AT1G11920

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0009756
Physical Location & Seq
Reverse (-)
4023533 .. 4025113
1581 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G11920.1

Sequence Viewer

Length: 1155 bp
ATGGCTTCTCTTTTCTTAACAATTATTTCACTTCTCTTTGCAGCTTTCTCTTCTTCTGTTGTAGAGGCTGCTTACAGTAATGGTTATACCATTCCCAAACTATTACCAAACCCTATCGATTCTTGCTGGCGAAGAAACCCTTATTGGGCGTCTAACCGTCGTGCACTAGCCGATTGCGCGGTAGGGTTTGGAAAATCTGCGGTTGGGGGGAAATACGGGTCGATCTACGTGGTTACAAACCCATCAGACGACCCTGAAAACCCTAGACCCGGAACACTGAGATACGCAGTGATCCAATCTAAACCATTATGGATCACATTTGCACGTGACATGGTCATAGTGTTGCGTAACGAGCTCATCATGAACAGCTACAAGACGATTGATGGAAGAGGGGCTAAAGTGGAAATTGCCTATGGACCATGCATAACGATCCAACATGTGAGCCATGTCATTATACATGGGATAAGTATCCATGATTGTAAACCGGGTAAGTCGGGGCGGGTACGGAGCAGCCCGACCCATGTTGGTAGCCGGAAAGGATCGGACGGTGATGCAATAGCCATTTTTGATTCGTCACATATTTGGATTGATCATTGTTTCTTTTCTCGGTGTCAAGATGGTTTGATCGATGTACTTCATGCTTCTACGGCTGTCACTATTTCTAATAACTACTTCACGCAGCATGATAAAGTGATGTTACTCGGACATAATGACAATAATGTGGAAGATAAGATCATGAGAGTTACAATTGCGTTCAACCATTTCGGACCGGGTCTTATTGAGAGAATGCCTAGAGTGCGAAGAGGATATGCGCATGTAGCAAACAATAGGTACGAGAAATGGCAAATGTATGCGATCGGAGGAAGTGCTGATCCAACCATTTTTAGTGAAGGCAACTACTTCGTTGCTTCTGATGACCCTAGCAAAAAACAGGTGACAAAAAGAATAGATAGTGGATATGATTGGAAGAGATGGAAATGGAGAACGTCCAAAGACGTTTTTAAGAACGGAGCTTACTTCGTGCCTTCTGGCTACGGAACCGTCACGCCGTTGTACGGAAGAGCAGAGCGGTTTCCGGTGTCTCACGGCTCTCTCGTCCCTTTGCTTACTTCATCCGCCGGTCCTCTCCATTGCTATTCCGGCAGAATTTGCTAA
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

384

Amino Acids

42.69

Weight (kDa)

9.33

Isoelectric Point (pI)

32.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 118 - 318 6.6e-27 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)
Acc16I TGCGCA 1 cut(s) 813
AccBSI CCGCTC 1 cut(s) 1069
AccII CGCG 1 cut(s) 179
AciI CCGC 5 cut(s) 179, 200, 499, 1069, 1116
AclWI GGATC 5 cut(s) 286, 320, 424, 547, 866
AcsI RAATTY 1 cut(s) 1146
AcvI CACGTG 1 cut(s) 326
AcyI GRCGYC 1 cut(s) 149
AfaI GTAC 4 cut(s) 504, 633, 833, 1055
AfiI CCNNNNNNNGG 3 cut(s) 145, 269, 1055
AflIII ACRYGT 1 cut(s) 436
AgsI TTSAA 1 cut(s) 757
AjuI GAANNNNNNNTTGG 2 cut(s) 127, 159
AluBI AGCT 4 cut(s) 44, 355, 369, 1013
AluI AGCT 4 cut(s) 44, 355, 369, 1013
Alw21I GWGCWC 2 cut(s) 166, 357
Alw26I GTCTC 1 cut(s) 1086
Alw44I GTGCAC 1 cut(s) 162
AlwI GGATC 5 cut(s) 286, 320, 424, 547, 866
ApaLI GTGCAC 1 cut(s) 162
ApeKI GCWGC 4 cut(s) 41, 68, 510, 679
ApoI RAATTY 1 cut(s) 1146
AspLEI GCGC 2 cut(s) 179, 814
AspS9I GGNCC 3 cut(s) 416, 767, 1121
AsuC2I CCSGG 3 cut(s) 270, 486, 771
AsuHPI GGTGA 2 cut(s) 560, 946
AvaII GGWCC 3 cut(s) 416, 767, 1121
BaeGI GKGCMC 1 cut(s) 166
BanII GRGCYC 1 cut(s) 357
BbrPI CACGTG 1 cut(s) 326
Bbv12I GWGCWC 2 cut(s) 166, 357
BbvI GCAGC 4 cut(s) 53, 55, 522, 691
BccI CCATC 4 cut(s) 250, 377, 611, 966
BceAI ACGGC 3 cut(s) 663, 1033, 1102
BcgI CGANNNNNNTGC 2 cut(s) 883, 917
BciVI GTATCC 1 cut(s) 479
BclI TGATCA 1 cut(s) 589
BcnI CCSGG 3 cut(s) 270, 486, 771
BcoDI GTCTC 1 cut(s) 1086
BfaI CTAG 4 cut(s) 167, 264, 792, 921
BfuI GTATCC 1 cut(s) 479
BisI GCNGC 4 cut(s) 42, 69, 511, 680
BlsI GCNGC 4 cut(s) 43, 70, 512, 681
Bme1390I CCNGG 3 cut(s) 270, 486, 771
Bme18I GGWCC 3 cut(s) 416, 767, 1121
BmgT120I GGNCC 3 cut(s) 416, 767, 1121
BmiI GGNNCC 1 cut(s) 1039
BmrFI CCNGG 3 cut(s) 270, 486, 771
BmsI GCATC 1 cut(s) 541
BpuMI CCSGG 3 cut(s) 270, 486, 771
Bsa29I ATCGAT 2 cut(s) 117, 627
BsaAI YACGTR 2 cut(s) 229, 326
BsaBI GATNNNNATC 1 cut(s) 467
BsaHI GRCGYC 1 cut(s) 149
BsaWI WCCGGW 1 cut(s) 1075
Bsc4I CCNNNNNNNGG 3 cut(s) 145, 269, 1055
Bse118I RCCGGY 1 cut(s) 1118
Bse3DI GCAATG 1 cut(s) 1129
Bse8I GATNNNNATC 1 cut(s) 467
BseCI ATCGAT 2 cut(s) 117, 627
BseGI GGATG 1 cut(s) 1112
BseJI GATNNNNATC 1 cut(s) 467
BseLI CCNNNNNNNGG 3 cut(s) 145, 269, 1055
BseMI GCAATG 1 cut(s) 1129
BseMII CTCAG 1 cut(s) 269
BseSI GKGCMC 1 cut(s) 166
BseXI GCAGC 4 cut(s) 53, 55, 522, 691
Bsh1236I CGCG 1 cut(s) 179
Bsh1285I CGRYCG 1 cut(s) 858
BshVI ATCGAT 2 cut(s) 117, 627
BsiEI CGRYCG 1 cut(s) 858
BsiHKAI GWGCWC 2 cut(s) 166, 357
BsiSI CCGG 7 cut(s) 270, 485, 532, 770, 1076, 1119, 1140
BslFI GGGAC 1 cut(s) 1082
BslI CCNNNNNNNGG 3 cut(s) 145, 269, 1055
BsmAI GTCTC 1 cut(s) 1086
BsmFI GGGAC 1 cut(s) 1082
BsmI GAATGC 1 cut(s) 792
Bsp1286I GDGCHC 2 cut(s) 166, 357
BspACI CCGC 5 cut(s) 179, 200, 499, 1069, 1116
BspCNI CTCAG 1 cut(s) 270
BspDI ATCGAT 2 cut(s) 117, 627
BspFNI CGCG 1 cut(s) 179
BspHI TCATGA 2 cut(s) 360, 735
BspLI GGNNCC 1 cut(s) 1039
BspPI GGATC 5 cut(s) 286, 320, 424, 547, 866
BspQI GCTCTTC 1 cut(s) 1054
BsrBI CCGCTC 1 cut(s) 1069
BsrDI GCAATG 1 cut(s) 1129
BsrFI RCCGGY 1 cut(s) 1118
BssAI RCCGGY 1 cut(s) 1118
BssNI GRCGYC 1 cut(s) 149
Bst4CI ACNGT 4 cut(s) 77, 158, 548, 1042
Bst6I CTCTTC 5 cut(s) 55, 382, 796, 962, 1054
BstACI GRCGYC 1 cut(s) 149
BstAPI GCANNNNNTGC 1 cut(s) 1149
BstBAI YACGTR 2 cut(s) 229, 326
BstC8I GCNNGC 1 cut(s) 128
BstDEI CTNAG 1 cut(s) 278
BstF5I GGATG 1 cut(s) 1112
BstFNI CGCG 1 cut(s) 179
BstHHI GCGC 2 cut(s) 179, 814
BstMAI GTCTC 1 cut(s) 1086
BstMCI CGRYCG 1 cut(s) 858
BstMWI GCNNNNNNNGC 7 cut(s) 176, 352, 647, 796, 818, 1140, 1149
BstNSI RCATGY 2 cut(s) 440, 818
BstSCI CCNGG 3 cut(s) 268, 484, 769
BstSLI GKGCMC 1 cut(s) 166
BstUI CGCG 1 cut(s) 179
BstV1I GCAGC 4 cut(s) 53, 55, 522, 691
Bsu15I ATCGAT 2 cut(s) 117, 627
BsuI GTATCC 1 cut(s) 479
BsuTUI ATCGAT 2 cut(s) 117, 627
BtsCI GGATG 1 cut(s) 1112
BtsI GCAGTG 1 cut(s) 294
BtsIMutI CAGTG 2 cut(s) 275, 294
Cac8I GCNNGC 1 cut(s) 128
CciI TCATGA 2 cut(s) 360, 735
CfoI GCGC 2 cut(s) 179, 814
Cfr10I RCCGGY 1 cut(s) 1118
Cfr13I GGNCC 3 cut(s) 416, 767, 1121
ClaI ATCGAT 2 cut(s) 117, 627
CpoI CGGWCCG 1 cut(s) 767
CseI GACGC 1 cut(s) 138
Csp6I GTAC 4 cut(s) 503, 632, 832, 1054
CspI CGGWCCG 1 cut(s) 767
CviQI GTAC 4 cut(s) 503, 632, 832, 1054
DdeI CTNAG 1 cut(s) 278
Eam1104I CTCTTC 5 cut(s) 55, 382, 796, 962, 1054
EarI CTCTTC 5 cut(s) 55, 382, 796, 962, 1054
EciI GGCGGA 1 cut(s) 1105
Ecl136II GAGCTC 1 cut(s) 355
Eco24I GRGCYC 1 cut(s) 357
Eco47I GGWCC 3 cut(s) 416, 767, 1121
Eco53kI GAGCTC 1 cut(s) 355
Eco72I CACGTG 1 cut(s) 326
EcoICRI GAGCTC 1 cut(s) 355
EcoT22I ATGCAT 1 cut(s) 425
EcoT38I GRGCYC 1 cut(s) 357
FalI AAGNNNNNCTT 2 cut(s) 124, 156
FaqI GGGAC 1 cut(s) 1082
FauI CCCGC 1 cut(s) 492
FbaI TGATCA 1 cut(s) 589
Fnu4HI GCNGC 4 cut(s) 42, 69, 511, 680
FokI GGATG 1 cut(s) 1099
FriOI GRGCYC 1 cut(s) 357
Fsp4HI GCNGC 4 cut(s) 42, 69, 511, 680
FspAI RTGCGCAY 1 cut(s) 813
FspBI CTAG 4 cut(s) 167, 264, 792, 921
FspI TGCGCA 1 cut(s) 813
GlaI GCGC 2 cut(s) 178, 813
GluI GCNGC 4 cut(s) 42, 69, 511, 680
HapII CCGG 7 cut(s) 270, 485, 532, 770, 1076, 1119, 1140
HgaI GACGC 1 cut(s) 138
HhaI GCGC 2 cut(s) 179, 814
Hin1I GRCGYC 1 cut(s) 149
Hin6I GCGC 2 cut(s) 177, 812
HinP1I GCGC 2 cut(s) 177, 812
HinfI GANTC 2 cut(s) 119, 569
HpaII CCGG 7 cut(s) 270, 485, 532, 770, 1076, 1119, 1140
HphI GGTGA 2 cut(s) 560, 946
Hpy166II GTNNAC 2 cut(s) 164, 482
Hpy188I TCNGA 6 cut(s) 247, 544, 704, 767, 860, 913
Hpy188III TCNNGA 3 cut(s) 361, 614, 736
Hpy8I GTNNAC 2 cut(s) 164, 482
Hpy99I CGWCG 1 cut(s) 162
HpyAV CCTTC 2 cut(s) 884, 1035
HpyCH4III ACNGT 4 cut(s) 77, 158, 548, 1042
HpyCH4IV ACGT 4 cut(s) 228, 325, 986, 996
HpyCH4V TGCA 5 cut(s) 41, 164, 323, 423, 554
HpyF10VI GCNNNNNNNGC 7 cut(s) 176, 352, 647, 796, 818, 1140, 1149
HpyF3I CTNAG 1 cut(s) 278
HpySE526I ACGT 4 cut(s) 228, 325, 986, 996
Hsp92I GRCGYC 1 cut(s) 149
HspAI GCGC 2 cut(s) 177, 812
Ksp22I TGATCA 1 cut(s) 589
LguI GCTCTTC 1 cut(s) 1054
LmnI GCTCC 2 cut(s) 507, 1010
Lsp1109I GCAGC 4 cut(s) 53, 55, 522, 691
LweI GCATC 1 cut(s) 541
MaeI CTAG 4 cut(s) 167, 264, 792, 921
MaeII ACGT 4 cut(s) 228, 325, 986, 996
MaeIII GTNAC 9 cut(s) 232, 326, 347, 573, 652, 696, 742, 934, 1042
MbiI CCGCTC 1 cut(s) 1069
MboII GAAGA 8 cut(s) 42, 45, 144, 399, 737, 813, 979, 1071
MfeI CAATTG 1 cut(s) 747
MhlI GDGCHC 2 cut(s) 166, 357
MluCI AATT 4 cut(s) 21, 405, 747, 1146
MmeI TCCRAC 2 cut(s) 457, 899
MnlI CCTC 5 cut(s) 58, 383, 797, 854, 1134
Mph1103I ATGCAT 1 cut(s) 425
MseI TTAA 2 cut(s) 17, 1002
MspI CCGG 7 cut(s) 270, 485, 532, 770, 1076, 1119, 1140
MspR9I CCNGG 3 cut(s) 270, 486, 771
MunI CAATTG 1 cut(s) 747
Mva1269I GAATGC 1 cut(s) 792
MvnI CGCG 1 cut(s) 179
MwoI GCNNNNNNNGC 7 cut(s) 176, 352, 647, 796, 818, 1140, 1149
NciI CCSGG 3 cut(s) 270, 486, 771
NlaIV GGNNCC 1 cut(s) 1039
NmuCI GTSAC 5 cut(s) 326, 573, 652, 934, 1042
NsbI TGCGCA 1 cut(s) 813
NsiI ATGCAT 1 cut(s) 425
NspI RCATGY 2 cut(s) 440, 818
PagI TCATGA 2 cut(s) 360, 735
PciI ACATGT 1 cut(s) 436
PciSI GCTCTTC 1 cut(s) 1054
PcsI WCGNNNNNNNCGW 1 cut(s) 1092
PctI GAATGC 1 cut(s) 792
PfeI GAWTC 2 cut(s) 119, 569
PflFI GACNNNGTC 2 cut(s) 332, 771
PkrI GCNGC 4 cut(s) 43, 70, 512, 681
Ple19I CGATCG 1 cut(s) 858
PmaCI CACGTG 1 cut(s) 326
PmlI CACGTG 1 cut(s) 326
Ppu21I YACGTR 2 cut(s) 229, 326
PscI ACATGT 1 cut(s) 436
Psp124BI GAGCTC 1 cut(s) 357
PspCI CACGTG 1 cut(s) 326
PspN4I GGNNCC 1 cut(s) 1039
PspPI GGNCC 3 cut(s) 416, 767, 1121
PsrI GAACNNNNNNTAC 2 cut(s) 998, 1030
PsyI GACNNNGTC 2 cut(s) 332, 771
PvuI CGATCG 1 cut(s) 858
RsaI GTAC 4 cut(s) 504, 633, 833, 1055
RsaNI GTAC 4 cut(s) 503, 632, 832, 1054
Rsr2I CGGWCCG 1 cut(s) 767
RsrII CGGWCCG 1 cut(s) 767
SacI GAGCTC 1 cut(s) 357
SapI GCTCTTC 1 cut(s) 1054
SaqAI TTAA 2 cut(s) 17, 1002
SatI GCNGC 4 cut(s) 42, 69, 511, 680
Sau96I GGNCC 3 cut(s) 416, 767, 1121
ScrFI CCNGG 3 cut(s) 270, 486, 771
SduI GDGCHC 2 cut(s) 166, 357
SfaNI GCATC 1 cut(s) 541
SinI GGWCC 3 cut(s) 416, 767, 1121
Sse9I AATT 4 cut(s) 21, 405, 747, 1146
SsiI CCGC 5 cut(s) 179, 200, 499, 1069, 1116
SspMI CTAG 4 cut(s) 167, 264, 792, 921
SstI GAGCTC 1 cut(s) 357
StyD4I CCNGG 3 cut(s) 268, 484, 769
TaaI ACNGT 4 cut(s) 77, 158, 548, 1042
TaiI ACGT 4 cut(s) 231, 328, 989, 999
TaqI TCGA 3 cut(s) 117, 221, 627
TasI AATT 4 cut(s) 21, 405, 747, 1146
TatI WGTACW 1 cut(s) 631
TfiI GAWTC 2 cut(s) 119, 569
Tru1I TTAA 2 cut(s) 17, 1002
Tru9I TTAA 2 cut(s) 17, 1002
TscAI CASTG 2 cut(s) 282, 294
TseFI GTSAC 5 cut(s) 326, 573, 652, 934, 1042
TseI GCWGC 4 cut(s) 41, 68, 510, 679
Tsp45I GTSAC 5 cut(s) 326, 573, 652, 934, 1042
TspDTI ATGAA 3 cut(s) 377, 626, 1101
TspGWI ACGGA 4 cut(s) 520, 1023, 1050, 1071
TspRI CASTG 2 cut(s) 282, 294
Tth111I GACNNNGTC 2 cut(s) 332, 771
VneI GTGCAC 1 cut(s) 162
VpaK11BI GGWCC 3 cut(s) 416, 767, 1121
XapI RAATTY 1 cut(s) 1146
XceI RCATGY 2 cut(s) 440, 818
XspI CTAG 4 cut(s) 167, 264, 792, 921
Zsp2I ATGCAT 1 cut(s) 425
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.