Rh5CG164000

Polygalacturonase QRT3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0016157
Physical Location & Seq
Reverse (-)
15182888 .. 15186658
3771 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG164000.1

Sequence Viewer

Length: 1467 bp
ATGAGAATTAGACCTGTCTCAGCATTGTGTGGTCTCCTGCTCCTAATGCTGTTGGTAGAAGAAGCTACATCTATTTCCAGTAGACATGAAATGCTATCATCATTTCAGGCAAAGCTTCATGAAAAATCACTCTCCAGTCCAACCAAACCGCCTCTCTCATCATTGTTCGAAGCTTCCAATGTCACTAGGGATGGGAGAGTGTTTTACCCGATCGGGTACGGGGCAGACCCGACCGGGGCAAATGACAGCACAGAAGCCATAGCAAAAGCTTTGGAGGAAGCTTTTCGGTTGGAAAGCGGGCTTGAAATGCTGCCTGGAATCACTGACTTGGGAGGCATTGTCATTGATCTGCAAGGTGGAAATTACAAGATTGCCCAGCCTTTACGGTTCCCTCCAAACAGAGGCAACATTGTGATACAAGGAGGAACGTTGCGAGCCTCTGAAACATTTCCCGGTGACCGCCACCTAGTCGAATTATGGTCTCCAAATTCTCAAAAGCTTGGGGAAAAAACCTCCATCACCAATCAATTCTTCTTTGATAAAAAAGTCGAAGGCGGTGTAGGAATCTACTACGAAGACATCACCTTTAGAGATATACTATTCGATTCAAGCTTCAGAGGAGGAGGCATTTTCATAGTCGATTCAGCTCGAGTTCGCATAACCAATTGCTTCTTCCTACACTTCACAACACAAGGGATTCTAGTCGAAAAGGGCCACGAAACCTACATATCAAACACCTTCTTGGGACAACACTCCACAGTTGGTGGTGACAAAGGTGAGAGGGGATTTACCGGCACAGCCATCGATCTTGCTAGCAATGACAATGCCGTAACTGATGTCGTAATATTTTCAGCTGAAATTGGGATTGTGTTAAGGGGTCAGGCTAACATGGTCACAGGGGTACATTGTTATAACAAGGCAACTGGCTTTGGGGGTATAGGTATTTTGGTAAAGTTAGCAGGAAACTCACAAACTAGGATTGACAATTGCTACTTGGATTTCAATGCTATTGTCATGGAAGACCCAGTTCAAGTTCATGTGACCAATGGGTTCTTTTTGGGTGATGCTAATGTGGTGTTGAAATCTGTCAATGGCAAGATTCTAGGGTTAAATATTGTGAACAATATGTTCACTGGGAACCCTAAAAGTACTGTTCCCATGGTTCAATTAGATGGGCAATTTGGGGACATTGATCAAGTGGTGATTGACCAGAACAATGTGATTGGGATGAGCTTGAAATCAACGGTAGGGAGACTAAGTGTGAAGGGGAATGGGACCAAATGGCTGGCTGATTTTTCTTCCCAGTTGGTCTTTCCCAACCGGATTAATCATTTTCAGTATTCTTTACATACAAAAGGGGAAACCAAGTTTACTACACATGCTGTGACAAATGTATCGAACAATGTGGTGGTTGTGGAGAGTCAAAATGAGGTAGATGGTGTGGTTTCTCTAGTTGTTCACCAGTAG
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

488

Amino Acids

52.94

Weight (kDa)

5.86

Isoelectric Point (pI)

21.47

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) 912
AccI GTMKAC 1 cut(s) 82
AciI CCGC 4 cut(s) 149, 297, 460, 555
AclI AACGTT 1 cut(s) 428
AcsI RAATTY 1 cut(s) 487
AcuI CTGAAG 1 cut(s) 598
AfaI GTAC 3 cut(s) 218, 903, 1150
AfiI CCNNNNNNNGG 2 cut(s) 235, 401
AgsI TTSAA 7 cut(s) 305, 609, 1003, 1031, 1081, 1166, 1237
AjnI CCWGG 1 cut(s) 313
AjuI GAANNNNNNNTTGG 4 cut(s) 515, 547, 656, 688
Alw26I GTCTC 4 cut(s) 22, 38, 486, 1246
Ama87I CYCGRG 1 cut(s) 648
AoxI GGCC 1 cut(s) 712
ApeKI GCWGC 1 cut(s) 310
ApoI RAATTY 1 cut(s) 487
AseI ATTAAT 1 cut(s) 1326
Asp700I GAANNNNTTC 2 cut(s) 282, 447
AspS9I GGNCC 2 cut(s) 712, 1275
AsuC2I CCSGG 2 cut(s) 235, 453
AsuHPI GGTGA 8 cut(s) 467, 511, 574, 779, 788, 1073, 1213, 1451
AsuII TTCGAA 1 cut(s) 168
AsuNHI GCTAGC 1 cut(s) 812
AvaI CYCGRG 1 cut(s) 648
AvaII GGWCC 1 cut(s) 1275
BaeI ACNNNNGTAYC 2 cut(s) 1377, 1410
BbsI GAAGAC 2 cut(s) 582, 1026
BbvI GCAGC 1 cut(s) 297
BccI CCATC 5 cut(s) 185, 524, 809, 1166, 1430
BceAI ACGGC 1 cut(s) 812
BcgI CGANNNNNNTGC 2 cut(s) 784, 818
BciT130I CCWGG 1 cut(s) 315
BclI TGATCA 1 cut(s) 1192
BcnI CCSGG 2 cut(s) 235, 453
BcoDI GTCTC 4 cut(s) 22, 38, 486, 1246
BfaI CTAG 7 cut(s) 186, 467, 701, 813, 975, 1103, 1451
BisI GCNGC 1 cut(s) 311
BlsI GCNGC 1 cut(s) 312
BmcAI AGTACT 1 cut(s) 1150
Bme1390I CCNGG 3 cut(s) 235, 315, 453
Bme18I GGWCC 1 cut(s) 1275
BmeT110I CYCGRG 1 cut(s) 648
BmgT120I GGNCC 2 cut(s) 712, 1275
BmiI GGNNCC 3 cut(s) 389, 1139, 1276
BmrFI CCNGG 3 cut(s) 235, 315, 453
BmrI ACTGGG 3 cut(s) 1019, 1143, 1297
BmsI GCATC 1 cut(s) 1054
BmtI GCTAGC 1 cut(s) 816
BmuI ACTGGG 3 cut(s) 1019, 1143, 1297
BpiI GAAGAC 2 cut(s) 582, 1026
BpmI CTGGAG 1 cut(s) 118
Bpu14I TTCGAA 1 cut(s) 168
BpuMI CCSGG 2 cut(s) 235, 453
Bsa29I ATCGAT 1 cut(s) 804
BsaI GGTCTC 2 cut(s) 38, 486
BsaJI CCNNGG 2 cut(s) 234, 1158
BsaWI WCCGGW 1 cut(s) 1320
BsaXI ACNNNNNCTCC 4 cut(s) 324, 354, 1243, 1273
Bsc4I CCNNNNNNNGG 2 cut(s) 235, 401
Bse118I RCCGGY 1 cut(s) 791
Bse1I ACTGG 7 cut(s) 78, 135, 928, 1025, 1138, 1303, 1462
Bse3DI GCAATG 1 cut(s) 823
BseBI CCWGG 1 cut(s) 315
BseCI ATCGAT 1 cut(s) 804
BseDI CCNNGG 2 cut(s) 234, 1158
BseGI GGATG 2 cut(s) 196, 1233
BseLI CCNNNNNNNGG 2 cut(s) 235, 401
BseMI GCAATG 1 cut(s) 823
BseMII CTCAG 1 cut(s) 33
BseNI ACTGG 7 cut(s) 78, 135, 928, 1025, 1138, 1303, 1462
BseRI GAGGAG 2 cut(s) 633, 636
BseXI GCAGC 1 cut(s) 297
BseYI CCCAGC 1 cut(s) 375
Bsh1285I CGRYCG 2 cut(s) 213, 234
BshFI GGCC 1 cut(s) 714
BshVI ATCGAT 1 cut(s) 804
BsiEI CGRYCG 2 cut(s) 213, 234
BsiHKCI CYCGRG 1 cut(s) 648
BsiSI CCGG 4 cut(s) 234, 453, 792, 1321
BslFI GGGAC 3 cut(s) 759, 1199, 1288
BslI CCNNNNNNNGG 2 cut(s) 235, 401
BsmAI GTCTC 4 cut(s) 22, 38, 486, 1246
BsmFI GGGAC 3 cut(s) 759, 1199, 1288
BsnI GGCC 1 cut(s) 714
Bso31I GGTCTC 2 cut(s) 38, 486
BsoBI CYCGRG 1 cut(s) 648
Bsp119I TTCGAA 1 cut(s) 168
Bsp143I GATC 4 cut(s) 210, 346, 805, 1192
Bsp19I CCATGG 1 cut(s) 1158
BspACI CCGC 4 cut(s) 149, 297, 460, 555
BspANI GGCC 1 cut(s) 714
BspCNI CTCAG 1 cut(s) 32
BspDI ATCGAT 1 cut(s) 804
BspHI TCATGA 1 cut(s) 118
BspLI GGNNCC 3 cut(s) 389, 1139, 1276
BspOI GCTAGC 1 cut(s) 816
BspT104I TTCGAA 1 cut(s) 168
BspTNI GGTCTC 2 cut(s) 38, 486
BsrDI GCAATG 1 cut(s) 823
BsrFI RCCGGY 1 cut(s) 791
BsrI ACTGG 7 cut(s) 78, 135, 928, 1025, 1138, 1303, 1462
BssAI RCCGGY 1 cut(s) 791
BssECI CCNNGG 2 cut(s) 234, 1158
BssMI GATC 4 cut(s) 210, 346, 805, 1192
BssT1I CCWWGG 1 cut(s) 1158
Bst2UI CCWGG 1 cut(s) 315
Bst4CI ACNGT 4 cut(s) 387, 760, 1153, 1246
BstBI TTCGAA 1 cut(s) 168
BstC8I GCNNGC 4 cut(s) 299, 435, 814, 1287
BstDEI CTNAG 2 cut(s) 19, 1256
BstDSI CCRYGG 1 cut(s) 1158
BstEII GGTNACC 1 cut(s) 455
BstF5I GGATG 2 cut(s) 196, 1233
BstKTI GATC 4 cut(s) 213, 349, 808, 1195
BstMAI GTCTC 4 cut(s) 22, 38, 486, 1246
BstMBI GATC 4 cut(s) 210, 346, 805, 1192
BstMCI CGRYCG 2 cut(s) 213, 234
BstMWI GCNNNNNNNGC 2 cut(s) 46, 307
BstNI CCWGG 1 cut(s) 315
BstNSI RCATGY 1 cut(s) 1382
BstPI GGTNACC 1 cut(s) 455
BstSCI CCNGG 3 cut(s) 233, 313, 451
BstV1I GCAGC 1 cut(s) 297
BstV2I GAAGAC 2 cut(s) 582, 1026
BstXI CCANNNNNNTGG 1 cut(s) 1285
Bsu15I ATCGAT 1 cut(s) 804
BsuRI GGCC 1 cut(s) 714
BsuTUI ATCGAT 1 cut(s) 804
BtgI CCRYGG 1 cut(s) 1158
BtsCI GGATG 2 cut(s) 196, 1233
BtsIMutI CAGTG 2 cut(s) 321, 1131
Cac8I GCNNGC 4 cut(s) 299, 435, 814, 1287
CciI TCATGA 1 cut(s) 118
Cfr10I RCCGGY 1 cut(s) 791
Cfr13I GGNCC 2 cut(s) 712, 1275
ClaI ATCGAT 1 cut(s) 804
Csp6I GTAC 3 cut(s) 217, 902, 1149
CviAII CATG 7 cut(s) 86, 119, 889, 1015, 1037, 1159, 1379
CviQI GTAC 3 cut(s) 217, 902, 1149
DdeI CTNAG 2 cut(s) 19, 1256
DpnI GATC 4 cut(s) 212, 348, 807, 1194
DpnII GATC 4 cut(s) 210, 346, 805, 1192
Eco130I CCWWGG 1 cut(s) 1158
Eco31I GGTCTC 2 cut(s) 38, 486
Eco47I GGWCC 1 cut(s) 1275
Eco57I CTGAAG 1 cut(s) 598
Eco88I CYCGRG 1 cut(s) 648
Eco91I GGTNACC 1 cut(s) 455
EcoO65I GGTNACC 1 cut(s) 455
EcoRII CCWGG 1 cut(s) 313
EcoT14I CCWWGG 1 cut(s) 1158
ErhI CCWWGG 1 cut(s) 1158
FaeI CATG 7 cut(s) 89, 122, 892, 1018, 1040, 1162, 1382
FaqI GGGAC 3 cut(s) 759, 1199, 1288
FatI CATG 7 cut(s) 85, 118, 888, 1014, 1036, 1158, 1378
FauI CCCGC 1 cut(s) 290
FbaI TGATCA 1 cut(s) 1192
FblI GTMKAC 1 cut(s) 82
Fnu4HI GCNGC 1 cut(s) 311
FokI GGATG 2 cut(s) 203, 1240
Fsp4HI GCNGC 1 cut(s) 311
FspBI CTAG 7 cut(s) 186, 467, 701, 813, 975, 1103, 1451
GluI GCNGC 1 cut(s) 311
GsaI CCCAGC 1 cut(s) 379
GsuI CTGGAG 1 cut(s) 118
HaeIII GGCC 1 cut(s) 714
HapII CCGG 4 cut(s) 234, 453, 792, 1321
Hin1II CATG 7 cut(s) 89, 122, 892, 1018, 1040, 1162, 1382
HindIII AAGCTT 6 cut(s) 113, 171, 267, 279, 497, 610
HinfI GANTC 7 cut(s) 318, 564, 605, 641, 697, 1099, 1420
HpaII CCGG 4 cut(s) 234, 453, 792, 1321
HphI GGTGA 8 cut(s) 467, 511, 574, 779, 788, 1073, 1213, 1451
Hpy166II GTNNAC 5 cut(s) 83, 1120, 1131, 1371, 1459
Hpy188I TCNGA 2 cut(s) 442, 617
Hpy188III TCNNGA 1 cut(s) 119
Hpy8I GTNNAC 5 cut(s) 83, 1120, 1131, 1371, 1459
HpyAV CCTTC 3 cut(s) 545, 748, 1258
HpyCH4III ACNGT 4 cut(s) 387, 760, 1153, 1246
HpyCH4IV ACGT 1 cut(s) 428
HpyCH4V TGCA 1 cut(s) 352
HpyF10VI GCNNNNNNNGC 2 cut(s) 46, 307
HpyF3I CTNAG 2 cut(s) 19, 1256
HpySE526I ACGT 1 cut(s) 428
Hsp92II CATG 7 cut(s) 89, 122, 892, 1018, 1040, 1162, 1382
Ksp22I TGATCA 1 cut(s) 1192
Kzo9I GATC 4 cut(s) 210, 346, 805, 1192
LmnI GCTCC 1 cut(s) 45
Lsp1109I GCAGC 1 cut(s) 297
LweI GCATC 1 cut(s) 1054
MaeI CTAG 7 cut(s) 186, 467, 701, 813, 975, 1103, 1451
MaeII ACGT 1 cut(s) 428
MaeIII GTNAC 7 cut(s) 181, 455, 767, 829, 892, 1039, 1384
MalI GATC 4 cut(s) 212, 348, 807, 1194
MboI GATC 4 cut(s) 210, 346, 805, 1192
MboII GAAGA 6 cut(s) 71, 523, 587, 664, 1031, 1290
MfeI CAATTG 2 cut(s) 664, 985
MlyI GAGTC 1 cut(s) 1429
MmeI TCCRAC 2 cut(s) 164, 270
MroXI GAANNNNTTC 2 cut(s) 282, 447
MseI TTAA 3 cut(s) 872, 1109, 1326
MspA1I CMGCKG 1 cut(s) 854
MspI CCGG 4 cut(s) 234, 453, 792, 1321
MspR9I CCNGG 3 cut(s) 235, 315, 453
MunI CAATTG 2 cut(s) 664, 985
MvaI CCWGG 1 cut(s) 315
MwoI GCNNNNNNNGC 2 cut(s) 46, 307
NciI CCSGG 2 cut(s) 235, 453
NcoI CCATGG 1 cut(s) 1158
NdeII GATC 4 cut(s) 210, 346, 805, 1192
NheI GCTAGC 1 cut(s) 812
NlaIII CATG 7 cut(s) 89, 122, 892, 1018, 1040, 1162, 1382
NlaIV GGNNCC 3 cut(s) 389, 1139, 1276
NmuCI GTSAC 6 cut(s) 181, 455, 767, 892, 1039, 1384
NspI RCATGY 1 cut(s) 1382
NspV TTCGAA 1 cut(s) 168
PaeR7I CTCGAG 1 cut(s) 648
PagI TCATGA 1 cut(s) 118
PdmI GAANNNNTTC 2 cut(s) 282, 447
PfeI GAWTC 6 cut(s) 318, 564, 605, 641, 697, 1099
PkrI GCNGC 1 cut(s) 312
Ple19I CGATCG 1 cut(s) 213
PleI GAGTC 1 cut(s) 1428
PpsI GAGTC 1 cut(s) 1428
PshBI ATTAAT 1 cut(s) 1326
PsiI TTATAA 1 cut(s) 912
Psp1406I AACGTT 1 cut(s) 428
Psp6I CCWGG 1 cut(s) 313
PspEI GGTNACC 1 cut(s) 455
PspFI CCCAGC 1 cut(s) 375
PspGI CCWGG 1 cut(s) 313
PspN4I GGNNCC 3 cut(s) 389, 1139, 1276
PspPI GGNCC 2 cut(s) 712, 1275
PspXI VCTCGAGB 1 cut(s) 648
PvuI CGATCG 1 cut(s) 213
PvuII CAGCTG 1 cut(s) 854
RsaI GTAC 3 cut(s) 218, 903, 1150
RsaNI GTAC 3 cut(s) 217, 902, 1149
SaqAI TTAA 3 cut(s) 872, 1109, 1326
SatI GCNGC 1 cut(s) 311
Sau3AI GATC 4 cut(s) 210, 346, 805, 1192
Sau96I GGNCC 2 cut(s) 712, 1275
ScaI AGTACT 1 cut(s) 1150
SchI GAGTC 1 cut(s) 1429
ScrFI CCNGG 3 cut(s) 235, 315, 453
SfaNI GCATC 1 cut(s) 1054
Sfr274I CTCGAG 1 cut(s) 648
SfuI TTCGAA 1 cut(s) 168
SinI GGWCC 1 cut(s) 1275
SlaI CTCGAG 1 cut(s) 648
SmlI CTYRAG 1 cut(s) 648
SmoI CTYRAG 1 cut(s) 648
SsiI CCGC 4 cut(s) 149, 297, 460, 555
SspI AATATT 2 cut(s) 846, 1114
SspMI CTAG 7 cut(s) 186, 467, 701, 813, 975, 1103, 1451
StyD4I CCNGG 3 cut(s) 233, 313, 451
StyI CCWWGG 1 cut(s) 1158
TaaI ACNGT 4 cut(s) 387, 760, 1153, 1246
TaiI ACGT 1 cut(s) 431
TaqI TCGA 9 cut(s) 168, 471, 549, 603, 639, 649, 705, 804, 1397
TatI WGTACW 1 cut(s) 1148
TfiI GAWTC 6 cut(s) 318, 564, 605, 641, 697, 1099
Tru1I TTAA 3 cut(s) 872, 1109, 1326
Tru9I TTAA 3 cut(s) 872, 1109, 1326
TscAI CASTG 2 cut(s) 328, 1138
TseFI GTSAC 6 cut(s) 181, 455, 767, 892, 1039, 1384
TseI GCWGC 1 cut(s) 310
Tsp45I GTSAC 6 cut(s) 181, 455, 767, 892, 1039, 1384
TspDTI ATGAA 5 cut(s) 102, 107, 135, 622, 1025
TspRI CASTG 2 cut(s) 328, 1138
VpaK11BI GGWCC 1 cut(s) 1275
VspI ATTAAT 1 cut(s) 1326
XapI RAATTY 1 cut(s) 487
XceI RCATGY 1 cut(s) 1382
XhoI CTCGAG 1 cut(s) 648
XmiI GTMKAC 1 cut(s) 82
XmnI GAANNNNTTC 2 cut(s) 282, 447
XspI CTAG 7 cut(s) 186, 467, 701, 813, 975, 1103, 1451
ZrmI AGTACT 1 cut(s) 1150
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.