Rmu_ssc0000421.1_g000014

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000421.1
OG0006447
Physical Location & Seq
Reverse (-)
63838 .. 65638
1801 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1230 bp
atgccttcaggcccctctctctctctcctcatcttcctcttctctctcctcaccctaaccctcattgtttcctctgcaccagttcaagatcctgaactcgttgtacagcaagtacaaaggagcatctataatgcctcagtcacccggaggaagttgggctatttgtcatgtgggtccggaaacccgatcgacgactgctggcggtgcgaccctaattgggagaagaaccgccagaggctcgccgactgcgcaattgggttcggcaaaaacgccattggcggcagggacgggaggatttacgtggtgactgactcaggggacgacgaccccgtgaaccccaagccagggactctacgacatgccgtcatccaggacgagcccttgtggatcattttcgagcgcgacatgtcgatcaagctcaaggaggagctgatcatgaactcgttcaagaccctggacggccgaggagccagcgtgcacatctccggcgggccatgcattacgatccagtacgtgaccaacattatcattcatggactcaacatacacgattgcaagccgggagggaatgctatggtgcgtgactccccaaatcacttcgggtggagaaccatatcggacggtgatggtgtgtccatcttcggtgggagccatgtttgggtggaccattgctccctgtcgaactgcgccgacgggctggtcgacgcaattcatgggtccactgcgataacgatttcgaacaattacatgacgcaccatgataaggtcatgttgctgggacacagtgatacctatacccaggacaagaacatgcaggtcactattgccttcaaccactttggagaaggtcttgttcaaaggatgccaagatgcaggcatggatatttccatgtggtgaacaatgactacacccattgggagatgtacgccattggaggcagtgcaaaccctactatcaatagccaggggaataggtttactgcaccagatataaggttcagcaaagaggtgacaaaacatgaggatgcacctgaaagtgagtggaaaaattggaactggaggtcagagggtgacatgttgataaacggtgcatttttcacggcctctggtgccggagcttcttcaagctatgcaaaagcctcaagcttgggggcaaggccatcttctcttgtggcttcaatcaccacaacttctggtgcactcaattgccgaaagggttctcgttgctaa
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

409

Amino Acids

44.82

Weight (kDa)

6.59

Isoelectric Point (pI)

31.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 206 - 341 2e-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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 698
Acc16I TGCGCA 1 cut(s) 250
Acc36I ACCTGC 1 cut(s) 805
AccB1I GGYRCC 1 cut(s) 1109
AccI GTMKAC 1 cut(s) 702
AccII CGCG 1 cut(s) 402
AccIII TCCGGA 1 cut(s) 176
AciI CCGC 4 cut(s) 202, 229, 279, 489
AclWI GGATC 3 cut(s) 83, 395, 499
AcoI YGGCCR 1 cut(s) 460
AfaI GTAC 4 cut(s) 105, 114, 512, 926
AfiI CCNNNNNNNGG 5 cut(s) 217, 344, 345, 658, 763
AflIII ACRYGT 2 cut(s) 405, 1074
AgsI TTSAA 6 cut(s) 86, 448, 832, 857, 1125, 1179
AhdI GACNNNNNGTC 1 cut(s) 362
AjnI CCWGG 5 cut(s) 343, 369, 453, 798, 963
AluBI AGCT 5 cut(s) 418, 430, 1118, 1128, 1146
AluI AGCT 5 cut(s) 418, 430, 1118, 1128, 1146
Alw21I GWGCWC 2 cut(s) 480, 1201
Alw44I GTGCAC 2 cut(s) 476, 1197
AlwI GGATC 3 cut(s) 83, 395, 499
Aor13HI TCCGGA 1 cut(s) 176
AoxI GGCC 5 cut(s) 10, 460, 491, 1101, 1157
ApaLI GTGCAC 2 cut(s) 476, 1197
Asp700I GAANNNNTTC 2 cut(s) 443, 1216
AspLEI GCGC 3 cut(s) 251, 402, 689
AspS9I GGNCC 5 cut(s) 11, 174, 491, 664, 717
AsuC2I CCSGG 2 cut(s) 145, 561
AsuHPI GGTGA 8 cut(s) 43, 133, 316, 635, 907, 1021, 1082, 1174
AsuII TTCGAA 1 cut(s) 737
AvaII GGWCC 3 cut(s) 174, 664, 717
BaeGI GKGCMC 2 cut(s) 480, 1201
BanI GGYRCC 1 cut(s) 1109
BanII GRGCYC 1 cut(s) 381
Bbv12I GWGCWC 2 cut(s) 480, 1201
BccI CCATC 3 cut(s) 620, 644, 1168
BceAI ACGGC 3 cut(s) 347, 475, 1116
BciT130I CCWGG 5 cut(s) 345, 371, 455, 800, 965
BclI TGATCA 1 cut(s) 432
BcnI CCSGG 2 cut(s) 145, 561
BfuAI ACCTGC 1 cut(s) 805
BisI GCNGC 1 cut(s) 280
BlsI GCNGC 1 cut(s) 281
Bme1390I CCNGG 7 cut(s) 145, 345, 371, 455, 561, 800, 965
Bme18I GGWCC 3 cut(s) 174, 664, 717
BmeRI GACNNNNNGTC 1 cut(s) 362
BmgT120I GGNCC 5 cut(s) 11, 174, 491, 664, 717
BmiI GGNNCC 6 cut(s) 13, 175, 469, 650, 718, 1111
BmrFI CCNGG 7 cut(s) 145, 345, 371, 455, 561, 800, 965
BmsI GCATC 4 cut(s) 132, 852, 860, 1015
BpmI CTGGAG 1 cut(s) 1078
Bpu14I TTCGAA 1 cut(s) 737
BpuEI CTTGAG 2 cut(s) 404, 1126
BpuMI CCSGG 2 cut(s) 145, 561
BsaAI YACGTR 2 cut(s) 301, 514
BsaJI CCNNGG 5 cut(s) 344, 453, 463, 798, 964
BsaWI WCCGGW 1 cut(s) 176
BsaXI ACNNNNNCTCC 4 cut(s) 459, 489, 656, 686
Bsc4I CCNNNNNNNGG 5 cut(s) 217, 344, 345, 658, 763
Bse1I ACTGG 3 cut(s) 80, 508, 1061
Bse3DI GCAATG 1 cut(s) 667
BseAI TCCGGA 1 cut(s) 176
BseBI CCWGG 5 cut(s) 345, 371, 455, 800, 965
BseDI CCNNGG 5 cut(s) 344, 453, 463, 798, 964
BseGI GGATG 3 cut(s) 366, 867, 1030
BseLI CCNNNNNNNGG 5 cut(s) 217, 344, 345, 658, 763
BseMI GCAATG 1 cut(s) 667
BseMII CTCAG 2 cut(s) 150, 327
BseNI ACTGG 3 cut(s) 80, 508, 1061
BseRI GAGGAG 4 cut(s) 17, 38, 440, 480
BseSI GKGCMC 2 cut(s) 480, 1201
BseX3I CGGCCG 1 cut(s) 460
BseYI CCCAGC 1 cut(s) 775
BsgI GTGCAG 2 cut(s) 60, 966
Bsh1236I CGCG 1 cut(s) 402
Bsh1285I CGRYCG 2 cut(s) 189, 463
BshFI GGCC 5 cut(s) 12, 462, 493, 1103, 1159
BshNI GGYRCC 1 cut(s) 1109
BsiEI CGRYCG 2 cut(s) 189, 463
BsiHKAI GWGCWC 2 cut(s) 480, 1201
BsiSI CCGG 5 cut(s) 145, 177, 486, 560, 1113
BslFI GGGAC 4 cut(s) 299, 332, 361, 792
BslI CCNNNNNNNGG 5 cut(s) 217, 344, 345, 658, 763
BsmFI GGGAC 4 cut(s) 299, 332, 361, 792
BsmI GAATGC 1 cut(s) 574
BsnI GGCC 5 cut(s) 12, 462, 493, 1103, 1159
Bsp119I TTCGAA 1 cut(s) 737
Bsp1286I GDGCHC 3 cut(s) 381, 480, 1201
Bsp13I TCCGGA 1 cut(s) 176
Bsp1407I TGTACA 1 cut(s) 103
Bsp143I GATC 6 cut(s) 88, 186, 387, 411, 432, 504
BspACI CCGC 4 cut(s) 202, 229, 279, 489
BspANI GGCC 5 cut(s) 12, 462, 493, 1103, 1159
BspCNI CTCAG 2 cut(s) 149, 326
BspEI TCCGGA 1 cut(s) 176
BspFNI CGCG 1 cut(s) 402
BspHI TCATGA 1 cut(s) 435
BspLI GGNNCC 6 cut(s) 13, 175, 469, 650, 718, 1111
BspMI ACCTGC 1 cut(s) 805
BspPI GGATC 3 cut(s) 83, 395, 499
BspT104I TTCGAA 1 cut(s) 737
BspT107I GGYRCC 1 cut(s) 1109
BsrDI GCAATG 1 cut(s) 667
BsrGI TGTACA 1 cut(s) 103
BsrI ACTGG 3 cut(s) 80, 508, 1061
BssECI CCNNGG 5 cut(s) 344, 453, 463, 798, 964
BssMI GATC 6 cut(s) 88, 186, 387, 411, 432, 504
Bst2UI CCWGG 5 cut(s) 345, 371, 455, 800, 965
Bst4CI ACNGT 3 cut(s) 623, 785, 1088
Bst6I CTCTTC 1 cut(s) 44
BstAUI TGTACA 1 cut(s) 103
BstBAI YACGTR 2 cut(s) 301, 514
BstBI TTCGAA 1 cut(s) 737
BstC8I GCNNGC 7 cut(s) 200, 240, 472, 476, 491, 557, 875
BstDEI CTNAG 2 cut(s) 136, 313
BstF5I GGATG 3 cut(s) 366, 867, 1030
BstFNI CGCG 1 cut(s) 402
BstHHI GCGC 3 cut(s) 251, 402, 689
BstKTI GATC 6 cut(s) 91, 189, 390, 414, 435, 507
BstMBI GATC 6 cut(s) 88, 186, 387, 411, 432, 504
BstMCI CGRYCG 2 cut(s) 189, 463
BstMWI GCNNNNNNNGC 4 cut(s) 204, 248, 495, 1109
BstNI CCWGG 5 cut(s) 345, 371, 455, 800, 965
BstNSI RCATGY 4 cut(s) 362, 409, 814, 1078
BstSCI CCNGG 7 cut(s) 143, 343, 369, 453, 559, 798, 963
BstSLI GKGCMC 2 cut(s) 480, 1201
BstUI CGCG 1 cut(s) 402
BstX2I RGATCY 1 cut(s) 88
BstYI RGATCY 1 cut(s) 88
BstZI CGGCCG 1 cut(s) 460
BsuRI GGCC 5 cut(s) 12, 462, 493, 1103, 1159
BtsCI GGATG 3 cut(s) 366, 867, 1030
BtsI GCAGTG 2 cut(s) 720, 946
BtsIMutI CAGTG 3 cut(s) 720, 790, 946
BveI ACCTGC 1 cut(s) 805
Cac8I GCNNGC 7 cut(s) 200, 240, 472, 476, 491, 557, 875
CciI TCATGA 1 cut(s) 435
CfoI GCGC 3 cut(s) 251, 402, 689
Cfr13I GGNCC 5 cut(s) 11, 174, 491, 664, 717
CseI GACGC 2 cut(s) 713, 760
Csp6I GTAC 4 cut(s) 104, 113, 511, 925
CviQI GTAC 4 cut(s) 104, 113, 511, 925
DdeI CTNAG 2 cut(s) 136, 313
DpnI GATC 6 cut(s) 90, 188, 389, 413, 434, 506
DpnII GATC 6 cut(s) 88, 186, 387, 411, 432, 504
DrdI GACNNNNNNGTC 1 cut(s) 698
DriI GACNNNNNGTC 1 cut(s) 362
DseDI GACNNNNNNGTC 1 cut(s) 698
EaeI YGGCCR 1 cut(s) 460
EagI CGGCCG 1 cut(s) 460
Eam1104I CTCTTC 1 cut(s) 44
Eam1105I GACNNNNNGTC 1 cut(s) 362
EarI CTCTTC 1 cut(s) 44
EclXI CGGCCG 1 cut(s) 460
Eco24I GRGCYC 1 cut(s) 381
Eco47I GGWCC 3 cut(s) 174, 664, 717
Eco52I CGGCCG 1 cut(s) 460
EcoO109I RGGNCCY 1 cut(s) 11
EcoRII CCWGG 5 cut(s) 343, 369, 453, 798, 963
EcoT22I ATGCAT 1 cut(s) 500
EcoT38I GRGCYC 1 cut(s) 381
FalI AAGNNNNNCTT 2 cut(s) 1147, 1179
FaqI GGGAC 4 cut(s) 299, 332, 361, 792
FauI CCCGC 1 cut(s) 482
FbaI TGATCA 1 cut(s) 432
FblI GTMKAC 1 cut(s) 702
Fnu4HI GCNGC 1 cut(s) 280
FokI GGATG 3 cut(s) 353, 874, 1037
FriOI GRGCYC 1 cut(s) 381
Fsp4HI GCNGC 1 cut(s) 280
FspI TGCGCA 1 cut(s) 250
GlaI GCGC 3 cut(s) 250, 401, 688
GluI GCNGC 1 cut(s) 280
GsaI CCCAGC 1 cut(s) 779
GsuI CTGGAG 1 cut(s) 1078
HaeIII GGCC 5 cut(s) 12, 462, 493, 1103, 1159
HapII CCGG 5 cut(s) 145, 177, 486, 560, 1113
HgaI GACGC 2 cut(s) 713, 760
HhaI GCGC 3 cut(s) 251, 402, 689
Hin6I GCGC 3 cut(s) 249, 400, 687
HinP1I GCGC 3 cut(s) 249, 400, 687
HincII GTYRAC 1 cut(s) 703
HindII GTYRAC 1 cut(s) 703
HindIII AAGCTT 1 cut(s) 1144
HinfI GANTC 4 cut(s) 311, 349, 537, 584
HpaII CCGG 5 cut(s) 145, 177, 486, 560, 1113
HphI GGTGA 8 cut(s) 43, 133, 316, 635, 907, 1021, 1082, 1174
Hpy166II GTNNAC 8 cut(s) 334, 478, 664, 703, 720, 898, 978, 1199
Hpy188I TCNGA 2 cut(s) 619, 1066
Hpy188III TCNNGA 5 cut(s) 86, 92, 177, 436, 448
Hpy8I GTNNAC 8 cut(s) 334, 478, 664, 703, 720, 898, 978, 1199
Hpy99I CGWCG 4 cut(s) 194, 326, 695, 707
HpyAV CCTTC 3 cut(s) 15, 838, 839
HpyCH4III ACNGT 3 cut(s) 623, 785, 1088
HpyCH4IV ACGT 2 cut(s) 300, 513
HpyF10VI GCNNNNNNNGC 4 cut(s) 204, 248, 495, 1109
HpyF3I CTNAG 2 cut(s) 136, 313
HpySE526I ACGT 2 cut(s) 300, 513
HspAI GCGC 3 cut(s) 249, 400, 687
Kpn2I TCCGGA 1 cut(s) 176
Ksp22I TGATCA 1 cut(s) 432
Kzo9I GATC 6 cut(s) 88, 186, 387, 411, 432, 504
LmnI GCTCC 6 cut(s) 120, 427, 467, 648, 677, 1115
LweI GCATC 4 cut(s) 132, 852, 860, 1015
MaeII ACGT 2 cut(s) 300, 513
MaeIII GTNAC 7 cut(s) 139, 304, 514, 581, 817, 1009, 1070
MalI GATC 6 cut(s) 90, 188, 389, 413, 434, 506
MboI GATC 6 cut(s) 88, 186, 387, 411, 432, 504
MboII GAAGA 6 cut(s) 25, 31, 235, 631, 1113, 1155
MfeI CAATTG 2 cut(s) 252, 1204
MflI RGATCY 1 cut(s) 88
MhlI GDGCHC 3 cut(s) 381, 480, 1201
MluCI AATT 6 cut(s) 214, 252, 708, 742, 1048, 1204
MlyI GAGTC 4 cut(s) 305, 343, 531, 578
Mph1103I ATGCAT 1 cut(s) 500
MroI TCCGGA 1 cut(s) 176
MroXI GAANNNNTTC 2 cut(s) 443, 1216
MslI CAYNNNNRTG 1 cut(s) 1023
MspI CCGG 5 cut(s) 145, 177, 486, 560, 1113
MspR9I CCNGG 7 cut(s) 145, 345, 371, 455, 561, 800, 965
MunI CAATTG 2 cut(s) 252, 1204
Mva1269I GAATGC 1 cut(s) 574
MvaI CCWGG 5 cut(s) 345, 371, 455, 800, 965
MvnI CGCG 1 cut(s) 402
MwoI GCNNNNNNNGC 4 cut(s) 204, 248, 495, 1109
NciI CCSGG 2 cut(s) 145, 561
NdeII GATC 6 cut(s) 88, 186, 387, 411, 432, 504
NlaIV GGNNCC 6 cut(s) 13, 175, 469, 650, 718, 1111
NmeAIII GCCGAG 1 cut(s) 488
NmuCI GTSAC 7 cut(s) 139, 304, 514, 581, 817, 1009, 1070
NsbI TGCGCA 1 cut(s) 250
NsiI ATGCAT 1 cut(s) 500
NspI RCATGY 4 cut(s) 362, 409, 814, 1078
NspV TTCGAA 1 cut(s) 737
PagI TCATGA 1 cut(s) 435
PciI ACATGT 2 cut(s) 405, 1074
PcsI WCGNNNNNNNCGW 2 cut(s) 327, 699
PctI GAATGC 1 cut(s) 574
PdmI GAANNNNTTC 2 cut(s) 443, 1216
PfoI TCCNGGA 1 cut(s) 369
PkrI GCNGC 1 cut(s) 281
Ple19I CGATCG 1 cut(s) 189
PleI GAGTC 4 cut(s) 305, 343, 531, 578
PpsI GAGTC 4 cut(s) 305, 343, 531, 578
Ppu21I YACGTR 2 cut(s) 301, 514
PscI ACATGT 2 cut(s) 405, 1074
Psp6I CCWGG 5 cut(s) 343, 369, 453, 798, 963
PspFI CCCAGC 1 cut(s) 775
PspGI CCWGG 5 cut(s) 343, 369, 453, 798, 963
PspN4I GGNNCC 6 cut(s) 13, 175, 469, 650, 718, 1111
PspPI GGNCC 5 cut(s) 11, 174, 491, 664, 717
PsrI GAACNNNNNNTAC 4 cut(s) 87, 119, 890, 922
PsuI RGATCY 1 cut(s) 88
PvuI CGATCG 1 cut(s) 189
RsaI GTAC 4 cut(s) 105, 114, 512, 926
RsaNI GTAC 4 cut(s) 104, 113, 511, 925
RseI CAYNNNNRTG 1 cut(s) 1023
SalI GTCGAC 1 cut(s) 701
SatI GCNGC 1 cut(s) 280
Sau3AI GATC 6 cut(s) 88, 186, 387, 411, 432, 504
Sau96I GGNCC 5 cut(s) 11, 174, 491, 664, 717
SchI GAGTC 4 cut(s) 305, 343, 531, 578
ScrFI CCNGG 7 cut(s) 145, 345, 371, 455, 561, 800, 965
SduI GDGCHC 3 cut(s) 381, 480, 1201
SfaNI GCATC 4 cut(s) 132, 852, 860, 1015
SfuI TTCGAA 1 cut(s) 737
SinI GGWCC 3 cut(s) 174, 664, 717
SmiMI CAYNNNNRTG 1 cut(s) 1023
SmlI CTYRAG 2 cut(s) 419, 1141
SmoI CTYRAG 2 cut(s) 419, 1141
Sse9I AATT 6 cut(s) 214, 252, 708, 742, 1048, 1204
SsiI CCGC 4 cut(s) 202, 229, 279, 489
StyD4I CCNGG 7 cut(s) 143, 343, 369, 453, 559, 798, 963
TaaI ACNGT 3 cut(s) 623, 785, 1088
TaiI ACGT 2 cut(s) 303, 516
TaqI TCGA 6 cut(s) 189, 396, 410, 680, 702, 737
TasI AATT 6 cut(s) 214, 252, 708, 742, 1048, 1204
TatI WGTACW 2 cut(s) 103, 112
TauI GCSGC 1 cut(s) 282
TscAI CASTG 3 cut(s) 727, 790, 946
TseFI GTSAC 7 cut(s) 139, 304, 514, 581, 817, 1009, 1070
Tsp45I GTSAC 7 cut(s) 139, 304, 514, 581, 817, 1009, 1070
TspDTI ATGAA 3 cut(s) 452, 521, 701
TspRI CASTG 3 cut(s) 727, 790, 946
VneI GTGCAC 2 cut(s) 476, 1197
VpaK11BI GGWCC 3 cut(s) 174, 664, 717
XceI RCATGY 4 cut(s) 362, 409, 814, 1078
XmiI GTMKAC 1 cut(s) 702
XmnI GAANNNNTTC 2 cut(s) 443, 1216
Zsp2I ATGCAT 1 cut(s) 500
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.