Rroxscaffold_1G00057530

Polygalacturonase QRT3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0016157
Physical Location & Seq
Forward (+)
79500246 .. 79504820
4575 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00057530.1

Sequence Viewer

Length: 1260 bp
ATGAGAATGAGACCTGTCTCAGCATTGTGTGGTCTCCTGCTCCTAATGCTATTGGTAGAAGAAGCTACATCTATTTCCAGAAGACATGAAATGCTATCATCATTGCAGGCAAAGCTTCATGAAAAATCACTCTCCAGTCCAACCAGACCGCCTCTCTCATCATTGTTCGAAGCTTCAAATGTCACTAGGGATGGGAGAGTGTTTTACCCGATCGGGTACGGGGCAGACCCAACCGGGGCAAATGACAGCACAGAAGCCATAGCAAAAGCTTTGGAGGAAGCATTTCAGTTGGAAAGCGGGCTTGAAATGCTGCCGGGAATCACTGACTTGGGAGGCATTGTCATTGATCTGCAAGGAATCTACTACGAAGACATCACCTTTAGAGATATACTATTCGATTCAAGCTTCAGAGGAGGAGGCATTTTCATAGTCGATTCTGCTCGAGTTCGCATAACCAATTGCTTCTTCCTACACTTCACAACACAAGGGATTCTAGTCGAAAAGGGCCACGAAACCTACATATCAAACACCTTCTTGGGACAACACTCCACAGTTGGTGGTGACAAAGGTGAGAGGGGATTTAGCGGCACAGGCATCGATCTTGCTAGCAATGACAATGCCGTAACTGATGTCGTAATATTTTCAGCTGAAATTGGGATTGTGTTAAGGGGTCAGGCTAACATGGTCACAGGGGTACATTGTTATAACAAGGCAACTGGCTTTGGGGGTATAGGTATTTTGGTGAAGTTAGCAGGAAACTCACAAACTAGGATTGACAATTGCTACTTGGATTTCAATGCTATTGTCATGGAAGACCCAGTTCAAGTTCATGTGACCAATGGGTTCTTTTTGGGTGATGCTAATGTGGTGTTGAAATCTGTCAATGGCAAGATTCTAGGGTTAAATATTGTGAACAATATGTTCACTGGGAACCCTAGAAGTAATGTTCCCATGGTTCAATTAGATGGGCAATTTGGGGACATTGATCAAGTGGTGATTGACCAGAACAATGTGATTGGGATGAGCTTGAAATCAACGGTAGGGAGACTAAGTGTGGAGGGGAATGGGACCAAATGGGTGGCTGATTTTTCTTCCCAGTTGGTCTTTCCCAACCGGATTAATCATTTTCAGTATTCTTTACATACAAAAGGGGAAACCAAGTTTACTACACATGCTGTGACAAATGTATCGAACAATGTGGTGGTTGTGGAGAGTCAAAATGAGGTAGATTGTGTGGTTTCTCTAGTTGTTCACCAGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Beta_helix

Protein Analysis

419

Amino Acids

45.42

Weight (kDa)

5.28

Isoelectric Point (pI)

20.59

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0016157)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G20040
fragaria_vesca FvH4_3g12830
malus_domestica MD05G1247600.v1.1
prunus_persica Prupe.4G116400_v2.0.a1
pyrus_communis pycom05g22370
rosa_chinensis RchiOBHm_Chr5g0020771
rosa_laevigata RLG00000032561
rosa_multiflora Rmu_sc0002527.1_g000005
rosa_roxburghii Rroxscaffold_1G00057530
rosa_rugosa Rorug05G0062800
rosa_samantha Rh5AG152700 Rh5BG152400 Rh5CG164000 Rh5DG151900
rosa_wichuraiana Rw5G013540

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 705
AciI CCGC 3 cut(s) 149, 297, 585
AcuI CTGAAG 1 cut(s) 391
AfaI GTAC 2 cut(s) 218, 696
AfiI CCNNNNNNNGG 1 cut(s) 235
AgsI TTSAA 8 cut(s) 177, 305, 402, 796, 824, 874, 959, 1030
AjuI GAANNNNNNNTTGG 2 cut(s) 449, 481
AluBI AGCT 7 cut(s) 65, 115, 173, 269, 405, 647, 1026
AluI AGCT 7 cut(s) 65, 115, 173, 269, 405, 647, 1026
Alw26I GTCTC 4 cut(s) 4, 22, 38, 1039
Ama87I CYCGRG 1 cut(s) 441
AoxI GGCC 1 cut(s) 505
ApeKI GCWGC 1 cut(s) 310
AseI ATTAAT 1 cut(s) 1119
Asp700I GAANNNNTTC 1 cut(s) 282
AspS9I GGNCC 2 cut(s) 505, 1068
AsuC2I CCSGG 2 cut(s) 235, 315
AsuHPI GGTGA 7 cut(s) 367, 572, 581, 754, 866, 1006, 1244
AsuII TTCGAA 1 cut(s) 168
AsuNHI GCTAGC 1 cut(s) 605
AvaI CYCGRG 1 cut(s) 441
AvaII GGWCC 1 cut(s) 1068
BaeI ACNNNNGTAYC 2 cut(s) 1170, 1203
BbsI GAAGAC 3 cut(s) 88, 375, 819
BbvI GCAGC 1 cut(s) 297
BccI CCATC 2 cut(s) 185, 959
BceAI ACGGC 1 cut(s) 605
BcgI CGANNNNNNTGC 2 cut(s) 577, 611
BclI TGATCA 1 cut(s) 985
BcnI CCSGG 2 cut(s) 235, 315
BcoDI GTCTC 4 cut(s) 4, 22, 38, 1039
BfaI CTAG 7 cut(s) 186, 494, 606, 768, 896, 936, 1244
BisI GCNGC 2 cut(s) 311, 586
BlsI GCNGC 2 cut(s) 312, 587
Bme1390I CCNGG 2 cut(s) 235, 315
Bme18I GGWCC 1 cut(s) 1068
BmeT110I CYCGRG 1 cut(s) 441
BmgT120I GGNCC 2 cut(s) 505, 1068
BmiI GGNNCC 2 cut(s) 932, 1069
BmrFI CCNGG 2 cut(s) 235, 315
BmrI ACTGGG 3 cut(s) 812, 936, 1090
BmsI GCATC 2 cut(s) 603, 847
BmtI GCTAGC 1 cut(s) 609
BmuI ACTGGG 3 cut(s) 812, 936, 1090
BpiI GAAGAC 3 cut(s) 88, 375, 819
BpmI CTGGAG 1 cut(s) 118
Bpu14I TTCGAA 1 cut(s) 168
BpuMI CCSGG 2 cut(s) 235, 315
Bsa29I ATCGAT 1 cut(s) 597
BsaI GGTCTC 2 cut(s) 4, 38
BsaJI CCNNGG 2 cut(s) 234, 951
BsaWI WCCGGW 1 cut(s) 1113
BsaXI ACNNNNNCTCC 4 cut(s) 324, 354, 1036, 1066
Bsc4I CCNNNNNNNGG 1 cut(s) 235
Bse1I ACTGG 6 cut(s) 135, 721, 818, 931, 1096, 1255
Bse3DI GCAATG 2 cut(s) 101, 616
BseCI ATCGAT 1 cut(s) 597
BseDI CCNNGG 2 cut(s) 234, 951
BseGI GGATG 2 cut(s) 196, 1026
BseLI CCNNNNNNNGG 1 cut(s) 235
BseMI GCAATG 2 cut(s) 101, 616
BseMII CTCAG 1 cut(s) 33
BseNI ACTGG 6 cut(s) 135, 721, 818, 931, 1096, 1255
BseRI GAGGAG 2 cut(s) 426, 429
BseXI GCAGC 1 cut(s) 297
Bsh1285I CGRYCG 1 cut(s) 213
BshFI GGCC 1 cut(s) 507
BshVI ATCGAT 1 cut(s) 597
BsiEI CGRYCG 1 cut(s) 213
BsiHKCI CYCGRG 1 cut(s) 441
BsiSI CCGG 3 cut(s) 234, 314, 1114
BslFI GGGAC 3 cut(s) 552, 992, 1081
BslI CCNNNNNNNGG 1 cut(s) 235
BsmAI GTCTC 4 cut(s) 4, 22, 38, 1039
BsmFI GGGAC 3 cut(s) 552, 992, 1081
BsnI GGCC 1 cut(s) 507
Bso31I GGTCTC 2 cut(s) 4, 38
BsoBI CYCGRG 1 cut(s) 441
Bsp119I TTCGAA 1 cut(s) 168
Bsp143I GATC 4 cut(s) 210, 346, 598, 985
Bsp19I CCATGG 1 cut(s) 951
BspACI CCGC 3 cut(s) 149, 297, 585
BspANI GGCC 1 cut(s) 507
BspCNI CTCAG 1 cut(s) 32
BspDI ATCGAT 1 cut(s) 597
BspHI TCATGA 1 cut(s) 118
BspLI GGNNCC 2 cut(s) 932, 1069
BspOI GCTAGC 1 cut(s) 609
BspT104I TTCGAA 1 cut(s) 168
BspTNI GGTCTC 2 cut(s) 4, 38
BsrDI GCAATG 2 cut(s) 101, 616
BsrI ACTGG 6 cut(s) 135, 721, 818, 931, 1096, 1255
BssECI CCNNGG 2 cut(s) 234, 951
BssMI GATC 4 cut(s) 210, 346, 598, 985
BssT1I CCWWGG 1 cut(s) 951
Bst4CI ACNGT 2 cut(s) 553, 1039
BstBI TTCGAA 1 cut(s) 168
BstC8I GCNNGC 3 cut(s) 108, 299, 607
BstDEI CTNAG 2 cut(s) 19, 1049
BstDSI CCRYGG 1 cut(s) 951
BstF5I GGATG 2 cut(s) 196, 1026
BstKTI GATC 4 cut(s) 213, 349, 601, 988
BstMAI GTCTC 4 cut(s) 4, 22, 38, 1039
BstMBI GATC 4 cut(s) 210, 346, 598, 985
BstMCI CGRYCG 1 cut(s) 213
BstMWI GCNNNNNNNGC 4 cut(s) 46, 112, 307, 591
BstNSI RCATGY 1 cut(s) 1175
BstSCI CCNGG 2 cut(s) 233, 313
BstV1I GCAGC 1 cut(s) 297
BstV2I GAAGAC 3 cut(s) 88, 375, 819
BstXI CCANNNNNNTGG 1 cut(s) 1078
Bsu15I ATCGAT 1 cut(s) 597
BsuRI GGCC 1 cut(s) 507
BsuTUI ATCGAT 1 cut(s) 597
BtgI CCRYGG 1 cut(s) 951
BtsCI GGATG 2 cut(s) 196, 1026
BtsIMutI CAGTG 2 cut(s) 321, 924
Cac8I GCNNGC 3 cut(s) 108, 299, 607
CciI TCATGA 1 cut(s) 118
Cfr13I GGNCC 2 cut(s) 505, 1068
ClaI ATCGAT 1 cut(s) 597
Csp6I GTAC 2 cut(s) 217, 695
CviAII CATG 7 cut(s) 86, 119, 682, 808, 830, 952, 1172
CviQI GTAC 2 cut(s) 217, 695
DdeI CTNAG 2 cut(s) 19, 1049
DpnI GATC 4 cut(s) 212, 348, 600, 987
DpnII GATC 4 cut(s) 210, 346, 598, 985
Eco130I CCWWGG 1 cut(s) 951
Eco31I GGTCTC 2 cut(s) 4, 38
Eco47I GGWCC 1 cut(s) 1068
Eco57I CTGAAG 1 cut(s) 391
Eco88I CYCGRG 1 cut(s) 441
EcoT14I CCWWGG 1 cut(s) 951
ErhI CCWWGG 1 cut(s) 951
FaeI CATG 7 cut(s) 89, 122, 685, 811, 833, 955, 1175
FaqI GGGAC 3 cut(s) 552, 992, 1081
FatI CATG 7 cut(s) 85, 118, 681, 807, 829, 951, 1171
FauI CCCGC 1 cut(s) 290
FbaI TGATCA 1 cut(s) 985
Fnu4HI GCNGC 2 cut(s) 311, 586
FokI GGATG 2 cut(s) 203, 1033
Fsp4HI GCNGC 2 cut(s) 311, 586
FspBI CTAG 7 cut(s) 186, 494, 606, 768, 896, 936, 1244
GluI GCNGC 2 cut(s) 311, 586
GsuI CTGGAG 1 cut(s) 118
HaeIII GGCC 1 cut(s) 507
HapII CCGG 3 cut(s) 234, 314, 1114
Hin1II CATG 7 cut(s) 89, 122, 685, 811, 833, 955, 1175
HindIII AAGCTT 4 cut(s) 113, 171, 267, 403
HinfI GANTC 7 cut(s) 318, 357, 398, 434, 490, 892, 1213
HpaII CCGG 3 cut(s) 234, 314, 1114
HphI GGTGA 7 cut(s) 367, 572, 581, 754, 866, 1006, 1244
Hpy166II GTNNAC 4 cut(s) 913, 924, 1164, 1252
Hpy188I TCNGA 1 cut(s) 410
Hpy188III TCNNGA 2 cut(s) 78, 119
Hpy8I GTNNAC 4 cut(s) 913, 924, 1164, 1252
HpyAV CCTTC 1 cut(s) 541
HpyCH4III ACNGT 2 cut(s) 553, 1039
HpyCH4V TGCA 2 cut(s) 106, 352
HpyF10VI GCNNNNNNNGC 4 cut(s) 46, 112, 307, 591
HpyF3I CTNAG 2 cut(s) 19, 1049
Hsp92II CATG 7 cut(s) 89, 122, 685, 811, 833, 955, 1175
Ksp22I TGATCA 1 cut(s) 985
Kzo9I GATC 4 cut(s) 210, 346, 598, 985
LmnI GCTCC 1 cut(s) 45
Lsp1109I GCAGC 1 cut(s) 297
LweI GCATC 2 cut(s) 603, 847
MaeI CTAG 7 cut(s) 186, 494, 606, 768, 896, 936, 1244
MaeIII GTNAC 6 cut(s) 181, 560, 622, 685, 832, 1177
MalI GATC 4 cut(s) 212, 348, 600, 987
MboI GATC 4 cut(s) 210, 346, 598, 985
MboII GAAGA 6 cut(s) 71, 93, 380, 457, 824, 1083
MfeI CAATTG 2 cut(s) 457, 778
MluCI AATT 5 cut(s) 457, 651, 778, 959, 971
MlyI GAGTC 1 cut(s) 1222
MmeI TCCRAC 2 cut(s) 164, 270
MnlI CCTC 9 cut(s) 162, 268, 326, 404, 407, 410, 567, 1051, 1216
MroXI GAANNNNTTC 1 cut(s) 282
MseI TTAA 3 cut(s) 665, 902, 1119
MspA1I CMGCKG 1 cut(s) 647
MspI CCGG 3 cut(s) 234, 314, 1114
MspR9I CCNGG 2 cut(s) 235, 315
MunI CAATTG 2 cut(s) 457, 778
MwoI GCNNNNNNNGC 4 cut(s) 46, 112, 307, 591
NciI CCSGG 2 cut(s) 235, 315
NcoI CCATGG 1 cut(s) 951
NdeII GATC 4 cut(s) 210, 346, 598, 985
NheI GCTAGC 1 cut(s) 605
NlaIII CATG 7 cut(s) 89, 122, 685, 811, 833, 955, 1175
NlaIV GGNNCC 2 cut(s) 932, 1069
NmuCI GTSAC 5 cut(s) 181, 560, 685, 832, 1177
NspI RCATGY 1 cut(s) 1175
NspV TTCGAA 1 cut(s) 168
PaeR7I CTCGAG 1 cut(s) 441
PagI TCATGA 1 cut(s) 118
PdmI GAANNNNTTC 1 cut(s) 282
PfeI GAWTC 6 cut(s) 318, 357, 398, 434, 490, 892
PkrI GCNGC 2 cut(s) 312, 587
Ple19I CGATCG 1 cut(s) 213
PleI GAGTC 1 cut(s) 1221
PpsI GAGTC 1 cut(s) 1221
PshBI ATTAAT 1 cut(s) 1119
PsiI TTATAA 1 cut(s) 705
PspN4I GGNNCC 2 cut(s) 932, 1069
PspPI GGNCC 2 cut(s) 505, 1068
PspXI VCTCGAGB 1 cut(s) 441
PvuI CGATCG 1 cut(s) 213
PvuII CAGCTG 1 cut(s) 647
RsaI GTAC 2 cut(s) 218, 696
RsaNI GTAC 2 cut(s) 217, 695
SaqAI TTAA 3 cut(s) 665, 902, 1119
SatI GCNGC 2 cut(s) 311, 586
Sau3AI GATC 4 cut(s) 210, 346, 598, 985
Sau96I GGNCC 2 cut(s) 505, 1068
SchI GAGTC 1 cut(s) 1222
ScrFI CCNGG 2 cut(s) 235, 315
SfaNI GCATC 2 cut(s) 603, 847
Sfr274I CTCGAG 1 cut(s) 441
SfuI TTCGAA 1 cut(s) 168
SinI GGWCC 1 cut(s) 1068
SlaI CTCGAG 1 cut(s) 441
SmlI CTYRAG 1 cut(s) 441
SmoI CTYRAG 1 cut(s) 441
Sse9I AATT 5 cut(s) 457, 651, 778, 959, 971
SsiI CCGC 3 cut(s) 149, 297, 585
SspI AATATT 2 cut(s) 639, 907
SspMI CTAG 7 cut(s) 186, 494, 606, 768, 896, 936, 1244
StyD4I CCNGG 2 cut(s) 233, 313
StyI CCWWGG 1 cut(s) 951
TaaI ACNGT 2 cut(s) 553, 1039
TaqI TCGA 7 cut(s) 168, 396, 432, 442, 498, 597, 1190
TasI AATT 5 cut(s) 457, 651, 778, 959, 971
TauI GCSGC 1 cut(s) 588
TfiI GAWTC 6 cut(s) 318, 357, 398, 434, 490, 892
Tru1I TTAA 3 cut(s) 665, 902, 1119
Tru9I TTAA 3 cut(s) 665, 902, 1119
TscAI CASTG 2 cut(s) 328, 931
TseFI GTSAC 5 cut(s) 181, 560, 685, 832, 1177
TseI GCWGC 1 cut(s) 310
Tsp45I GTSAC 5 cut(s) 181, 560, 685, 832, 1177
TspDTI ATGAA 5 cut(s) 102, 107, 135, 415, 818
TspRI CASTG 2 cut(s) 328, 931
VpaK11BI GGWCC 1 cut(s) 1068
VspI ATTAAT 1 cut(s) 1119
XceI RCATGY 1 cut(s) 1175
XhoI CTCGAG 1 cut(s) 441
XmnI GAANNNNTTC 1 cut(s) 282
XspI CTAG 7 cut(s) 186, 494, 606, 768, 896, 936, 1244
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.