RLG00000009489

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
OG0010648
Physical Location & Seq
Forward (+)
53523738 .. 53527612
3875 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000009489

Sequence Viewer

Length: 1362 bp
ATGGCGGTTTCCGAGAGTAAGAAATGGATTCTGGCTTGCGTGTCGGTGCTTCTCTTGTTCTGCTTCGTCGCTGTAATGTCCGGTAGAGTCAGCCTCGACGGCACCTCTCTCATCAGGAATGGAGCGACTGAGGAGTTGTTGAAGAGCTCGGGCAATTCATCAATGGCGGCCAGGGTGAATGAGAATGATGATGAAGGCTTGAATAATAAGCATGCAGTTGAGAACCCTGAGGAAATTGCTTCAATGGTTGACATGAGTATCCGCAACAGCACTGAAAGGAGAAAGCTGGGCTACTTCTCATGTGGAACTGGAAATCCCATTGATGATTGCTGGCGTTGTGATCCCAACTGGCAAAAGAACCGCAAGCGTCTTGCAGACTGTGGCATTGGTTTCGGCAGAAATGCCATTGGTGGTCGTGATGGACGCTTCTATGTTGTCACTGACCCTAAAGATGATGATCCCGTTAACCCCAGACCCGGTACTCTGCGCCATGCTGTCATCCAGGATGAGCCTCTCTGGATTGTGTTCAAACGTGACATGGTGATCCAATTGAAGCAGGAGCTTCTCATGAATAGCTTCAAGACCATTGATGGCCGTGGAGTCAATGTCCACATTGCTAATGGAGCATGCATTACAATCCAGTTTGTTACAAACATTATAATTCATGGTCTGCATATCCATGACTGCAAGCCCACAGGAAATGCCATGGTTAGGAGCTCCCCATCTCACTTTGGTTGGAGGACAATGGCTGATGGTGATGCTGTCTCCATCTTCGGGTCAAGCCATATCTGGGTTGATCACAATTCCCTCTCCAATTGTGCTGATGGTCTTGTTGATGCTGTCATGGGGTCAACTGCTATTACCATCTCAAACAACCACTTTACCCACCACAATGAAGTTATGCTGTTGGGCCACAGTGATTCTTATACCAGGGACAAGCAAATGCAGGTGACTATTGCCTACAACCACTTTGGAGAGGGACTTATCCAAAGAATGCCAAGGTGTAGACACGGATATTTCCATGTGGTGAACAACGACTACACTCACTGGGAGATGTATGCCATTGGTGGAAGTGCAGAACCTACTATCAACAGCCAAGGCAACAGATACGCAGCTCCAGCCAACCCCTTTGCAAAGGAGGTTACCAAGAGAGTGGAGACAGCACAAACTCAGTGGAAGGGCTGGAACTGGAGGTCAGAAGGTGATCTTCTACTCAATGGTGCCTTCTTCACTCCATCTGGAGCTGGAGCTTCAGCTGTCTATGCCAGAGCCTCAAGCTTGGGAGCCAAGTCATCTGCCATGGTGGGAACCATAACTGCTGGTGCTGGTGTACTGGGTTGCCGCAGAGGACATACCTGCTAG
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

454

Amino Acids

49.68

Weight (kDa)

7.63

Isoelectric Point (pI)

37.34

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 187 - 386 4.5e-20 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)
AanI TTATAA 1 cut(s) 659
AarI CACCTGC 1 cut(s) 937
Acc36I ACCTGC 1 cut(s) 937
AccB1I GGYRCC 2 cut(s) 101, 1220
AccI GTMKAC 1 cut(s) 1006
AciI CCGC 5 cut(s) 5, 167, 262, 361, 1342
AclWI GGATC 3 cut(s) 335, 452, 538
AcoI YGGCCR 2 cut(s) 168, 592
AcuI CTGAAG 1 cut(s) 1236
AfaI GTAC 2 cut(s) 481, 1332
AfiI CCNNNNNNNGG 4 cut(s) 476, 711, 774, 790
AgsI TTSAA 6 cut(s) 142, 202, 243, 529, 553, 580
AjnI CCWGG 3 cut(s) 170, 501, 929
AloI GAACNNNNNNTCC 2 cut(s) 298, 330
Alw21I GWGCWC 2 cut(s) 149, 719
Alw26I GTCTC 2 cut(s) 769, 1151
AlwI GGATC 3 cut(s) 335, 452, 538
Ama87I CYCGRG 1 cut(s) 148
AoxI GGCC 3 cut(s) 168, 592, 910
ApeKI GCWGC 1 cut(s) 1112
Asp700I GAANNNNTTC 1 cut(s) 575
AspLEI GCGC 1 cut(s) 489
AspS9I GGNCC 1 cut(s) 910
AsuC2I CCSGG 1 cut(s) 477
AsuHPI GGTGA 6 cut(s) 187, 553, 767, 961, 1039, 1214
AvaI CYCGRG 1 cut(s) 148
AxyI CCTNAGG 1 cut(s) 228
BaeI ACNNNNGTAYC 2 cut(s) 241, 274
BanI GGYRCC 2 cut(s) 101, 1220
BanII GRGCYC 2 cut(s) 149, 719
Bbv12I GWGCWC 2 cut(s) 149, 719
BbvI GCAGC 1 cut(s) 1124
BccI CCATC 8 cut(s) 413, 584, 730, 746, 776, 818, 872, 1243
BceAI ACGGC 2 cut(s) 115, 579
BcgI CGANNNNNNTGC 2 cut(s) 373, 407
BciT130I CCWGG 3 cut(s) 172, 503, 931
BciVI GTATCC 1 cut(s) 269
BclI TGATCA 1 cut(s) 796
BcnI CCSGG 1 cut(s) 477
BcoDI GTCTC 2 cut(s) 769, 1151
BfaI CTAG 1 cut(s) 1360
BfuAI ACCTGC 1 cut(s) 937
BfuI GTATCC 1 cut(s) 269
BglI GCCNNNNNGGC 1 cut(s) 99
BisI GCNGC 3 cut(s) 168, 1113, 1342
BlsI GCNGC 3 cut(s) 169, 1114, 1343
Bme1390I CCNGG 4 cut(s) 172, 477, 503, 931
BmeT110I CYCGRG 1 cut(s) 148
BmgT120I GGNCC 1 cut(s) 910
BmiI GGNNCC 4 cut(s) 103, 1222, 1285, 1309
BmrFI CCNGG 4 cut(s) 172, 477, 503, 931
BmrI ACTGGG 2 cut(s) 1057, 1343
BmsI GCATC 2 cut(s) 748, 826
BmuI ACTGGG 2 cut(s) 1057, 1343
BplI GAGNNNNNCTC 2 cut(s) 78, 110
BpmI CTGGAG 4 cut(s) 1101, 1210, 1260, 1266
BpuEI CTTGAG 1 cut(s) 1258
BpuMI CCSGG 1 cut(s) 477
BsaBI GATNNNNATC 1 cut(s) 456
BsaJI CCNNGG 7 cut(s) 171, 595, 705, 930, 998, 1096, 1299
BsaWI WCCGGW 1 cut(s) 80
BsaXI ACNNNNNCTCC 2 cut(s) 591, 621
Bsc4I CCNNNNNNNGG 4 cut(s) 476, 711, 774, 790
Bse1I ACTGG 6 cut(s) 313, 353, 640, 1052, 1193, 1338
Bse21I CCTNAGG 1 cut(s) 228
Bse3DI GCAATG 1 cut(s) 612
Bse8I GATNNNNATC 1 cut(s) 456
BseBI CCWGG 3 cut(s) 172, 503, 931
BseDI CCNNGG 7 cut(s) 171, 595, 705, 930, 998, 1096, 1299
BseGI GGATG 2 cut(s) 498, 511
BseJI GATNNNNATC 1 cut(s) 456
BseLI CCNNNNNNNGG 4 cut(s) 476, 711, 774, 790
BseMI GCAATG 1 cut(s) 612
BseMII CTCAG 3 cut(s) 120, 219, 1184
BseNI ACTGG 6 cut(s) 313, 353, 640, 1052, 1193, 1338
BseRI GAGGAG 1 cut(s) 146
BseXI GCAGC 1 cut(s) 1124
BseYI CCCAGC 1 cut(s) 286
BsgI GTGCAG 1 cut(s) 1095
BshFI GGCC 3 cut(s) 170, 594, 912
BshNI GGYRCC 2 cut(s) 101, 1220
BsiHKAI GWGCWC 2 cut(s) 149, 719
BsiHKCI CYCGRG 1 cut(s) 148
BsiSI CCGG 2 cut(s) 81, 477
BslFI GGGAC 2 cut(s) 947, 993
BslI CCNNNNNNNGG 4 cut(s) 476, 711, 774, 790
BsmAI GTCTC 2 cut(s) 769, 1151
BsmFI GGGAC 2 cut(s) 947, 993
BsmI GAATGC 1 cut(s) 999
BsnI GGCC 3 cut(s) 170, 594, 912
BsoBI CYCGRG 1 cut(s) 148
Bsp1286I GDGCHC 2 cut(s) 149, 719
Bsp143I GATC 5 cut(s) 340, 457, 543, 796, 1204
Bsp19I CCATGG 2 cut(s) 705, 1299
BspACI CCGC 5 cut(s) 5, 167, 262, 361, 1342
BspANI GGCC 3 cut(s) 170, 594, 912
BspCNI CTCAG 3 cut(s) 121, 220, 1183
BspHI TCATGA 1 cut(s) 567
BspLI GGNNCC 4 cut(s) 103, 1222, 1285, 1309
BspMI ACCTGC 1 cut(s) 937
BspPI GGATC 3 cut(s) 335, 452, 538
BspQI GCTCTTC 1 cut(s) 137
BspT107I GGYRCC 2 cut(s) 101, 1220
BsrDI GCAATG 1 cut(s) 612
BsrI ACTGG 6 cut(s) 313, 353, 640, 1052, 1193, 1338
BssECI CCNNGG 7 cut(s) 171, 595, 705, 930, 998, 1096, 1299
BssMI GATC 5 cut(s) 340, 457, 543, 796, 1204
BssT1I CCWWGG 4 cut(s) 705, 998, 1096, 1299
Bst2UI CCWGG 3 cut(s) 172, 503, 931
Bst4CI ACNGT 2 cut(s) 380, 917
Bst6I CTCTTC 1 cut(s) 137
BstC8I GCNNGC 6 cut(s) 37, 213, 332, 365, 628, 689
BstDEI CTNAG 3 cut(s) 129, 228, 1170
BstDSI CCRYGG 3 cut(s) 595, 705, 1299
BstEII GGTNACC 1 cut(s) 1141
BstF5I GGATG 2 cut(s) 498, 511
BstHHI GCGC 1 cut(s) 489
BstKTI GATC 5 cut(s) 343, 460, 546, 799, 1207
BstMAI GTCTC 2 cut(s) 769, 1151
BstMBI GATC 5 cut(s) 340, 457, 543, 796, 1204
BstMWI GCNNNNNNNGC 4 cut(s) 99, 623, 1118, 1262
BstNI CCWGG 3 cut(s) 172, 503, 931
BstNSI RCATGY 2 cut(s) 215, 630
BstPI GGTNACC 1 cut(s) 1141
BstSCI CCNGG 4 cut(s) 170, 475, 501, 929
BstV1I GCAGC 1 cut(s) 1124
BstXI CCANNNNNNTGG 1 cut(s) 1153
Bsu36I CCTNAGG 1 cut(s) 228
BsuI GTATCC 1 cut(s) 269
BsuRI GGCC 3 cut(s) 170, 594, 912
BtgI CCRYGG 3 cut(s) 595, 705, 1299
BtsCI GGATG 2 cut(s) 498, 511
BtsIMutI CAGTG 5 cut(s) 270, 438, 922, 1045, 1178
BveI ACCTGC 1 cut(s) 937
Cac8I GCNNGC 6 cut(s) 37, 213, 332, 365, 628, 689
CciI TCATGA 1 cut(s) 567
CfoI GCGC 1 cut(s) 489
Cfr13I GGNCC 1 cut(s) 910
CseI GACGC 2 cut(s) 356, 432
Csp6I GTAC 2 cut(s) 480, 1331
CspCI CAANNNNNGTGG 2 cut(s) 1154, 1189
CviQI GTAC 2 cut(s) 480, 1331
DdeI CTNAG 3 cut(s) 129, 228, 1170
DpnI GATC 5 cut(s) 342, 459, 545, 798, 1206
DpnII GATC 5 cut(s) 340, 457, 543, 796, 1204
EaeI YGGCCR 2 cut(s) 168, 592
Eam1104I CTCTTC 1 cut(s) 137
EarI CTCTTC 1 cut(s) 137
Ecl136II GAGCTC 2 cut(s) 147, 717
Eco130I CCWWGG 4 cut(s) 705, 998, 1096, 1299
Eco24I GRGCYC 2 cut(s) 149, 719
Eco53kI GAGCTC 2 cut(s) 147, 717
Eco57I CTGAAG 1 cut(s) 1236
Eco81I CCTNAGG 1 cut(s) 228
Eco88I CYCGRG 1 cut(s) 148
Eco91I GGTNACC 1 cut(s) 1141
EcoICRI GAGCTC 2 cut(s) 147, 717
EcoO65I GGTNACC 1 cut(s) 1141
EcoRII CCWGG 3 cut(s) 170, 501, 929
EcoT14I CCWWGG 4 cut(s) 705, 998, 1096, 1299
EcoT22I ATGCAT 1 cut(s) 632
EcoT38I GRGCYC 2 cut(s) 149, 719
ErhI CCWWGG 4 cut(s) 705, 998, 1096, 1299
FalI AAGNNNNNCTT 2 cut(s) 1191, 1223
FaqI GGGAC 2 cut(s) 947, 993
FbaI TGATCA 1 cut(s) 796
FblI GTMKAC 1 cut(s) 1006
Fnu4HI GCNGC 3 cut(s) 168, 1113, 1342
FokI GGATG 2 cut(s) 485, 518
FriOI GRGCYC 2 cut(s) 149, 719
Fsp4HI GCNGC 3 cut(s) 168, 1113, 1342
FspBI CTAG 1 cut(s) 1360
GlaI GCGC 1 cut(s) 488
GluI GCNGC 3 cut(s) 168, 1113, 1342
GsaI CCCAGC 1 cut(s) 290
GsuI CTGGAG 4 cut(s) 1101, 1210, 1260, 1266
HaeIII GGCC 3 cut(s) 170, 594, 912
HapII CCGG 2 cut(s) 81, 477
HgaI GACGC 2 cut(s) 356, 432
HhaI GCGC 1 cut(s) 489
Hin6I GCGC 1 cut(s) 487
HinP1I GCGC 1 cut(s) 487
HincII GTYRAC 3 cut(s) 250, 466, 852
HindII GTYRAC 3 cut(s) 250, 466, 852
HindIII AAGCTT 1 cut(s) 1276
HinfI GANTC 4 cut(s) 28, 87, 600, 920
HpaI GTTAAC 1 cut(s) 466
HpaII CCGG 2 cut(s) 81, 477
HphI GGTGA 6 cut(s) 187, 553, 767, 961, 1039, 1214
Hpy166II GTNNAC 7 cut(s) 250, 466, 610, 852, 1007, 1030, 1331
Hpy188I TCNGA 2 cut(s) 13, 1198
Hpy188III TCNNGA 6 cut(s) 115, 416, 517, 568, 580, 1239
Hpy8I GTNNAC 7 cut(s) 250, 466, 610, 852, 1007, 1030, 1331
Hpy99I CGWCG 2 cut(s) 71, 101
HpyAV CCTTC 4 cut(s) 188, 1171, 1193, 1234
HpyCH4III ACNGT 2 cut(s) 380, 917
HpyCH4IV ACGT 1 cut(s) 532
HpyCH4V TGCA 8 cut(s) 215, 374, 630, 673, 687, 946, 1076, 1133
HpyF10VI GCNNNNNNNGC 4 cut(s) 99, 623, 1118, 1262
HpyF3I CTNAG 3 cut(s) 129, 228, 1170
HpySE526I ACGT 1 cut(s) 532
HspAI GCGC 1 cut(s) 487
Ksp22I TGATCA 1 cut(s) 796
KspAI GTTAAC 1 cut(s) 466
Kzo9I GATC 5 cut(s) 340, 457, 543, 796, 1204
LguI GCTCTTC 1 cut(s) 137
LmnI GCTCC 9 cut(s) 122, 559, 623, 714, 722, 1120, 1241, 1247, 1283
Lsp1109I GCAGC 1 cut(s) 1124
LweI GCATC 2 cut(s) 748, 826
MaeI CTAG 1 cut(s) 1360
MaeII ACGT 1 cut(s) 532
MaeIII GTNAC 5 cut(s) 436, 533, 646, 949, 1141
MalI GATC 5 cut(s) 342, 459, 545, 798, 1206
MboI GATC 5 cut(s) 340, 457, 543, 796, 1204
MboII GAAGA 4 cut(s) 154, 763, 1199, 1219
MfeI CAATTG 2 cut(s) 548, 814
MhlI GDGCHC 2 cut(s) 149, 719
MluCI AATT 6 cut(s) 154, 234, 548, 660, 802, 814
MlyI GAGTC 2 cut(s) 96, 609
MmeI TCCRAC 1 cut(s) 716
Mph1103I ATGCAT 1 cut(s) 632
MroXI GAANNNNTTC 1 cut(s) 575
MseI TTAA 1 cut(s) 465
MslI CAYNNNNRTG 2 cut(s) 678, 891
MspA1I CMGCKG 1 cut(s) 1256
MspI CCGG 2 cut(s) 81, 477
MspR9I CCNGG 4 cut(s) 172, 477, 503, 931
MunI CAATTG 2 cut(s) 548, 814
Mva1269I GAATGC 1 cut(s) 999
MvaI CCWGG 3 cut(s) 172, 503, 931
MwoI GCNNNNNNNGC 4 cut(s) 99, 623, 1118, 1262
NciI CCSGG 1 cut(s) 477
NcoI CCATGG 2 cut(s) 705, 1299
NdeII GATC 5 cut(s) 340, 457, 543, 796, 1204
NlaIV GGNNCC 4 cut(s) 103, 1222, 1285, 1309
NmuCI GTSAC 3 cut(s) 436, 533, 949
NsiI ATGCAT 1 cut(s) 632
NspI RCATGY 2 cut(s) 215, 630
PaeI GCATGC 2 cut(s) 215, 630
PagI TCATGA 1 cut(s) 567
PaqCI CACCTGC 1 cut(s) 937
PciSI GCTCTTC 1 cut(s) 137
PctI GAATGC 1 cut(s) 999
PdmI GAANNNNTTC 1 cut(s) 575
PfeI GAWTC 2 cut(s) 28, 920
PfoI TCCNGGA 1 cut(s) 501
PkrI GCNGC 3 cut(s) 169, 1114, 1343
PleI GAGTC 2 cut(s) 95, 608
PpsI GAGTC 2 cut(s) 95, 608
PsiI TTATAA 1 cut(s) 659
Psp124BI GAGCTC 2 cut(s) 149, 719
Psp6I CCWGG 3 cut(s) 170, 501, 929
PspEI GGTNACC 1 cut(s) 1141
PspFI CCCAGC 1 cut(s) 286
PspGI CCWGG 3 cut(s) 170, 501, 929
PspN4I GGNNCC 4 cut(s) 103, 1222, 1285, 1309
PspPI GGNCC 1 cut(s) 910
PsrI GAACNNNNNNTAC 2 cut(s) 1022, 1054
PvuII CAGCTG 1 cut(s) 1256
RsaI GTAC 2 cut(s) 481, 1332
RsaNI GTAC 2 cut(s) 480, 1331
RseI CAYNNNNRTG 2 cut(s) 678, 891
SacI GAGCTC 2 cut(s) 149, 719
SapI GCTCTTC 1 cut(s) 137
SaqAI TTAA 1 cut(s) 465
SatI GCNGC 3 cut(s) 168, 1113, 1342
Sau3AI GATC 5 cut(s) 340, 457, 543, 796, 1204
Sau96I GGNCC 1 cut(s) 910
SchI GAGTC 2 cut(s) 96, 609
ScrFI CCNGG 4 cut(s) 172, 477, 503, 931
SduI GDGCHC 2 cut(s) 149, 719
SfaNI GCATC 2 cut(s) 748, 826
SmiMI CAYNNNNRTG 2 cut(s) 678, 891
SmlI CTYRAG 1 cut(s) 1273
SmoI CTYRAG 1 cut(s) 1273
SphI GCATGC 2 cut(s) 215, 630
Sse9I AATT 6 cut(s) 154, 234, 548, 660, 802, 814
SsiI CCGC 5 cut(s) 5, 167, 262, 361, 1342
SspMI CTAG 1 cut(s) 1360
SstI GAGCTC 2 cut(s) 149, 719
StyD4I CCNGG 4 cut(s) 170, 475, 501, 929
StyI CCWWGG 4 cut(s) 705, 998, 1096, 1299
TaaI ACNGT 2 cut(s) 380, 917
TaiI ACGT 1 cut(s) 535
TaqI TCGA 1 cut(s) 96
TasI AATT 6 cut(s) 154, 234, 548, 660, 802, 814
TatI WGTACW 1 cut(s) 1330
TauI GCSGC 2 cut(s) 170, 1344
TfiI GAWTC 2 cut(s) 28, 920
Tru1I TTAA 1 cut(s) 465
Tru9I TTAA 1 cut(s) 465
TscAI CASTG 5 cut(s) 277, 445, 922, 1052, 1178
TseFI GTSAC 3 cut(s) 436, 533, 949
TseI GCWGC 1 cut(s) 1112
Tsp45I GTSAC 3 cut(s) 436, 533, 949
TspDTI ATGAA 5 cut(s) 147, 207, 584, 653, 909
TspGWI ACGGA 1 cut(s) 1026
TspRI CASTG 5 cut(s) 277, 445, 922, 1052, 1178
XceI RCATGY 2 cut(s) 215, 630
XcmI CCANNNNNNNNNTGG 1 cut(s) 617
XmiI GTMKAC 1 cut(s) 1006
XmnI GAANNNNTTC 1 cut(s) 575
XspI CTAG 1 cut(s) 1360
Zsp2I ATGCAT 1 cut(s) 632
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.