 3 cut(s) 58, 446, 797
BaeGI GKGCMC 2 cut(s) 489, 738
BanII GRGCYC 2 cut(s) 387, 654
BauI CACGAG 1 cut(s) 29
Bbv12I GWGCWC 2 cut(s) 387, 489
BbvI GCAGC 2 cut(s) 166, 1077
BccI CCATC 3 cut(s) 407, 984, 999
BceAI ACGGC 1 cut(s) 331
BciT130I CCWGG 2 cut(s) 300, 801
BcnI CCSGG 2 cut(s) 516, 1113
BfaI CTAG 3 cut(s) 197, 374, 632
BfmI CTRYAG 1 cut(s) 1137
BfoI RGCGCY 1 cut(s) 900
BisI GCNGC 3 cut(s) 161, 180, 1066
BlpI GCTNAGC 1 cut(s) 1092
BlsI GCNGC 3 cut(s) 162, 181, 1067
Bme1390I CCNGG 4 cut(s) 300, 516, 801, 1113
Bme18I GGWCC 3 cut(s) 58, 446, 797
BmeT110I CYCGRG 1 cut(s) 116
BmgBI CACGTC 1 cut(s) 469
BmgT120I GGNCC 5 cut(s) 58, 446, 797, 1148, 1172
BmiI GGNNCC 1 cut(s) 1125
BmrFI CCNGG 4 cut(s) 300, 516, 801, 1113
BmrI ACTGGG 1 cut(s) 184
BmsI GCATC 3 cut(s) 462, 507, 571
BmuI ACTGGG 1 cut(s) 184
Bpu10I CCTNAGC 1 cut(s) 354
Bpu1102I GCTNAGC 1 cut(s) 1092
BpuEI CTTGAG 1 cut(s) 149
BpuMI CCSGG 2 cut(s) 516, 1113
Bsa29I ATCGAT 2 cut(s) 618, 657
BsaBI GATNNNNATC 1 cut(s) 497
BsaJI CCNNGG 6 cut(s) 54, 96, 231, 515, 675, 777
BsaWI WCCGGW 1 cut(s) 142
BsaXI ACNNNNNCTCC 2 cut(s) 1093, 1123
Bsc4I CCNNNNNNNGG 4 cut(s) 31, 159, 299, 414
Bse1I ACTGG 1 cut(s) 179
Bse3DI GCAATG 1 cut(s) 933
Bse8I GATNNNNATC 1 cut(s) 497
BseBI CCWGG 2 cut(s) 300, 801
BseCI ATCGAT 2 cut(s) 618, 657
BseDI CCNNGG 6 cut(s) 54, 96, 231, 515, 675, 777
BseGI GGATG 2 cut(s) 498, 995
BseJI GATNNNNATC 1 cut(s) 497
BseLI CCNNNNNNNGG 4 cut(s) 31, 159, 299, 414
BseMI GCAATG 1 cut(s) 933
BseMII CTCAG 2 cut(s) 722, 1106
BseNI ACTGG 1 cut(s) 179
BseRI GAGGAG 2 cut(s) 17, 550
BseSI GKGCMC 2 cut(s) 489, 738
BseXI GCAGC 2 cut(s) 166, 1077
Bsh1285I CGRYCG 1 cut(s) 588
BshFI GGCC 2 cut(s) 1149, 1173
BshVI ATCGAT 2 cut(s) 618, 657
BsiEI CGRYCG 1 cut(s) 588
BsiHKAI GWGCWC 2 cut(s) 387, 489
BsiHKCI CYCGRG 1 cut(s) 116
BsiSI CCGG 3 cut(s) 143, 515, 1112
BslI CCNNNNNNNGG 4 cut(s) 31, 159, 299, 414
BsmI GAATGC 2 cut(s) 782, 822
BsnI GGCC 2 cut(s) 1149, 1173
BsoBI CYCGRG 1 cut(s) 116
Bsp1286I GDGCHC 4 cut(s) 387, 489, 654, 738
Bsp143I GATC 9 cut(s) 321, 342, 492, 569, 585, 615, 619, 663, 901
Bsp1720I GCTNAGC 1 cut(s) 1092
BspACI CCGC 6 cut(s) 125, 160, 200, 237, 310, 1165
BspANI GGCC 2 cut(s) 1149, 1173
BspCNI CTCAG 2 cut(s) 721, 1105
BspDI ATCGAT 2 cut(s) 618, 657
BspHI TCATGA 1 cut(s) 135
BspLI GGNNCC 1 cut(s) 1125
BspMAI CTGCAG 1 cut(s) 1141
BspPI GGATC 7 cut(s) 316, 350, 500, 577, 623, 658, 896
BsrDI GCAATG 1 cut(s) 933
BsrI ACTGG 1 cut(s) 179
BssECI CCNNGG 6 cut(s) 54, 96, 231, 515, 675, 777
BssMI GATC 9 cut(s) 321, 342, 492, 569, 585, 615, 619, 663, 901
BssNAI GTATAC 1 cut(s) 90
BssSI CACGAG 1 cut(s) 29
BssT1I CCWWGG 2 cut(s) 54, 231
Bst1107I GTATAC 1 cut(s) 90
Bst2BI CACGAG 1 cut(s) 29
Bst2UI CCWGG 2 cut(s) 300, 801
Bst4CI ACNGT 8 cut(s) 16, 100, 527, 563, 578, 778, 1085, 1105
Bst6I CTCTTC 1 cut(s) 965
BstC8I GCNNGC 1 cut(s) 1147
BstDEI CTNAG 3 cut(s) 354, 708, 1092
BstDSI CCRYGG 3 cut(s) 96, 675, 777
BstEII GGTNACC 1 cut(s) 557
BstENI CCTNNNNNAGG 1 cut(s) 297
BstF5I GGATG 2 cut(s) 498, 995
BstH2I RGCGCY 1 cut(s) 900
BstHHI GCGC 1 cut(s) 899
BstKTI GATC 9 cut(s) 324, 345, 495, 572, 588, 618, 622, 666, 904
BstMBI GATC 9 cut(s) 321, 342, 492, 569, 585, 615, 619, 663, 901
BstMCI CGRYCG 1 cut(s) 588
BstMWI GCNNNNNNNGC 1 cut(s) 848
BstNI CCWGG 2 cut(s) 300, 801
BstNSI RCATGY 1 cut(s) 554
BstPI GGTNACC 1 cut(s) 557
BstSCI CCNGG 4 cut(s) 298, 514, 799, 1111
BstSFI CTRYAG 1 cut(s) 1137
BstSLI GKGCMC 2 cut(s) 489, 738
BstV1I GCAGC 2 cut(s) 166, 1077
BstZ17I GTATAC 1 cut(s) 90
Bsu15I ATCGAT 2 cut(s) 618, 657
BsuRI GGCC 2 cut(s) 1149, 1173
BsuTUI ATCGAT 2 cut(s) 618, 657
BtgI CCRYGG 3 cut(s) 96, 675, 777
BtrI CACGTC 1 cut(s) 469
BtsCI GGATG 2 cut(s) 498, 995
Cac8I GCNNGC 1 cut(s) 1147
CaiI CAGNNNCTG 1 cut(s) 1145
CciI TCATGA 1 cut(s) 135
CfoI GCGC 1 cut(s) 899
Cfr13I GGNCC 5 cut(s) 58, 446, 797, 1148, 1172
ClaI ATCGAT 2 cut(s) 618, 657
CseI GACGC 2 cut(s) 556, 1151
CsiI ACCWGGT 1 cut(s) 298
Csp6I GTAC 6 cut(s) 35, 313, 523, 642, 838, 1049
CviAII CATG 8 cut(s) 62, 136, 388, 450, 551, 668, 713, 845
CviQI GTAC 6 cut(s) 35, 313, 523, 642, 838, 1049
DdeI CTNAG 3 cut(s) 354, 708, 1092
DpnI GATC 9 cut(s) 323, 344, 494, 571, 587, 617, 621, 665, 903
DpnII GATC 9 cut(s) 321, 342, 492, 569, 585, 615, 619, 663, 901
Eam1104I CTCTTC 1 cut(s) 965
EarI CTCTTC 1 cut(s) 965
EciI GGCGGA 1 cut(s) 252
Ecl136II GAGCTC 1 cut(s) 385
Eco130I CCWWGG 2 cut(s) 54, 231
Eco24I GRGCYC 2 cut(s) 387, 654
Eco47I GGWCC 3 cut(s) 58, 446, 797
Eco53kI GAGCTC 1 cut(s) 385
Eco88I CYCGRG 1 cut(s) 116
Eco91I GGTNACC 1 cut(s) 557
EcoICRI GAGCTC 1 cut(s) 385
EcoNI CCTNNNNNAGG 1 cut(s) 297
EcoO65I GGTNACC 1 cut(s) 557
EcoRII CCWGG 2 cut(s) 298, 799
EcoT14I CCWWGG 2 cut(s) 54, 231
EcoT22I ATGCAT 1 cut(s) 455
EcoT38I GRGCYC 2 cut(s) 387, 654
ErhI CCWWGG 2 cut(s) 54, 231
FaeI CATG 8 cut(s) 65, 139, 391, 453, 554, 671, 716, 848
FatI CATG 8 cut(s) 61, 135, 387, 449, 550, 667, 712, 844
FblI GTMKAC 1 cut(s) 89
Fnu4HI GCNGC 3 cut(s) 161, 180, 1066
FokI GGATG 2 cut(s) 485, 1002
FriOI GRGCYC 2 cut(s) 387, 654
Fsp4HI GCNGC 3 cut(s) 161, 180, 1066
FspBI CTAG 3 cut(s) 197, 374, 632
GlaI GCGC 1 cut(s) 898
GluI GCNGC 3 cut(s) 161, 180, 1066
HaeII RGCGCY 1 cut(s) 900
HaeIII GGCC 2 cut(s) 1149, 1173
HapII CCGG 3 cut(s) 143, 515, 1112
HgaI GACGC 2 cut(s) 556, 1151
HhaI GCGC 1 cut(s) 899
Hin1II CATG 8 cut(s) 65, 139, 391, 453, 554, 671, 716, 848
Hin6I GCGC 1 cut(s) 897
HinP1I GCGC 1 cut(s) 897
HinfI GANTC 7 cut(s) 4, 139, 149, 216, 289, 681, 1098
HpaII CCGG 3 cut(s) 143, 515, 1112
HphI GGTGA 5 cut(s) 4, 544, 551, 590, 976
Hpy166II GTNNAC 3 cut(s) 90, 148, 487
Hpy188I TCNGA 3 cut(s) 172, 574, 943
Hpy188III TCNNGA 3 cut(s) 136, 457, 1030
Hpy8I GTNNAC 3 cut(s) 90, 148, 487
Hpy99I CGWCG 1 cut(s) 550
HpyAV CCTTC 3 cut(s) 914, 1062, 1137
HpyCH4III ACNGT 8 cut(s) 16, 100, 527, 563, 578, 778, 1085, 1105
HpyCH4IV ACGT 3 cut(s) 258, 468, 477
HpyCH4V TGCA 8 cut(s) 284, 453, 487, 510, 754, 884, 1139, 1161
HpyF10VI GCNNNNNNNGC 1 cut(s) 848
HpyF3I CTNAG 3 cut(s) 354, 708, 1092
HpySE526I ACGT 3 cut(s) 258, 468, 477
Hsp92II CATG 8 cut(s) 65, 139, 391, 453, 554, 671, 716, 848
HspAI GCGC 1 cut(s) 897
Kzo9I GATC 9 cut(s) 321, 342, 492, 569, 585, 615, 619, 663, 901
LmnI GCTCC 2 cut(s) 1037, 1114
Lsp1109I GCAGC 2 cut(s) 166, 1077
LweI GCATC 3 cut(s) 462, 507, 571
MabI ACCWGGT 1 cut(s) 298
MaeI CTAG 3 cut(s) 197, 374, 632
MaeII ACGT 3 cut(s) 258, 468, 477
MaeIII GTNAC 7 cut(s) 262, 469, 557, 626, 726, 772, 964
MalI GATC 9 cut(s) 323, 344, 494, 571, 587, 617, 621, 665, 903
MboI GATC 9 cut(s) 321, 342, 492, 569, 585, 615, 619, 663, 901
MboII GAAGA 1 cut(s) 982
MfeI CAATTG 2 cut(s) 885, 997
MhlI GDGCHC 4 cut(s) 387, 489, 654, 738
MluCI AATT 3 cut(s) 250, 885, 997
MlyI GAGTC 1 cut(s) 143
MmeI TCCRAC 3 cut(s) 193, 717, 929
Mph1103I ATGCAT 1 cut(s) 455
MseI TTAA 1 cut(s) 1133
MslI CAYNNNNRTG 2 cut(s) 659, 741
MspI CCGG 3 cut(s) 143, 515, 1112
MspR9I CCNGG 4 cut(s) 300, 516, 801, 1113
MunI CAATTG 2 cut(s) 885, 997
Mva1269I GAATGC 2 cut(s) 782, 822
MvaI CCWGG 2 cut(s) 300, 801
MwoI GCNNNNNNNGC 1 cut(s) 848
NciI CCSGG 2 cut(s) 516, 1113
NdeII GATC 9 cut(s) 321, 342, 492, 569, 585, 615, 619, 663, 901
NlaIII CATG 8 cut(s) 65, 139, 391, 453, 554, 671, 716, 848
NlaIV GGNNCC 1 cut(s) 1125
NmuCI GTSAC 5 cut(s) 262, 469, 557, 772, 964
NsiI ATGCAT 1 cut(s) 455
NspI RCATGY 1 cut(s) 554
PagI TCATGA 1 cut(s) 135
PcsI WCGNNNNNNNCGW 2 cut(s) 474, 654
PctI GAATGC 2 cut(s) 782, 822
PfeI GAWTC 5 cut(s) 139, 216, 289, 681, 1098
PfoI TCCNGGA 1 cut(s) 1111
PkrI GCNGC 3 cut(s) 162, 181, 1067
Ple19I CGATCG 1 cut(s) 588
PleI GAGTC 1 cut(s) 143
PpsI GAGTC 1 cut(s) 143
Psp124BI GAGCTC 1 cut(s) 387
Psp6I CCWGG 2 cut(s) 298, 799
PspEI GGTNACC 1 cut(s) 557
PspGI CCWGG 2 cut(s) 298, 799
PspN4I GGNNCC 1 cut(s) 1125
PspPI GGNCC 5 cut(s) 58, 446, 797, 1148, 1172
PsrI GAACNNNNNNTAC 2 cut(s) 1025, 1057
PstI CTGCAG 1 cut(s) 1141
PstNI CAGNNNCTG 1 cut(s) 1145
PvuI CGATCG 1 cut(s) 588
RgaI GCGATCGC 1 cut(s) 588
RsaI GTAC 6 cut(s) 36, 314, 524, 643, 839, 1050
RsaNI GTAC 6 cut(s) 35, 313, 523, 642, 838, 1049
RseI CAYNNNNRTG 2 cut(s) 659, 741
SacI GAGCTC 1 cut(s) 387
SaqAI TTAA 1 cut(s) 1133
SatI GCNGC 3 cut(s) 161, 180, 1066
Sau3AI GATC 9 cut(s) 321, 342, 492, 569, 585, 615, 619, 663, 901
Sau96I GGNCC 5 cut(s) 58, 446, 797, 1148, 1172
SchI GAGTC 1 cut(s) 143
ScrFI CCNGG 4 cut(s) 300, 516, 801, 1113
SduI GDGCHC 4 cut(s) 387, 489, 654, 738
SexAI ACCWGGT 1 cut(s) 298
SfaAI GCGATCGC 1 cut(s) 588
SfaNI GCATC 3 cut(s) 462, 507, 571
SfcI CTRYAG 1 cut(s) 1137
SgfI GCGATCGC 1 cut(s) 588
SinI GGWCC 3 cut(s) 58, 446, 797
SmiMI CAYNNNNRTG 2 cut(s) 659, 741
SmlI CTYRAG 1 cut(s) 164
SmoI CTYRAG 1 cut(s) 164
Sse9I AATT 3 cut(s) 250, 885, 997
SsiI CCGC 6 cut(s) 125, 160, 200, 237, 310, 1165
SspI AATATT 1 cut(s) 610
SspMI CTAG 3 cut(s) 197, 374, 632
SstI GAGCTC 1 cut(s) 387
StyD4I CCNGG 4 cut(s) 298, 514, 799, 1111
StyI CCWWGG 2 cut(s) 54, 231
TaaI ACNGT 8 cut(s) 16, 100, 527, 563, 578, 778, 1085, 1105
TaiI ACGT 3 cut(s) 261, 471, 480
TaqI TCGA 3 cut(s) 605, 618, 657
TasI AATT 3 cut(s) 250, 885, 997
TauI GCSGC 1 cut(s) 163
TfiI GAWTC 5 cut(s) 139, 216, 289, 681, 1098
Tru1I TTAA 1 cut(s) 1133
Tru9I TTAA 1 cut(s) 1133
TseFI GTSAC 5 cut(s) 262, 469, 557, 772, 964
TseI GCWGC 2 cut(s) 179, 1065
Tsp45I GTSAC 5 cut(s) 262, 469, 557, 772, 964
TspDTI ATGAA 5 cut(s) 152, 213, 591, 782, 922
TspGWI ACGGA 3 cut(s) 459, 659, 1050
VneI GTGCAC 1 cut(s) 485
VpaK11BI GGWCC 3 cut(s) 58, 446, 797
XagI CCTNNNNNAGG 1 cut(s) 297
XceI RCATGY 1 cut(s) 554
XmiI GTMKAC 1 cut(s) 89
XspI CTAG 3 cut(s) 197, 374, 632
Zsp2I ATGCAT 1 cut(s) 455
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.