AT5G48900

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0008200
Physical Location & Seq
Forward (+)
19825078 .. 19829140
4063 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G48900.1

Sequence Viewer

Length: 1254 bp
ATGGCTGTTACACAAATACTTGTCGTCTTTGCTTCTGCATTACTCCTATCAATGTTCTTCACTGGCGTCGATTCCACAAGGTCTAATGAAACATGGCATGAACATGCAGTTGAGAATCCAGAGGAAGTAGCTGCCATGGTGGACATGAGCATTCGAAACAGCACAGCGAGAAGAAGATTAGGATACTTCTCATGCTCAACCGGAAATCCAATCGATGATTGTTGGCGTTGTGACCGGAGATGGCAATCCCGGCGAAAACATCTAGCCAATTGCGCAATCGGGTTCGGTCGCAATGCAATCGGCGGTAGAGACGGTCGTTACTACGTAGTGAGTGATCCAAACGACGATAACCCGGTTAACCCTAAACCGGGAACATTACGTCACGCAGTAATTCAAGAAGAACCATTATGGATCGTCTTTAAACGTGACATGGTCATAACATTAAAAGAAGAACTAATCATGAACAGTTTCAAAACAATCGATGGTCGTGGCGTCAACGTTCACATAGCTAATGGTGCATGCATCACGATTCAGTTCGTGACTAACATTATCATTCATGGGATACATATTCATGATTGTAGACCAACTGGTAACGCTATGGTTAGAAGCTCTCCTTCGCATTATGGTTGGAGAACTATGGCTGATGGAGATGGGATTTCGATTTTCGGGTCGAGTCATATTTGGATTGATCATAATTCGCTTTCGAATTGTGCTGATGGGCTTATTGATGCTGTTATGGCTTCTACTGCTATTACTATCTCCAATAATTACTTCACACACCACAATGAGGTTATGTTATTGGGACATAGTGATACCTATACAAGGGATAAGGTTATGCAAGTTACAATAGCTTATAATCATTTTGGTGAAGGTCTTATTCAGAGAATGCCGAGGTGTAGGCATGGATATTTTCATGTAGTTAACAATGACTATACACATTGGGAAATGTATGCGATCGGTGGCAGTGCGAGTCCTACCATTAACAGCCAAGGAAATAGATATCTCGCCCCAAGAAACCGGTTTGCTAAAGAGGTGACAAAGAGAGACTATGCAGGGCAATGGCAATGGAGGCATTGGAATTGGAGATCAGAAGGAGATCTTTTTTTAAACGGAGCTTTCTTCACACGTTCTGGATCAGGTCTTGGAGCTAGCTACGCTAGAGCTTCAAGTTTAGCAGCCAAATCATCATCTCTTGTTGGCGTCATTACCTACAATGCCGGTGCTCTTAATTGCAGAGGTGGTCGCCGGTGTTAA
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

417

Amino Acids

46.73

Weight (kDa)

8.89

Isoelectric Point (pI)

45.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 151 - 341 1.8e-18 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)
AanI TTATAA 1 cut(s) 855
Acc16I TGCGCA 1 cut(s) 274
AccI GTMKAC 1 cut(s) 580
AciI CCGC 1 cut(s) 303
AclI AACGTT 1 cut(s) 498
AclWI GGATC 3 cut(s) 329, 419, 1141
AcyI GRCGYC 3 cut(s) 66, 492, 1200
AfiI CCNNNNNNNGG 4 cut(s) 367, 368, 787, 822
AflIII ACRYGT 1 cut(s) 1124
AgeI ACCGGT 1 cut(s) 1017
AgsI TTSAA 3 cut(s) 395, 472, 1167
AjuI GAANNNNNNNTTGG 2 cut(s) 755, 787
AluBI AGCT 8 cut(s) 131, 509, 609, 851, 1115, 1148, 1152, 1163
AluI AGCT 8 cut(s) 131, 509, 609, 851, 1115, 1148, 1152, 1163
Alw21I GWGCWC 1 cut(s) 1225
Alw26I GTCTC 2 cut(s) 303, 1038
AlwI GGATC 3 cut(s) 329, 419, 1141
ApeKI GCWGC 2 cut(s) 131, 1175
AsiGI ACCGGT 1 cut(s) 1017
Asp700I GAANNNNTTC 1 cut(s) 467
AspLEI GCGC 1 cut(s) 275
AsuC2I CCSGG 3 cut(s) 250, 353, 369
AsuHPI GGTGA 2 cut(s) 878, 1045
AsuII TTCGAA 2 cut(s) 154, 704
AsuNHI GCTAGC 1 cut(s) 1148
Bbv12I GWGCWC 1 cut(s) 1225
BbvI GCAGC 2 cut(s) 118, 1187
BccI CCATC 5 cut(s) 234, 476, 638, 644, 710
BcgI CGANNNNNNTGC 2 cut(s) 280, 314
BciVI GTATCC 2 cut(s) 176, 555
BclI TGATCA 1 cut(s) 688
BcnI CCSGG 3 cut(s) 250, 353, 369
BcoDI GTCTC 2 cut(s) 303, 1038
BfaI CTAG 3 cut(s) 263, 1149, 1158
BfuI GTATCC 2 cut(s) 176, 555
BglII AGATCT 1 cut(s) 1096
BisI GCNGC 2 cut(s) 132, 1176
BlsI GCNGC 2 cut(s) 133, 1177
Bme1390I CCNGG 3 cut(s) 250, 353, 369
BmrFI CCNGG 3 cut(s) 250, 353, 369
BmsI GCATC 2 cut(s) 531, 718
BmtI GCTAGC 1 cut(s) 1152
Bpu14I TTCGAA 2 cut(s) 154, 704
BpuMI CCSGG 3 cut(s) 250, 353, 369
Bsa29I ATCGAT 2 cut(s) 213, 480
BsaAI YACGTR 1 cut(s) 325
BsaBI GATNNNNATC 1 cut(s) 244
BsaHI GRCGYC 3 cut(s) 66, 492, 1200
BsaJI CCNNGG 3 cut(s) 135, 890, 988
BsaWI WCCGGW 3 cut(s) 200, 234, 1017
Bsc4I CCNNNNNNNGG 4 cut(s) 367, 368, 787, 822
Bse118I RCCGGY 3 cut(s) 1017, 1217, 1245
Bse1I ACTGG 2 cut(s) 67, 592
Bse3DI GCAATG 3 cut(s) 298, 1064, 1070
Bse8I GATNNNNATC 1 cut(s) 244
BseCI ATCGAT 2 cut(s) 213, 480
BseDI CCNNGG 3 cut(s) 135, 890, 988
BseJI GATNNNNATC 1 cut(s) 244
BseLI CCNNNNNNNGG 4 cut(s) 367, 368, 787, 822
BseMI GCAATG 3 cut(s) 298, 1064, 1070
BseNI ACTGG 2 cut(s) 67, 592
BseXI GCAGC 2 cut(s) 118, 1187
Bsh1285I CGRYCG 3 cut(s) 289, 316, 957
BshTI ACCGGT 1 cut(s) 1017
BshVI ATCGAT 2 cut(s) 213, 480
BsiEI CGRYCG 3 cut(s) 289, 316, 957
BsiHKAI GWGCWC 1 cut(s) 1225
BsiSI CCGG 8 cut(s) 201, 235, 250, 353, 368, 1018, 1218, 1246
BslFI GGGAC 1 cut(s) 816
BslI CCNNNNNNNGG 4 cut(s) 367, 368, 787, 822
BsmAI GTCTC 2 cut(s) 303, 1038
BsmBI CGTCTC 1 cut(s) 303
BsmFI GGGAC 1 cut(s) 816
BsmI GAATGC 2 cut(s) 150, 891
Bsp119I TTCGAA 2 cut(s) 154, 704
Bsp1286I GDGCHC 1 cut(s) 1225
Bsp143I GATC 7 cut(s) 334, 411, 688, 954, 1085, 1096, 1133
Bsp19I CCATGG 1 cut(s) 135
BspACI CCGC 1 cut(s) 303
BspDI ATCGAT 2 cut(s) 213, 480
BspHI TCATGA 2 cut(s) 459, 571
BspOI GCTAGC 1 cut(s) 1152
BspPI GGATC 3 cut(s) 329, 419, 1141
BspT104I TTCGAA 2 cut(s) 154, 704
BsrDI GCAATG 3 cut(s) 298, 1064, 1070
BsrFI RCCGGY 3 cut(s) 1017, 1217, 1245
BsrI ACTGG 2 cut(s) 67, 592
BssAI RCCGGY 3 cut(s) 1017, 1217, 1245
BssECI CCNNGG 3 cut(s) 135, 890, 988
BssMI GATC 7 cut(s) 334, 411, 688, 954, 1085, 1096, 1133
BssNI GRCGYC 3 cut(s) 66, 492, 1200
BssT1I CCWWGG 2 cut(s) 135, 988
Bst4CI ACNGT 2 cut(s) 314, 467
BstACI GRCGYC 3 cut(s) 66, 492, 1200
BstBAI YACGTR 1 cut(s) 325
BstBI TTCGAA 2 cut(s) 154, 704
BstC8I GCNNGC 2 cut(s) 520, 1150
BstDSI CCRYGG 1 cut(s) 135
BstENI CCTNNNNNAGG 1 cut(s) 820
BstHHI GCGC 1 cut(s) 275
BstKTI GATC 7 cut(s) 337, 414, 691, 957, 1088, 1099, 1136
BstMAI GTCTC 2 cut(s) 303, 1038
BstMBI GATC 7 cut(s) 334, 411, 688, 954, 1085, 1096, 1133
BstMCI CGRYCG 3 cut(s) 289, 316, 957
BstMWI GCNNNNNNNGC 7 cut(s) 250, 272, 515, 737, 746, 1069, 1154
BstNSI RCATGY 2 cut(s) 107, 522
BstSCI CCNGG 3 cut(s) 248, 351, 367
BstSNI TACGTA 1 cut(s) 325
BstV1I GCAGC 2 cut(s) 118, 1187
BstX2I RGATCY 1 cut(s) 1096
BstYI RGATCY 1 cut(s) 1096
Bsu15I ATCGAT 2 cut(s) 213, 480
BsuI GTATCC 2 cut(s) 176, 555
BsuTUI ATCGAT 2 cut(s) 213, 480
BtgI CCRYGG 1 cut(s) 135
BtsI GCAGTG 1 cut(s) 970
BtsIMutI CAGTG 2 cut(s) 60, 970
Cac8I GCNNGC 2 cut(s) 520, 1150
CciI TCATGA 2 cut(s) 459, 571
CfoI GCGC 1 cut(s) 275
Cfr10I RCCGGY 3 cut(s) 1017, 1217, 1245
ClaI ATCGAT 2 cut(s) 213, 480
CseI GACGC 3 cut(s) 55, 481, 1189
CspAI ACCGGT 1 cut(s) 1017
DpnI GATC 7 cut(s) 336, 413, 690, 956, 1087, 1098, 1135
DpnII GATC 7 cut(s) 334, 411, 688, 954, 1085, 1096, 1133
DraI TTTAAA 2 cut(s) 421, 1107
Eco105I TACGTA 1 cut(s) 325
Eco130I CCWWGG 2 cut(s) 135, 988
Eco32I GATATC 1 cut(s) 1001
EcoNI CCTNNNNNAGG 1 cut(s) 820
EcoRV GATATC 1 cut(s) 1001
EcoT14I CCWWGG 2 cut(s) 135, 988
EcoT22I ATGCAT 1 cut(s) 524
ErhI CCWWGG 2 cut(s) 135, 988
Esp3I CGTCTC 1 cut(s) 303
FalI AAGNNNNNCTT 4 cut(s) 598, 630, 1083, 1115
FaqI GGGAC 1 cut(s) 816
FbaI TGATCA 1 cut(s) 688
FblI GTMKAC 1 cut(s) 580
Fnu4HI GCNGC 2 cut(s) 132, 1176
Fsp4HI GCNGC 2 cut(s) 132, 1176
FspBI CTAG 3 cut(s) 263, 1149, 1158
FspI TGCGCA 1 cut(s) 274
GlaI GCGC 1 cut(s) 274
GluI GCNGC 2 cut(s) 132, 1176
HapII CCGG 8 cut(s) 201, 235, 250, 353, 368, 1018, 1218, 1246
HgaI GACGC 3 cut(s) 55, 481, 1189
HhaI GCGC 1 cut(s) 275
Hin1I GRCGYC 3 cut(s) 66, 492, 1200
Hin6I GCGC 1 cut(s) 273
HinP1I GCGC 1 cut(s) 273
HincII GTYRAC 3 cut(s) 358, 496, 922
HindII GTYRAC 3 cut(s) 358, 496, 922
HinfI GANTC 5 cut(s) 71, 115, 529, 673, 970
HpaI GTTAAC 2 cut(s) 358, 922
HpaII CCGG 8 cut(s) 201, 235, 250, 353, 368, 1018, 1218, 1246
HphI GGTGA 2 cut(s) 878, 1045
Hpy166II GTNNAC 6 cut(s) 142, 358, 496, 502, 581, 922
Hpy188I TCNGA 2 cut(s) 882, 1090
Hpy188III TCNNGA 7 cut(s) 119, 395, 460, 526, 538, 572, 1131
Hpy8I GTNNAC 6 cut(s) 142, 358, 496, 502, 581, 922
Hpy99I CGWCG 2 cut(s) 71, 347
HpyAV CCTTC 3 cut(s) 624, 863, 1085
HpyCH4III ACNGT 2 cut(s) 314, 467
HpyCH4IV ACGT 5 cut(s) 324, 379, 424, 498, 1126
HpyCH4V TGCA 8 cut(s) 38, 107, 296, 518, 522, 838, 1052, 1233
HpyF10VI GCNNNNNNNGC 7 cut(s) 250, 272, 515, 737, 746, 1069, 1154
HpySE526I ACGT 5 cut(s) 324, 379, 424, 498, 1126
Hsp92I GRCGYC 3 cut(s) 66, 492, 1200
HspAI GCGC 1 cut(s) 273
Ksp22I TGATCA 1 cut(s) 688
KspAI GTTAAC 2 cut(s) 358, 922
Kzo9I GATC 7 cut(s) 334, 411, 688, 954, 1085, 1096, 1133
LmnI GCTCC 2 cut(s) 1112, 1145
Lsp1109I GCAGC 2 cut(s) 118, 1187
LweI GCATC 2 cut(s) 531, 718
MaeI CTAG 3 cut(s) 263, 1149, 1158
MaeII ACGT 5 cut(s) 324, 379, 424, 498, 1126
MaeIII GTNAC 9 cut(s) 7, 230, 317, 380, 425, 538, 590, 841, 1033
MalI GATC 7 cut(s) 336, 413, 690, 956, 1087, 1098, 1135
MboI GATC 7 cut(s) 334, 411, 688, 954, 1085, 1096, 1133
MboII GAAGA 6 cut(s) 49, 183, 186, 410, 461, 1111
MfeI CAATTG 1 cut(s) 268
MflI RGATCY 1 cut(s) 1096
MhlI GDGCHC 1 cut(s) 1225
MluCI AATT 7 cut(s) 268, 390, 694, 706, 766, 1078, 1228
MlyI GAGTC 2 cut(s) 682, 979
MmeI TCCRAC 1 cut(s) 608
MnlI CCTC 6 cut(s) 115, 781, 885, 1024, 1062, 1229
Mph1103I ATGCAT 1 cut(s) 524
MroXI GAANNNNTTC 1 cut(s) 467
MseI TTAA 8 cut(s) 357, 420, 443, 921, 981, 1106, 1227, 1252
MslI CAYNNNNRTG 4 cut(s) 102, 570, 783, 864
MspI CCGG 8 cut(s) 201, 235, 250, 353, 368, 1018, 1218, 1246
MspR9I CCNGG 3 cut(s) 250, 353, 369
MunI CAATTG 1 cut(s) 268
Mva1269I GAATGC 2 cut(s) 150, 891
MwoI GCNNNNNNNGC 7 cut(s) 250, 272, 515, 737, 746, 1069, 1154
NciI CCSGG 3 cut(s) 250, 353, 369
NcoI CCATGG 1 cut(s) 135
NdeII GATC 7 cut(s) 334, 411, 688, 954, 1085, 1096, 1133
NheI GCTAGC 1 cut(s) 1148
NmeAIII GCCGAG 1 cut(s) 915
NmuCI GTSAC 5 cut(s) 230, 380, 425, 538, 1033
NsbI TGCGCA 1 cut(s) 274
NsiI ATGCAT 1 cut(s) 524
NspI RCATGY 2 cut(s) 107, 522
NspV TTCGAA 2 cut(s) 154, 704
PaeI GCATGC 1 cut(s) 522
PagI TCATGA 2 cut(s) 459, 571
PctI GAATGC 2 cut(s) 150, 891
PdmI GAANNNNTTC 1 cut(s) 467
PfeI GAWTC 3 cut(s) 71, 115, 529
PflFI GACNNNGTC 1 cut(s) 431
PinAI ACCGGT 1 cut(s) 1017
PkrI GCNGC 2 cut(s) 133, 1177
Ple19I CGATCG 1 cut(s) 957
PleI GAGTC 2 cut(s) 681, 978
PpsI GAGTC 2 cut(s) 681, 978
Ppu21I YACGTR 1 cut(s) 325
PsiI TTATAA 1 cut(s) 855
Psp1406I AACGTT 1 cut(s) 498
PsuI RGATCY 1 cut(s) 1096
PsyI GACNNNGTC 1 cut(s) 431
PvuI CGATCG 1 cut(s) 957
RseI CAYNNNNRTG 4 cut(s) 102, 570, 783, 864
SaqAI TTAA 8 cut(s) 357, 420, 443, 921, 981, 1106, 1227, 1252
SatI GCNGC 2 cut(s) 132, 1176
Sau3AI GATC 7 cut(s) 334, 411, 688, 954, 1085, 1096, 1133
SchI GAGTC 2 cut(s) 682, 979
ScrFI CCNGG 3 cut(s) 250, 353, 369
SduI GDGCHC 1 cut(s) 1225
SfaNI GCATC 2 cut(s) 531, 718
SfuI TTCGAA 2 cut(s) 154, 704
SgrAI CRCCGGYG 1 cut(s) 1245
SmiMI CAYNNNNRTG 4 cut(s) 102, 570, 783, 864
SnaBI TACGTA 1 cut(s) 325
SphI GCATGC 1 cut(s) 522
Sse9I AATT 7 cut(s) 268, 390, 694, 706, 766, 1078, 1228
SsiI CCGC 1 cut(s) 303
SspMI CTAG 3 cut(s) 263, 1149, 1158
StyD4I CCNGG 3 cut(s) 248, 351, 367
StyI CCWWGG 2 cut(s) 135, 988
TaaI ACNGT 2 cut(s) 314, 467
TaiI ACGT 5 cut(s) 327, 382, 427, 501, 1129
TaqI TCGA 7 cut(s) 69, 154, 213, 480, 659, 671, 704
TaqII GACCGA 1 cut(s) 275
TasI AATT 7 cut(s) 268, 390, 694, 706, 766, 1078, 1228
TfiI GAWTC 3 cut(s) 71, 115, 529
Tru1I TTAA 8 cut(s) 357, 420, 443, 921, 981, 1106, 1227, 1252
Tru9I TTAA 8 cut(s) 357, 420, 443, 921, 981, 1106, 1227, 1252
TscAI CASTG 2 cut(s) 67, 970
TseFI GTSAC 5 cut(s) 230, 380, 425, 538, 1033
TseI GCWGC 2 cut(s) 131, 1175
Tsp45I GTSAC 5 cut(s) 230, 380, 425, 538, 1033
TspDTI ATGAA 6 cut(s) 102, 114, 476, 545, 560, 902
TspGWI ACGGA 1 cut(s) 1125
TspRI CASTG 2 cut(s) 67, 970
Tth111I GACNNNGTC 1 cut(s) 431
XagI CCTNNNNNAGG 1 cut(s) 820
XceI RCATGY 2 cut(s) 107, 522
XmiI GTMKAC 1 cut(s) 580
XmnI GAANNNNTTC 1 cut(s) 467
XspI CTAG 3 cut(s) 263, 1149, 1158
Zsp2I ATGCAT 1 cut(s) 524
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.