AT4G13710

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0010648
Physical Location & Seq
Forward (+)
7962428 .. 7966521
4094 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G13710.2

Sequence Viewer

Length: 1413 bp
ATGGCGTCGTCTTCTCAGAAACTGATCAGTGTTTGTGTCGCTGTGCTCGTCGTCTTAGCTCTCACGGCGATGATTTTCCGGAACAGTGAAATCTCTCTCTCTAGGAAGCTGAAAACAGAGGTGATTCAGAGCTCAAATAGCTCAACAATGGCGGCGATAAGGAAGCTGAAAACAGAGGAGTTTCAGAGCTTAAACAGCTCAACAATGGCGGCGACAAGGCTTGATGGTGAACCACAACAACAACAACACGCCGTTGCTGATGATCCAGATATGGTTGCTGATGAAGTCGCTAAGCTTGTTCAAATGAGTGAACAGAACAGGACAGCAAGAAGGAAGCTAGGATTCTTCTCATGTGGAACTGGTAATCCAATTGATGACTGTTGGCGTTGTGACCGTAACTGGCACAAGAACCGTAAACGCCTTGCGGATTGTGGCATTGGTTTTGGAAGAAACGCAATTGGTGGTCGTGATGGACGCTTCTACATTGTTACTGACCCGACTGATGAAGACGTTGTTAATCCCAAACCTGGTACTCTACGCCATGCTGTCATCCAGGAGGAGCCTCTGTGGATTGTGTTCAAAAGGGATATGGTGATAGAGCTGAAACAGGAGCTGATCATGAATAGTTTCAAGACCATTGATGCCCGTGGCTCCAACGTCCATATAGCCAATGGTGCTTGCATCACCATCCAGTTTATCACCAATGTCATCATTCATGGTCTTCACATTCATGATTGCAAGCCTACTGGAAATGCAATGGTTAGAAGCTCGCCATCTCACTTTGGTTGGAGGACAATGGCTGATGGTGATGCTGTCTCTATTTTTGGATCATCTCATATCTGGATTGATCATAACTCTCTCTCTCACTGTGCTGATGGCCTTGTCGATGCTGTCATGGGTTCTACTGCTATTACCGTTTCCAATAACCACTTTACCCACCACAATGAGGTGATGTTGCTTGGGCATAGTGACTCGTACACAAAGGACAAGCTGATGCAAGTAACCATTGCTTACAACCATTTTGGAGAAGGACTGGTTCAGAGAATGCCAAGGTGCAGACATGGGTACTTCCATGTGGTTAACAACGACTACACACATTGGGAGATGTACGCCATTGGTGGGAGTGCAGAGCCAACCATCAACAGTCAAGGAAACAGATATGCTGCTCCCATGGACCGCTTCGCCAAAGAGGTGACAAAAAGAGTAGAGACAGATGCAAGCGAGTGGAAGAAGTGGAATTGGAGATCGGAAGGAGACCTTCTACTGAATGGAGCATTCTTCAGGCCATCAGGAGCAGGAGCATCTGCTAGCTATGGACGAGCCTCAAGCTTAGCAGCTAAACCATCATCTATGGTCGACACTATTACCTCTACTGCAGGAGCACTAGGTTGCCGTAAGGGAAGACCTTGCTAG
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

470

Amino Acids

51.94

Weight (kDa)

8.43

Isoelectric Point (pI)

38.31

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 188 - 383 6.4e-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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Orthologous Genes (Group: OG0010648)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G24230 AT4G13710 AT4G13710
fragaria_vesca FvH4_4g05760 FvH4_4g05760 FvH4_4g05760 FvH4_4g05760 FvH4_4g05760
malus_domestica MD13G1231000.v1.1 MD16G1236000.v1.1
prunus_persica Prupe.1G060900_v2.0.a1
pyrus_communis pycom13g20360 pycom16g19790
rosa_chinensis RchiOBHm_Chr4g0396921
rosa_laevigata RLG00000009489
rosa_roxburghii Rroxscaffold_5G00341840
rosa_rugosa Rorug03G0346100
rosa_samantha Rh4AG075300 Rh4DG069100
rosa_wichuraiana Rw4G006040

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 1356
AccIII TCCGGA 1 cut(s) 78
AciI CCGC 4 cut(s) 152, 209, 425, 1177
AclWI GGATC 2 cut(s) 257, 835
AcuI CTGAAG 1 cut(s) 1264
AcyI GRCGYC 1 cut(s) 5
AfaI GTAC 4 cut(s) 532, 977, 1067, 1109
AfiI CCNNNNNNNGG 3 cut(s) 527, 946, 1119
AgsI TTSAA 3 cut(s) 302, 580, 631
AjnI CCWGG 2 cut(s) 526, 552
AloI GAACNNNNNNTCC 2 cut(s) 349, 381
Alw21I GWGCWC 3 cut(s) 48, 134, 1384
Alw26I GTCTC 3 cut(s) 820, 1202, 1248
AlwI GGATC 2 cut(s) 257, 835
AlwNI CAGNNNCTG 2 cut(s) 22, 613
Aor13HI TCCGGA 1 cut(s) 78
AoxI GGCC 2 cut(s) 877, 1283
ApeKI GCWGC 2 cut(s) 1163, 1334
Asp700I GAANNNNTTC 1 cut(s) 626
AspS9I GGNCC 1 cut(s) 1174
AsuHPI GGTGA 8 cut(s) 133, 239, 604, 676, 691, 818, 961, 1204
AsuNHI GCTAGC 1 cut(s) 1307
AvaII GGWCC 1 cut(s) 1174
BanII GRGCYC 1 cut(s) 134
BbsI GAAGAC 4 cut(s) 3, 513, 713, 1408
Bbv12I GWGCWC 3 cut(s) 48, 134, 1384
BbvI GCAGC 2 cut(s) 1150, 1346
BccI CCATC 9 cut(s) 218, 464, 695, 781, 797, 869, 1145, 1294, 1351
BceAI ACGGC 3 cut(s) 81, 236, 1377
BciT130I CCWGG 2 cut(s) 528, 554
BclI TGATCA 3 cut(s) 24, 615, 847
BcoDI GTCTC 3 cut(s) 820, 1202, 1248
BfaI CTAG 5 cut(s) 102, 338, 1308, 1385, 1411
BfmI CTRYAG 1 cut(s) 1374
BisI GCNGC 4 cut(s) 153, 210, 1164, 1335
BlpI GCTNAGC 2 cut(s) 291, 1330
BlsI GCNGC 4 cut(s) 154, 211, 1165, 1336
Bme1390I CCNGG 2 cut(s) 528, 554
Bme18I GGWCC 1 cut(s) 1174
BmgT120I GGNCC 1 cut(s) 1174
BmiI GGNNCC 2 cut(s) 561, 652
BmrFI CCNGG 2 cut(s) 528, 554
BmsI GCATC 7 cut(s) 631, 690, 799, 877, 984, 1204, 1310
BmtI GCTAGC 1 cut(s) 1311
BpiI GAAGAC 4 cut(s) 3, 513, 713, 1408
Bpu1102I GCTNAGC 2 cut(s) 291, 1330
BpuEI CTTGAG 1 cut(s) 1309
BsaHI GRCGYC 1 cut(s) 5
BsaI GGTCTC 1 cut(s) 1248
BsaJI CCNNGG 3 cut(s) 646, 1049, 1170
BsaWI WCCGGW 1 cut(s) 78
BsaXI ACNNNNNCTCC 2 cut(s) 551, 581
Bsc4I CCNNNNNNNGG 3 cut(s) 527, 946, 1119
Bse1I ACTGG 5 cut(s) 364, 404, 691, 751, 1038
Bse3DI GCAATG 2 cut(s) 762, 1005
BseAI TCCGGA 1 cut(s) 78
BseBI CCWGG 2 cut(s) 528, 554
BseDI CCNNGG 3 cut(s) 646, 1049, 1170
BseGI GGATG 2 cut(s) 549, 687
BseLI CCNNNNNNNGG 3 cut(s) 527, 946, 1119
BseMI GCAATG 2 cut(s) 762, 1005
BseMII CTCAG 1 cut(s) 29
BseNI ACTGG 5 cut(s) 364, 404, 691, 751, 1038
BseRI GAGGAG 2 cut(s) 191, 572
BseXI GCAGC 2 cut(s) 1150, 1346
BsgI GTGCAG 2 cut(s) 1075, 1146
BshFI GGCC 2 cut(s) 879, 1285
BsiHKAI GWGCWC 3 cut(s) 48, 134, 1384
BsiSI CCGG 1 cut(s) 79
BslI CCNNNNNNNGG 3 cut(s) 527, 946, 1119
BsmAI GTCTC 3 cut(s) 820, 1202, 1248
BsmI GAATGC 2 cut(s) 1050, 1274
BsnI GGCC 2 cut(s) 879, 1285
Bso31I GGTCTC 1 cut(s) 1248
Bsp1286I GDGCHC 3 cut(s) 48, 134, 1384
Bsp13I TCCGGA 1 cut(s) 78
Bsp143I GATC 6 cut(s) 24, 262, 615, 827, 847, 1244
Bsp1720I GCTNAGC 2 cut(s) 291, 1330
Bsp19I CCATGG 1 cut(s) 1170
BspACI CCGC 4 cut(s) 152, 209, 425, 1177
BspANI GGCC 2 cut(s) 879, 1285
BspCNI CTCAG 1 cut(s) 28
BspEI TCCGGA 1 cut(s) 78
BspHI TCATGA 2 cut(s) 618, 730
BspLI GGNNCC 2 cut(s) 561, 652
BspMAI CTGCAG 1 cut(s) 1378
BspOI GCTAGC 1 cut(s) 1311
BspPI GGATC 2 cut(s) 257, 835
BspTNI GGTCTC 1 cut(s) 1248
BsrDI GCAATG 2 cut(s) 762, 1005
BsrI ACTGG 5 cut(s) 364, 404, 691, 751, 1038
BssECI CCNNGG 3 cut(s) 646, 1049, 1170
BssMI GATC 6 cut(s) 24, 262, 615, 827, 847, 1244
BssNI GRCGYC 1 cut(s) 5
BssT1I CCWWGG 2 cut(s) 1049, 1170
Bst2UI CCWGG 2 cut(s) 528, 554
Bst4CI ACNGT 7 cut(s) 86, 380, 395, 413, 869, 916, 1145
BstACI GRCGYC 1 cut(s) 5
BstC8I GCNNGC 5 cut(s) 679, 740, 770, 1219, 1309
BstDEI CTNAG 4 cut(s) 15, 55, 291, 1330
BstDSI CCRYGG 2 cut(s) 646, 1170
BstF5I GGATG 2 cut(s) 549, 687
BstKTI GATC 6 cut(s) 27, 265, 618, 830, 850, 1247
BstMAI GTCTC 3 cut(s) 820, 1202, 1248
BstMBI GATC 6 cut(s) 24, 262, 615, 827, 847, 1244
BstMWI GCNNNNNNNGC 4 cut(s) 65, 138, 195, 674
BstNI CCWGG 2 cut(s) 528, 554
BstSCI CCNGG 2 cut(s) 526, 552
BstSFI CTRYAG 1 cut(s) 1374
BstV1I GCAGC 2 cut(s) 1150, 1346
BstV2I GAAGAC 4 cut(s) 3, 513, 713, 1408
BsuRI GGCC 2 cut(s) 879, 1285
BtgI CCRYGG 2 cut(s) 646, 1170
BtgZI GCGATG 1 cut(s) 83
BtsCI GGATG 2 cut(s) 549, 687
BtsIMutI CAGTG 3 cut(s) 34, 91, 865
Cac8I GCNNGC 5 cut(s) 679, 740, 770, 1219, 1309
CaiI CAGNNNCTG 2 cut(s) 22, 613
CciI TCATGA 2 cut(s) 618, 730
Cfr13I GGNCC 1 cut(s) 1174
CseI GACGC 1 cut(s) 483
CsiI ACCWGGT 1 cut(s) 526
Csp6I GTAC 4 cut(s) 531, 976, 1066, 1108
CviAII CATG 9 cut(s) 351, 542, 619, 716, 731, 895, 1061, 1073, 1171
CviQI GTAC 4 cut(s) 531, 976, 1066, 1108
DdeI CTNAG 4 cut(s) 15, 55, 291, 1330
DpnI GATC 6 cut(s) 26, 264, 617, 829, 849, 1246
DpnII GATC 6 cut(s) 24, 262, 615, 827, 847, 1244
Ecl136II GAGCTC 1 cut(s) 132
Eco130I CCWWGG 2 cut(s) 1049, 1170
Eco24I GRGCYC 1 cut(s) 134
Eco31I GGTCTC 1 cut(s) 1248
Eco47I GGWCC 1 cut(s) 1174
Eco53kI GAGCTC 1 cut(s) 132
Eco57I CTGAAG 1 cut(s) 1264
EcoICRI GAGCTC 1 cut(s) 132
EcoRII CCWGG 2 cut(s) 526, 552
EcoT14I CCWWGG 2 cut(s) 1049, 1170
EcoT38I GRGCYC 1 cut(s) 134
ErhI CCWWGG 2 cut(s) 1049, 1170
FaeI CATG 9 cut(s) 354, 545, 622, 719, 734, 898, 1064, 1076, 1174
FalI AAGNNNNNCTT 2 cut(s) 1242, 1274
FatI CATG 9 cut(s) 350, 541, 618, 715, 730, 894, 1060, 1072, 1170
FbaI TGATCA 3 cut(s) 24, 615, 847
FblI GTMKAC 1 cut(s) 1356
Fnu4HI GCNGC 4 cut(s) 153, 210, 1164, 1335
FokI GGATG 2 cut(s) 536, 674
FriOI GRGCYC 1 cut(s) 134
Fsp4HI GCNGC 4 cut(s) 153, 210, 1164, 1335
FspBI CTAG 5 cut(s) 102, 338, 1308, 1385, 1411
GluI GCNGC 4 cut(s) 153, 210, 1164, 1335
HaeIII GGCC 2 cut(s) 879, 1285
HapII CCGG 1 cut(s) 79
HgaI GACGC 1 cut(s) 483
Hin1I GRCGYC 1 cut(s) 5
Hin1II CATG 9 cut(s) 354, 545, 622, 719, 734, 898, 1064, 1076, 1174
HincII GTYRAC 2 cut(s) 1081, 1357
HindII GTYRAC 2 cut(s) 1081, 1357
HindIII AAGCTT 2 cut(s) 293, 1327
HinfI GANTC 3 cut(s) 124, 342, 971
HpaI GTTAAC 1 cut(s) 1081
HpaII CCGG 1 cut(s) 79
HphI GGTGA 8 cut(s) 133, 239, 604, 676, 691, 818, 961, 1204
Hpy166II GTNNAC 6 cut(s) 230, 311, 416, 978, 1081, 1357
Hpy188I TCNGA 5 cut(s) 18, 129, 186, 1041, 1249
Hpy188III TCNNGA 8 cut(s) 79, 266, 467, 619, 631, 731, 841, 1290
Hpy8I GTNNAC 6 cut(s) 230, 311, 416, 978, 1081, 1357
Hpy99I CGWCG 2 cut(s) 10, 53
HpyAV CCTTC 4 cut(s) 324, 1022, 1244, 1268
HpyCH4III ACNGT 7 cut(s) 86, 380, 395, 413, 869, 916, 1145
HpyCH4IV ACGT 2 cut(s) 510, 657
HpyCH4V TGCA 8 cut(s) 681, 738, 755, 997, 1056, 1127, 1217, 1376
HpyF10VI GCNNNNNNNGC 4 cut(s) 65, 138, 195, 674
HpyF3I CTNAG 4 cut(s) 15, 55, 291, 1330
HpySE526I ACGT 2 cut(s) 510, 657
Hsp92I GRCGYC 1 cut(s) 5
Hsp92II CATG 9 cut(s) 354, 545, 622, 719, 734, 898, 1064, 1076, 1174
Kpn2I TCCGGA 1 cut(s) 78
Ksp22I TGATCA 3 cut(s) 24, 615, 847
KspAI GTTAAC 1 cut(s) 1081
Kzo9I GATC 6 cut(s) 24, 262, 615, 827, 847, 1244
LmnI GCTCC 8 cut(s) 559, 610, 656, 1171, 1271, 1292, 1298, 1379
Lsp1109I GCAGC 2 cut(s) 1150, 1346
LweI GCATC 7 cut(s) 631, 690, 799, 877, 984, 1204, 1310
MabI ACCWGGT 1 cut(s) 526
MaeI CTAG 5 cut(s) 102, 338, 1308, 1385, 1411
MaeII ACGT 2 cut(s) 510, 657
MaeIII GTNAC 6 cut(s) 389, 395, 487, 968, 1000, 1192
MalI GATC 6 cut(s) 26, 264, 617, 829, 849, 1246
MboI GATC 6 cut(s) 24, 262, 615, 827, 847, 1244
MboII GAAGA 8 cut(s) 3, 337, 459, 518, 713, 1240, 1270, 1413
MfeI CAATTG 2 cut(s) 369, 456
MhlI GDGCHC 3 cut(s) 48, 134, 1384
MluCI AATT 3 cut(s) 369, 456, 1237
MlyI GAGTC 1 cut(s) 965
MmeI TCCRAC 2 cut(s) 678, 767
MnlI CCTC 9 cut(s) 112, 169, 550, 573, 783, 940, 1183, 1333, 1378
MroI TCCGGA 1 cut(s) 78
MroXI GAANNNNTTC 1 cut(s) 626
MseI TTAA 3 cut(s) 191, 516, 1080
MslI CAYNNNNRTG 3 cut(s) 68, 729, 942
MspI CCGG 1 cut(s) 79
MspR9I CCNGG 2 cut(s) 528, 554
MunI CAATTG 2 cut(s) 369, 456
Mva1269I GAATGC 2 cut(s) 1050, 1274
MvaI CCWGG 2 cut(s) 528, 554
MwoI GCNNNNNNNGC 4 cut(s) 65, 138, 195, 674
NcoI CCATGG 1 cut(s) 1170
NdeII GATC 6 cut(s) 24, 262, 615, 827, 847, 1244
NheI GCTAGC 1 cut(s) 1307
NlaIII CATG 9 cut(s) 354, 545, 622, 719, 734, 898, 1064, 1076, 1174
NlaIV GGNNCC 2 cut(s) 561, 652
NmuCI GTSAC 3 cut(s) 389, 968, 1192
PagI TCATGA 2 cut(s) 618, 730
PcsI WCGNNNNNNNCGW 1 cut(s) 45
PctI GAATGC 2 cut(s) 1050, 1274
PdmI GAANNNNTTC 1 cut(s) 626
PfeI GAWTC 2 cut(s) 124, 342
PfoI TCCNGGA 1 cut(s) 552
PkrI GCNGC 4 cut(s) 154, 211, 1165, 1336
PleI GAGTC 1 cut(s) 965
PpsI GAGTC 1 cut(s) 965
Psp124BI GAGCTC 1 cut(s) 134
Psp6I CCWGG 2 cut(s) 526, 552
PspGI CCWGG 2 cut(s) 526, 552
PspN4I GGNNCC 2 cut(s) 561, 652
PspPI GGNCC 1 cut(s) 1174
PstI CTGCAG 1 cut(s) 1378
PstNI CAGNNNCTG 2 cut(s) 22, 613
RsaI GTAC 4 cut(s) 532, 977, 1067, 1109
RsaNI GTAC 4 cut(s) 531, 976, 1066, 1108
RseI CAYNNNNRTG 3 cut(s) 68, 729, 942
SacI GAGCTC 1 cut(s) 134
SalI GTCGAC 1 cut(s) 1355
SaqAI TTAA 3 cut(s) 191, 516, 1080
SatI GCNGC 4 cut(s) 153, 210, 1164, 1335
Sau3AI GATC 6 cut(s) 24, 262, 615, 827, 847, 1244
Sau96I GGNCC 1 cut(s) 1174
SchI GAGTC 1 cut(s) 965
ScrFI CCNGG 2 cut(s) 528, 554
SduI GDGCHC 3 cut(s) 48, 134, 1384
SexAI ACCWGGT 1 cut(s) 526
SfaNI GCATC 7 cut(s) 631, 690, 799, 877, 984, 1204, 1310
SfcI CTRYAG 1 cut(s) 1374
SinI GGWCC 1 cut(s) 1174
SmiMI CAYNNNNRTG 3 cut(s) 68, 729, 942
SmlI CTYRAG 1 cut(s) 1324
SmoI CTYRAG 1 cut(s) 1324
Sse9I AATT 3 cut(s) 369, 456, 1237
SsiI CCGC 4 cut(s) 152, 209, 425, 1177
SspMI CTAG 5 cut(s) 102, 338, 1308, 1385, 1411
SstI GAGCTC 1 cut(s) 134
StyD4I CCNGG 2 cut(s) 526, 552
StyI CCWWGG 2 cut(s) 1049, 1170
TaaI ACNGT 7 cut(s) 86, 380, 395, 413, 869, 916, 1145
TaiI ACGT 2 cut(s) 513, 660
TaqI TCGA 2 cut(s) 885, 1356
TasI AATT 3 cut(s) 369, 456, 1237
TauI GCSGC 2 cut(s) 155, 212
TfiI GAWTC 2 cut(s) 124, 342
Tru1I TTAA 3 cut(s) 191, 516, 1080
Tru9I TTAA 3 cut(s) 191, 516, 1080
TscAI CASTG 3 cut(s) 34, 91, 872
TseFI GTSAC 3 cut(s) 389, 968, 1192
TseI GCWGC 2 cut(s) 1163, 1334
Tsp45I GTSAC 3 cut(s) 389, 968, 1192
TspDTI ATGAA 5 cut(s) 297, 519, 635, 704, 719
TspRI CASTG 3 cut(s) 34, 91, 872
VpaK11BI GGWCC 1 cut(s) 1174
XcmI CCANNNNNNNNNTGG 1 cut(s) 668
XmiI GTMKAC 1 cut(s) 1356
XmnI GAANNNNTTC 1 cut(s) 626
XspI CTAG 5 cut(s) 102, 338, 1308, 1385, 1411
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.