Rw4G027220

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr4
OG0013798
Physical Location & Seq
Forward (+)
53647255 .. 53649314
2060 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G027220.1

Sequence Viewer

Length: 1209 bp
ATGGCAATGCCACTCTCTCTTCTCTCACTCCTCTCTCTCCTCCTTATCCCATCTCTCATTTCCTCCTCCCCGGTCCCAAACCCCGGTTCCGTAATCCAAGAAGTACACAGGAGCATTAATGCGTCTCGAAGGAGTTTGGGTTTTCTTTCATGCGGAAGCGGAAACCCCATCGACGATTGCTGGAGGTGCGACCCCAAATGGGAGCAGAACCGGCAGAGACTCGCCGACTGCGCAATTGGGTTCGGAAAGCACGCCATTGGAGGCAGAGACGGCAAAATCTACGTCGTCACCGACGCCGGCGACCACCCTGTCAACCCAAAACCCGGGACTCTCCGCTACGCCGTCATCCAAGACGAGCCGTTATGGATCATCTTCAAAGGTGACATGACCATCACGCTGAAAGAGGAGCTGATGATGAACTCGTTCAAGACCATCGACGGCCGAGGAGCCAATGTACACATCGCCGGCGGGCCTTGCATTACTATTCAATACGTCACCAATATCATAATCCACGGCTTGAACATCCACGACTGCAAGCAAGGCGGGAATGCTTATGTTAGAGACTCTCCTAGCCATTATGGGTGGAGGACTTTGTCTGACGGAGACGGGGTTTCGATTTTCGGGGGAAGCCATGTTTGGGTGGATCATTGCTCTCTCTCGAACTGCCGTGATGGTCTCATTGATGCGATTCATGGCTCTACGGCTATTACGATTTCCAACAATTACATGACGCACCATAACAAGGTCATGTTGTTGGGTCACAGTGACACTTACACGCAGGACAAGAACATGCAGGTCACTATTGCGTTCAATCACTTTGGAGAAGGCCTTGTTCAAAGGATGCCAAGGTGCAGGCATGGAAATTTTCATGTGGTGAACAATGACTATACACATTGGGAAATGTATGCAATTGGGGGTAGTGCTTCTCCAACTATCAACAGCCAAGGGAATAGGTTTCTTGCACCTAATGATAGATTTAACAAAGAGGTGACTAAACATGAGGAAGCACCACAGAATGAGTGGAGCAAATGGAACTGGAGGTCTTCAGGGGATTTACTGCTGAATGGTGCATTTTTCACAGCGTCTGGTGCCGGAGCTTCTTCGAGTTACGCCAAGGCTTCGAGTTTGGGTGCAAGGCCATCTTCCCTAGTGAGCTCAATCACAGCTGGTGCTGGTTCACTCAAATGTAAGAAGGGCTCGCGTTGCTGA
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

402

Amino Acids

43.81

Weight (kDa)

8.44

Isoelectric Point (pI)

38.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 135 - 335 8.7e-21 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0013798)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G67750
fragaria_vesca FvH4_4g25110
malus_domestica MD13G1106200.v1.1 MD16G1106400.v1.1
prunus_persica Prupe.1G239900_v2.0.a1 Prupe.1G239900_v2.0.a1
pyrus_communis pycom13g09220 pycom16g09060
rosa_chinensis RchiOBHm_Chr4g0432291
rosa_laevigata RLG00000006855
rosa_multiflora Rmu_sc0001084.1_g000044
rosa_roxburghii Rroxscaffold_5G00373750
rosa_rugosa Rorug04G0256800
rosa_samantha Rh4BG320700 Rh4CG335900 Rh4DG316200
rosa_wichuraiana Rw4G027220

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 308
Acc16I TGCGCA 1 cut(s) 232
Acc36I ACCTGC 1 cut(s) 784
AccB1I GGYRCC 1 cut(s) 1088
AccII CGCG 1 cut(s) 1201
AciI CCGC 5 cut(s) 153, 159, 334, 468, 543
AclWI GGATC 2 cut(s) 374, 651
AcoI YGGCCR 1 cut(s) 439
AcsI RAATTY 1 cut(s) 862
AcuI CTGAAG 1 cut(s) 1029
AcyI GRCGYC 1 cut(s) 294
AfaI GTAC 2 cut(s) 105, 456
AfiI CCNNNNNNNGG 5 cut(s) 83, 199, 323, 637, 742
AgsI TTSAA 6 cut(s) 376, 427, 488, 520, 811, 836
AjuI GAANNNNNNNTTGG 4 cut(s) 70, 102, 619, 651
AluBI AGCT 4 cut(s) 409, 1097, 1155, 1166
AluI AGCT 4 cut(s) 409, 1097, 1155, 1166
Alw21I GWGCWC 1 cut(s) 1157
Alw26I GTCTC 6 cut(s) 129, 211, 261, 555, 597, 680
AlwI GGATC 2 cut(s) 374, 651
AlwNI CAGNNNCTG 1 cut(s) 1085
Ama87I CYCGRG 1 cut(s) 323
AoxI GGCC 4 cut(s) 439, 470, 826, 1136
ApoI RAATTY 1 cut(s) 862
ArsI GACNNNNNNTTYG 2 cut(s) 267, 299
AseI ATTAAT 1 cut(s) 117
Asp700I GAANNNNTTC 1 cut(s) 422
AspLEI GCGC 1 cut(s) 233
AspS9I GGNCC 2 cut(s) 73, 470
AsuC2I CCSGG 4 cut(s) 71, 84, 324, 325
AsuHPI GGTGA 5 cut(s) 280, 392, 487, 886, 1000
AvaI CYCGRG 1 cut(s) 323
AvaII GGWCC 1 cut(s) 73
BanI GGYRCC 1 cut(s) 1088
BanII GRGCYC 2 cut(s) 1157, 1199
BbsI GAAGAC 1 cut(s) 1035
Bbv12I GWGCWC 1 cut(s) 1157
BccI CCATC 6 cut(s) 58, 176, 398, 440, 665, 1147
BceAI ACGGC 7 cut(s) 286, 326, 343, 454, 529, 651, 717
BcnI CCSGG 4 cut(s) 71, 84, 324, 325
BcoDI GTCTC 6 cut(s) 129, 211, 261, 555, 597, 680
BfaI CTAG 2 cut(s) 570, 1148
BfuAI ACCTGC 1 cut(s) 784
Bme1390I CCNGG 4 cut(s) 71, 84, 324, 325
Bme18I GGWCC 1 cut(s) 73
BmeT110I CYCGRG 1 cut(s) 323
BmgT120I GGNCC 2 cut(s) 73, 470
BmiI GGNNCC 4 cut(s) 75, 88, 448, 1090
BmrFI CCNGG 4 cut(s) 71, 84, 324, 325
BmsI GCATC 2 cut(s) 673, 831
BpiI GAAGAC 1 cut(s) 1035
BpmI CTGGAG 2 cut(s) 202, 1057
BpuMI CCSGG 4 cut(s) 71, 84, 324, 325
BsaHI GRCGYC 1 cut(s) 294
BsaI GGTCTC 1 cut(s) 680
BsaJI CCNNGG 8 cut(s) 69, 82, 323, 442, 511, 845, 943, 1113
BsaXI ACNNNNNCTCC 6 cut(s) 124, 154, 438, 468, 594, 624
Bsc4I CCNNNNNNNGG 5 cut(s) 83, 199, 323, 637, 742
Bse118I RCCGGY 3 cut(s) 210, 296, 464
Bse1I ACTGG 1 cut(s) 1040
Bse3DI GCAATG 2 cut(s) 12, 646
BseDI CCNNGG 8 cut(s) 69, 82, 323, 442, 511, 845, 943, 1113
BseGI GGATG 3 cut(s) 345, 522, 846
BseLI CCNNNNNNNGG 5 cut(s) 83, 199, 323, 637, 742
BseMI GCAATG 2 cut(s) 12, 646
BseNI ACTGG 1 cut(s) 1040
BseRI GAGGAG 5 cut(s) 20, 29, 55, 419, 459
BseX3I CGGCCG 1 cut(s) 439
BsgI GTGCAG 1 cut(s) 871
Bsh1236I CGCG 1 cut(s) 1201
Bsh1285I CGRYCG 1 cut(s) 442
BshFI GGCC 4 cut(s) 441, 472, 828, 1138
BshNI GGYRCC 1 cut(s) 1088
BsiEI CGRYCG 1 cut(s) 442
BsiHKAI GWGCWC 1 cut(s) 1157
BsiHKCI CYCGRG 1 cut(s) 323
BsiSI CCGG 7 cut(s) 71, 84, 211, 297, 324, 465, 1092
BslFI GGGAC 2 cut(s) 59, 340
BslI CCNNNNNNNGG 5 cut(s) 83, 199, 323, 637, 742
BsmAI GTCTC 6 cut(s) 129, 211, 261, 555, 597, 680
BsmBI CGTCTC 3 cut(s) 129, 261, 597
BsmFI GGGAC 2 cut(s) 59, 340
BsmI GAATGC 1 cut(s) 553
BsnI GGCC 4 cut(s) 441, 472, 828, 1138
Bso31I GGTCTC 1 cut(s) 680
BsoBI CYCGRG 1 cut(s) 323
Bsp1286I GDGCHC 2 cut(s) 1157, 1199
Bsp1407I TGTACA 1 cut(s) 454
Bsp143I GATC 2 cut(s) 366, 643
BspACI CCGC 5 cut(s) 153, 159, 334, 468, 543
BspANI GGCC 4 cut(s) 441, 472, 828, 1138
BspFNI CGCG 1 cut(s) 1201
BspLI GGNNCC 4 cut(s) 75, 88, 448, 1090
BspMI ACCTGC 1 cut(s) 784
BspPI GGATC 2 cut(s) 374, 651
BspT107I GGYRCC 1 cut(s) 1088
BspTNI GGTCTC 1 cut(s) 680
BsrDI GCAATG 2 cut(s) 12, 646
BsrFI RCCGGY 3 cut(s) 210, 296, 464
BsrGI TGTACA 1 cut(s) 454
BsrI ACTGG 1 cut(s) 1040
BssAI RCCGGY 3 cut(s) 210, 296, 464
BssECI CCNNGG 8 cut(s) 69, 82, 323, 442, 511, 845, 943, 1113
BssMI GATC 2 cut(s) 366, 643
BssNI GRCGYC 1 cut(s) 294
BssT1I CCWWGG 3 cut(s) 845, 943, 1113
Bst4CI ACNGT 1 cut(s) 764
Bst6I CTCTTC 1 cut(s) 24
BstACI GRCGYC 1 cut(s) 294
BstAUI TGTACA 1 cut(s) 454
BstC8I GCNNGC 7 cut(s) 252, 298, 466, 470, 536, 854, 1199
BstDSI CCRYGG 1 cut(s) 511
BstF5I GGATG 3 cut(s) 345, 522, 846
BstFNI CGCG 1 cut(s) 1201
BstHHI GCGC 1 cut(s) 233
BstKTI GATC 2 cut(s) 369, 646
BstMAI GTCTC 6 cut(s) 129, 211, 261, 555, 597, 680
BstMBI GATC 2 cut(s) 366, 643
BstMCI CGRYCG 1 cut(s) 442
BstMWI GCNNNNNNNGC 8 cut(s) 186, 211, 230, 270, 474, 540, 1088, 1203
BstNSI RCATGY 1 cut(s) 793
BstSCI CCNGG 4 cut(s) 69, 82, 322, 323
BstUI CGCG 1 cut(s) 1201
BstV2I GAAGAC 1 cut(s) 1035
BstZI CGGCCG 1 cut(s) 439
BsuRI GGCC 4 cut(s) 441, 472, 828, 1138
BtgI CCRYGG 1 cut(s) 511
BtgZI GCGATG 1 cut(s) 445
BtsCI GGATG 3 cut(s) 345, 522, 846
BtsIMutI CAGTG 1 cut(s) 769
BveI ACCTGC 1 cut(s) 784
Cac8I GCNNGC 7 cut(s) 252, 298, 466, 470, 536, 854, 1199
CaiI CAGNNNCTG 1 cut(s) 1085
CfoI GCGC 1 cut(s) 233
Cfr10I RCCGGY 3 cut(s) 210, 296, 464
Cfr13I GGNCC 2 cut(s) 73, 470
Cfr9I CCCGGG 1 cut(s) 323
CseI GACGC 4 cut(s) 111, 302, 739, 1071
Csp6I GTAC 2 cut(s) 104, 455
CviQI GTAC 2 cut(s) 104, 455
DpnI GATC 2 cut(s) 368, 645
DpnII GATC 2 cut(s) 366, 643
DrdI GACNNNNNNGTC 1 cut(s) 308
DseDI GACNNNNNNGTC 1 cut(s) 308
EaeI YGGCCR 1 cut(s) 439
EagI CGGCCG 1 cut(s) 439
Eam1104I CTCTTC 1 cut(s) 24
EarI CTCTTC 1 cut(s) 24
Ecl136II GAGCTC 1 cut(s) 1155
EclXI CGGCCG 1 cut(s) 439
Eco130I CCWWGG 3 cut(s) 845, 943, 1113
Eco147I AGGCCT 1 cut(s) 828
Eco24I GRGCYC 2 cut(s) 1157, 1199
Eco31I GGTCTC 1 cut(s) 680
Eco47I GGWCC 1 cut(s) 73
Eco52I CGGCCG 1 cut(s) 439
Eco53kI GAGCTC 1 cut(s) 1155
Eco57I CTGAAG 1 cut(s) 1029
Eco88I CYCGRG 1 cut(s) 323
EcoICRI GAGCTC 1 cut(s) 1155
EcoT14I CCWWGG 3 cut(s) 845, 943, 1113
EcoT38I GRGCYC 2 cut(s) 1157, 1199
ErhI CCWWGG 3 cut(s) 845, 943, 1113
Esp3I CGTCTC 3 cut(s) 129, 261, 597
FalI AAGNNNNNCTT 2 cut(s) 1126, 1158
FaqI GGGAC 2 cut(s) 59, 340
FauI CCCGC 2 cut(s) 461, 536
FokI GGATG 3 cut(s) 332, 509, 853
FriOI GRGCYC 2 cut(s) 1157, 1199
FspBI CTAG 2 cut(s) 570, 1148
FspI TGCGCA 1 cut(s) 232
GlaI GCGC 1 cut(s) 232
GsuI CTGGAG 2 cut(s) 202, 1057
HaeIII GGCC 4 cut(s) 441, 472, 828, 1138
HapII CCGG 7 cut(s) 71, 84, 211, 297, 324, 465, 1092
HgaI GACGC 4 cut(s) 111, 302, 739, 1071
HhaI GCGC 1 cut(s) 233
Hin1I GRCGYC 1 cut(s) 294
Hin6I GCGC 1 cut(s) 231
HinP1I GCGC 1 cut(s) 231
HincII GTYRAC 1 cut(s) 313
HindII GTYRAC 1 cut(s) 313
HinfI GANTC 4 cut(s) 219, 328, 563, 688
HpaII CCGG 7 cut(s) 71, 84, 211, 297, 324, 465, 1092
HphI GGTGA 5 cut(s) 280, 392, 487, 886, 1000
Hpy166II GTNNAC 5 cut(s) 106, 313, 457, 877, 1178
Hpy188I TCNGA 2 cut(s) 245, 598
Hpy188III TCNNGA 3 cut(s) 126, 427, 658
Hpy8I GTNNAC 5 cut(s) 106, 313, 457, 877, 1178
Hpy99I CGWCG 4 cut(s) 176, 287, 296, 440
HpyAV CCTTC 3 cut(s) 123, 818, 1186
HpyCH4III ACNGT 1 cut(s) 764
HpyCH4IV ACGT 2 cut(s) 282, 492
HpyCH4V TGCA 8 cut(s) 477, 534, 793, 852, 908, 962, 1070, 1133
HpyF10VI GCNNNNNNNGC 8 cut(s) 186, 211, 230, 270, 474, 540, 1088, 1203
HpySE526I ACGT 2 cut(s) 282, 492
Hsp92I GRCGYC 1 cut(s) 294
HspAI GCGC 1 cut(s) 231
KroI GCCGGC 2 cut(s) 296, 464
KroNI GCCGGC 2 cut(s) 298, 466
Kzo9I GATC 2 cut(s) 366, 643
LmnI GCTCC 6 cut(s) 111, 202, 406, 446, 1023, 1094
LweI GCATC 2 cut(s) 673, 831
MaeI CTAG 2 cut(s) 570, 1148
MaeII ACGT 2 cut(s) 282, 492
MaeIII GTNAC 8 cut(s) 286, 380, 493, 758, 764, 796, 988, 1106
MalI GATC 2 cut(s) 368, 645
MboI GATC 2 cut(s) 366, 643
MboII GAAGA 5 cut(s) 11, 364, 1035, 1092, 1134
MfeI CAATTG 2 cut(s) 234, 909
MhlI GDGCHC 2 cut(s) 1157, 1199
MluCI AATT 4 cut(s) 234, 721, 862, 909
MlyI GAGTC 3 cut(s) 213, 322, 557
MmeI TCCRAC 2 cut(s) 741, 953
MreI CGCCGGCG 2 cut(s) 296, 464
MroNI GCCGGC 2 cut(s) 296, 464
MroXI GAANNNNTTC 1 cut(s) 422
MseI TTAA 2 cut(s) 117, 978
MslI CAYNNNNRTG 1 cut(s) 1183
MspA1I CMGCKG 1 cut(s) 1166
MspI CCGG 7 cut(s) 71, 84, 211, 297, 324, 465, 1092
MspR9I CCNGG 4 cut(s) 71, 84, 324, 325
MunI CAATTG 2 cut(s) 234, 909
Mva1269I GAATGC 1 cut(s) 553
MvnI CGCG 1 cut(s) 1201
MwoI GCNNNNNNNGC 8 cut(s) 186, 211, 230, 270, 474, 540, 1088, 1203
NaeI GCCGGC 2 cut(s) 298, 466
NciI CCSGG 4 cut(s) 71, 84, 324, 325
NdeII GATC 2 cut(s) 366, 643
NgoMIV GCCGGC 2 cut(s) 296, 464
NlaIV GGNNCC 4 cut(s) 75, 88, 448, 1090
NmeAIII GCCGAG 1 cut(s) 467
NmuCI GTSAC 7 cut(s) 286, 380, 493, 758, 764, 796, 988
NsbI TGCGCA 1 cut(s) 232
NspI RCATGY 1 cut(s) 793
PceI AGGCCT 1 cut(s) 828
PcsI WCGNNNNNNNCGW 2 cut(s) 288, 707
PctI GAATGC 1 cut(s) 553
PdiI GCCGGC 2 cut(s) 298, 466
PdmI GAANNNNTTC 1 cut(s) 422
PfeI GAWTC 1 cut(s) 688
PflFI GACNNNGTC 1 cut(s) 592
PleI GAGTC 3 cut(s) 213, 322, 557
PpsI GAGTC 3 cut(s) 213, 322, 557
PshBI ATTAAT 1 cut(s) 117
Psp124BI GAGCTC 1 cut(s) 1157
PspN4I GGNNCC 4 cut(s) 75, 88, 448, 1090
PspPI GGNCC 2 cut(s) 73, 470
PstNI CAGNNNCTG 1 cut(s) 1085
PsyI GACNNNGTC 1 cut(s) 592
PvuII CAGCTG 1 cut(s) 1166
RsaI GTAC 2 cut(s) 105, 456
RsaNI GTAC 2 cut(s) 104, 455
RseI CAYNNNNRTG 1 cut(s) 1183
SacI GAGCTC 1 cut(s) 1157
SaqAI TTAA 2 cut(s) 117, 978
Sau3AI GATC 2 cut(s) 366, 643
Sau96I GGNCC 2 cut(s) 73, 470
SchI GAGTC 3 cut(s) 213, 322, 557
ScrFI CCNGG 4 cut(s) 71, 84, 324, 325
SduI GDGCHC 2 cut(s) 1157, 1199
SfaNI GCATC 2 cut(s) 673, 831
SgrAI CRCCGGYG 2 cut(s) 296, 464
SinI GGWCC 1 cut(s) 73
SmaI CCCGGG 1 cut(s) 325
SmiMI CAYNNNNRTG 1 cut(s) 1183
Sse9I AATT 4 cut(s) 234, 721, 862, 909
SseBI AGGCCT 1 cut(s) 828
SsiI CCGC 5 cut(s) 153, 159, 334, 468, 543
SspMI CTAG 2 cut(s) 570, 1148
SstI GAGCTC 1 cut(s) 1157
StuI AGGCCT 1 cut(s) 828
StyD4I CCNGG 4 cut(s) 69, 82, 322, 323
StyI CCWWGG 3 cut(s) 845, 943, 1113
TaaI ACNGT 1 cut(s) 764
TaiI ACGT 2 cut(s) 285, 495
TaqI TCGA 7 cut(s) 127, 171, 435, 614, 659, 1103, 1121
TasI AATT 4 cut(s) 234, 721, 862, 909
TatI WGTACW 2 cut(s) 103, 454
TfiI GAWTC 1 cut(s) 688
Tru1I TTAA 2 cut(s) 117, 978
Tru9I TTAA 2 cut(s) 117, 978
TscAI CASTG 1 cut(s) 769
TseFI GTSAC 7 cut(s) 286, 380, 493, 758, 764, 796, 988
Tsp45I GTSAC 7 cut(s) 286, 380, 493, 758, 764, 796, 988
TspDTI ATGAA 4 cut(s) 138, 431, 680, 857
TspGWI ACGGA 2 cut(s) 79, 615
TspMI CCCGGG 1 cut(s) 323
TspRI CASTG 1 cut(s) 769
Tth111I GACNNNGTC 1 cut(s) 592
VpaK11BI GGWCC 1 cut(s) 73
VspI ATTAAT 1 cut(s) 117
XapI RAATTY 1 cut(s) 862
XceI RCATGY 1 cut(s) 793
XcmI CCANNNNNNNNNTGG 1 cut(s) 1017
XmaI CCCGGG 1 cut(s) 323
XmnI GAANNNNTTC 1 cut(s) 422
XspI CTAG 2 cut(s) 570, 1148
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.