Rh5AG152700

Polygalacturonase QRT3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0016157
Physical Location & Seq
Reverse (-)
16028906 .. 16033017
4112 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG152700.1

Sequence Viewer

Length: 1422 bp
ATGCTGTTGGTAGAAGAAGCTACATCTATTTCCAGTAGACATGAAATGCTATCATCATTTCAGGCAAAGCTTCATGAAAAATCACTCTCCAGTCCAACCAAACCGCCTCTCTCATCATTGTTCGAAGCTTCCAATGTCACTAGGGATGGGAGAGTGTTTTACCCGATCGGGTACGGGGCAGACCCGACCGGGGCAAATGACAGCACAGAAGCCATAGCAAAAGCTTTGGAGGAAGCTTTTCAGTTGGAAAGCGGGCTTGAAATGCTGCCTGGAATCACTGACTTGGGAGGCATTGTCATTGATCTGCAAGGTGGAAATTACAAGATTGCCCAGCCTTTACGGTTCCCTCCAAACAGAGGCAACATTGTGATACAAGGAGGAACGTTGCGAGCCTCTGAAACATTTCCCGGTGACCGCCACCTAGTCGAATTATGGTCTCCAAATTCTCAAAAGCTTGGGGAAAAAACCTCCATCACCAATCAATTCTTCTTTAATAAAAAAGTCGAAGGCGGTGTAGGAATCTACTACGAAGACATCACCTTTAGAGATATACTATTCGATTCAAGCTTCAGAGGAGGAGGCATTTTCATAGTCGATTCAGCACGAGTTCGCATAACCAATTGCTTCTTCCTACACTTCACAACACAAGGGATTCTAGTCGAAAAGGGCCACGAAACCTACATATCAAACACCTTCTTGGGACAACATTCCACAGTTGGTGGTGACAAAGGTGAGAGGGGATTTACCGGCACAGCCATCGATCTTGCTAGCAATGACAATGCCGTAACTGATGTCGTAATATTTTCAGCTGAAATTGGGATTGTGTTAAGGGGTCAGGCTAACATGGTCACAGGGGTACATTGTTATAACAAGGCAACTGGCTTTGGGGGTATAGGTATTTTGGTAAAGTTAGCAGGAAACTCACAAACTAGGATTGACAATTGCTACTTGGATTTCAATGCTATTGTCATGGAAGACCCAGTTCAAGTTCATGTGACCAATGGGTTCTTTTTGGGTGATGCTAATGTGGTGTTGAAATCTGTCAATGGCAAGATTCTAGGGTTAAATATTGTGAACAATATGTTCACTGGGAACCCTAGAAGTACTGTTCCCATGGTTCAATTAGATGGGCAATTTGGGGACATTGATCAAGTGGTGATTGACCAGAACAATGTGATTGGTATGAGCTTGAAATCAACGGTAGGGAGACTAAGTGTGGAGGGGAATGGGACCAAATGGGTGGCTGATTTTTCTTCCCAGTTGGTCTTTCCCAACCGGATTAATCATTTTCAGTATTCTTTACATACAAAAGGGGAAACCAAGTTTACTACACATGCTGTGACAAATGTATCGAACAATGTGGTGGTTGTGGAGAGTCAAAATGAGGTAGATGGAGTGGTTTCTCTAGTTGTTCACCAGTAG
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

473

Amino Acids

51.29

Weight (kDa)

5.48

Isoelectric Point (pI)

22.16

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) 867
AccI GTMKAC 1 cut(s) 37
AciI CCGC 4 cut(s) 104, 252, 415, 510
AclI AACGTT 1 cut(s) 383
AcsI RAATTY 1 cut(s) 442
AcuI CTGAAG 1 cut(s) 553
AfaI GTAC 3 cut(s) 173, 858, 1105
AfiI CCNNNNNNNGG 2 cut(s) 190, 356
AgsI TTSAA 7 cut(s) 260, 564, 958, 986, 1036, 1121, 1192
AjnI CCWGG 1 cut(s) 268
AjuI GAANNNNNNNTTGG 4 cut(s) 470, 502, 611, 643
AluBI AGCT 9 cut(s) 20, 70, 128, 224, 236, 454, 567, 809, 1188
AluI AGCT 9 cut(s) 20, 70, 128, 224, 236, 454, 567, 809, 1188
Alw26I GTCTC 2 cut(s) 441, 1201
AoxI GGCC 1 cut(s) 667
ApeKI GCWGC 1 cut(s) 265
ApoI RAATTY 1 cut(s) 442
AseI ATTAAT 1 cut(s) 1281
Asp700I GAANNNNTTC 2 cut(s) 237, 402
AspS9I GGNCC 2 cut(s) 667, 1230
AsuC2I CCSGG 2 cut(s) 190, 408
AsuHPI GGTGA 8 cut(s) 422, 466, 529, 734, 743, 1028, 1168, 1406
AsuII TTCGAA 1 cut(s) 123
AsuNHI GCTAGC 1 cut(s) 767
AvaII GGWCC 1 cut(s) 1230
BaeI ACNNNNGTAYC 2 cut(s) 1332, 1365
BauI CACGAG 1 cut(s) 603
BbsI GAAGAC 2 cut(s) 537, 981
BbvI GCAGC 1 cut(s) 252
BccI CCATC 5 cut(s) 140, 479, 764, 1121, 1385
BceAI ACGGC 1 cut(s) 767
BcgI CGANNNNNNTGC 2 cut(s) 739, 773
BciT130I CCWGG 1 cut(s) 270
BclI TGATCA 1 cut(s) 1147
BcnI CCSGG 2 cut(s) 190, 408
BcoDI GTCTC 2 cut(s) 441, 1201
BfaI CTAG 8 cut(s) 141, 422, 656, 768, 930, 1058, 1098, 1406
BisI GCNGC 1 cut(s) 266
BlsI GCNGC 1 cut(s) 267
BmcAI AGTACT 1 cut(s) 1105
Bme1390I CCNGG 3 cut(s) 190, 270, 408
Bme18I GGWCC 1 cut(s) 1230
BmgT120I GGNCC 2 cut(s) 667, 1230
BmiI GGNNCC 3 cut(s) 344, 1094, 1231
BmrFI CCNGG 3 cut(s) 190, 270, 408
BmrI ACTGGG 3 cut(s) 974, 1098, 1252
BmsI GCATC 1 cut(s) 1009
BmtI GCTAGC 1 cut(s) 771
BmuI ACTGGG 3 cut(s) 974, 1098, 1252
BpiI GAAGAC 2 cut(s) 537, 981
BpmI CTGGAG 1 cut(s) 73
Bpu14I TTCGAA 1 cut(s) 123
BpuMI CCSGG 2 cut(s) 190, 408
Bsa29I ATCGAT 1 cut(s) 759
BsaI GGTCTC 1 cut(s) 441
BsaJI CCNNGG 2 cut(s) 189, 1113
BsaWI WCCGGW 1 cut(s) 1275
BsaXI ACNNNNNCTCC 4 cut(s) 279, 309, 1198, 1228
Bsc4I CCNNNNNNNGG 2 cut(s) 190, 356
Bse118I RCCGGY 1 cut(s) 746
Bse1I ACTGG 7 cut(s) 33, 90, 883, 980, 1093, 1258, 1417
Bse3DI GCAATG 1 cut(s) 778
BseBI CCWGG 1 cut(s) 270
BseCI ATCGAT 1 cut(s) 759
BseDI CCNNGG 2 cut(s) 189, 1113
BseGI GGATG 1 cut(s) 151
BseLI CCNNNNNNNGG 2 cut(s) 190, 356
BseMI GCAATG 1 cut(s) 778
BseNI ACTGG 7 cut(s) 33, 90, 883, 980, 1093, 1258, 1417
BseRI GAGGAG 2 cut(s) 588, 591
BseXI GCAGC 1 cut(s) 252
BseYI CCCAGC 1 cut(s) 330
Bsh1285I CGRYCG 2 cut(s) 168, 189
BshFI GGCC 1 cut(s) 669
BshVI ATCGAT 1 cut(s) 759
BsiEI CGRYCG 2 cut(s) 168, 189
BsiSI CCGG 4 cut(s) 189, 408, 747, 1276
BslFI GGGAC 3 cut(s) 714, 1154, 1243
BslI CCNNNNNNNGG 2 cut(s) 190, 356
BsmAI GTCTC 2 cut(s) 441, 1201
BsmFI GGGAC 3 cut(s) 714, 1154, 1243
BsnI GGCC 1 cut(s) 669
Bso31I GGTCTC 1 cut(s) 441
Bsp119I TTCGAA 1 cut(s) 123
Bsp143I GATC 4 cut(s) 165, 301, 760, 1147
Bsp19I CCATGG 1 cut(s) 1113
BspACI CCGC 4 cut(s) 104, 252, 415, 510
BspANI GGCC 1 cut(s) 669
BspDI ATCGAT 1 cut(s) 759
BspHI TCATGA 1 cut(s) 73
BspLI GGNNCC 3 cut(s) 344, 1094, 1231
BspOI GCTAGC 1 cut(s) 771
BspT104I TTCGAA 1 cut(s) 123
BspTNI GGTCTC 1 cut(s) 441
BsrDI GCAATG 1 cut(s) 778
BsrFI RCCGGY 1 cut(s) 746
BsrI ACTGG 7 cut(s) 33, 90, 883, 980, 1093, 1258, 1417
BssAI RCCGGY 1 cut(s) 746
BssECI CCNNGG 2 cut(s) 189, 1113
BssMI GATC 4 cut(s) 165, 301, 760, 1147
BssSI CACGAG 1 cut(s) 603
BssT1I CCWWGG 1 cut(s) 1113
Bst2BI CACGAG 1 cut(s) 603
Bst2UI CCWGG 1 cut(s) 270
Bst4CI ACNGT 4 cut(s) 342, 715, 1108, 1201
BstBI TTCGAA 1 cut(s) 123
BstC8I GCNNGC 3 cut(s) 254, 390, 769
BstDEI CTNAG 1 cut(s) 1211
BstDSI CCRYGG 1 cut(s) 1113
BstEII GGTNACC 1 cut(s) 410
BstF5I GGATG 1 cut(s) 151
BstKTI GATC 4 cut(s) 168, 304, 763, 1150
BstMAI GTCTC 2 cut(s) 441, 1201
BstMBI GATC 4 cut(s) 165, 301, 760, 1147
BstMCI CGRYCG 2 cut(s) 168, 189
BstMWI GCNNNNNNNGC 1 cut(s) 262
BstNI CCWGG 1 cut(s) 270
BstNSI RCATGY 1 cut(s) 1337
BstPI GGTNACC 1 cut(s) 410
BstSCI CCNGG 3 cut(s) 188, 268, 406
BstV1I GCAGC 1 cut(s) 252
BstV2I GAAGAC 2 cut(s) 537, 981
BstXI CCANNNNNNTGG 1 cut(s) 1240
Bsu15I ATCGAT 1 cut(s) 759
BsuRI GGCC 1 cut(s) 669
BsuTUI ATCGAT 1 cut(s) 759
BtgI CCRYGG 1 cut(s) 1113
BtsCI GGATG 1 cut(s) 151
BtsIMutI CAGTG 2 cut(s) 276, 1086
Cac8I GCNNGC 3 cut(s) 254, 390, 769
CciI TCATGA 1 cut(s) 73
Cfr10I RCCGGY 1 cut(s) 746
Cfr13I GGNCC 2 cut(s) 667, 1230
ClaI ATCGAT 1 cut(s) 759
Csp6I GTAC 3 cut(s) 172, 857, 1104
CviAII CATG 7 cut(s) 41, 74, 844, 970, 992, 1114, 1334
CviQI GTAC 3 cut(s) 172, 857, 1104
DdeI CTNAG 1 cut(s) 1211
DpnI GATC 4 cut(s) 167, 303, 762, 1149
DpnII GATC 4 cut(s) 165, 301, 760, 1147
Eco130I CCWWGG 1 cut(s) 1113
Eco31I GGTCTC 1 cut(s) 441
Eco47I GGWCC 1 cut(s) 1230
Eco57I CTGAAG 1 cut(s) 553
Eco91I GGTNACC 1 cut(s) 410
EcoO65I GGTNACC 1 cut(s) 410
EcoRII CCWGG 1 cut(s) 268
EcoT14I CCWWGG 1 cut(s) 1113
ErhI CCWWGG 1 cut(s) 1113
FaeI CATG 7 cut(s) 44, 77, 847, 973, 995, 1117, 1337
FaqI GGGAC 3 cut(s) 714, 1154, 1243
FatI CATG 7 cut(s) 40, 73, 843, 969, 991, 1113, 1333
FauI CCCGC 1 cut(s) 245
FbaI TGATCA 1 cut(s) 1147
FblI GTMKAC 1 cut(s) 37
Fnu4HI GCNGC 1 cut(s) 266
FokI GGATG 1 cut(s) 158
Fsp4HI GCNGC 1 cut(s) 266
FspBI CTAG 8 cut(s) 141, 422, 656, 768, 930, 1058, 1098, 1406
GluI GCNGC 1 cut(s) 266
GsaI CCCAGC 1 cut(s) 334
GsuI CTGGAG 1 cut(s) 73
HaeIII GGCC 1 cut(s) 669
HapII CCGG 4 cut(s) 189, 408, 747, 1276
Hin1II CATG 7 cut(s) 44, 77, 847, 973, 995, 1117, 1337
HindIII AAGCTT 6 cut(s) 68, 126, 222, 234, 452, 565
HinfI GANTC 7 cut(s) 273, 519, 560, 596, 652, 1054, 1375
HpaII CCGG 4 cut(s) 189, 408, 747, 1276
HphI GGTGA 8 cut(s) 422, 466, 529, 734, 743, 1028, 1168, 1406
Hpy166II GTNNAC 5 cut(s) 38, 1075, 1086, 1326, 1414
Hpy188I TCNGA 2 cut(s) 397, 572
Hpy188III TCNNGA 1 cut(s) 74
Hpy8I GTNNAC 5 cut(s) 38, 1075, 1086, 1326, 1414
HpyAV CCTTC 2 cut(s) 500, 703
HpyCH4III ACNGT 4 cut(s) 342, 715, 1108, 1201
HpyCH4IV ACGT 1 cut(s) 383
HpyCH4V TGCA 1 cut(s) 307
HpyF10VI GCNNNNNNNGC 1 cut(s) 262
HpyF3I CTNAG 1 cut(s) 1211
HpySE526I ACGT 1 cut(s) 383
Hsp92II CATG 7 cut(s) 44, 77, 847, 973, 995, 1117, 1337
Ksp22I TGATCA 1 cut(s) 1147
Kzo9I GATC 4 cut(s) 165, 301, 760, 1147
Lsp1109I GCAGC 1 cut(s) 252
LweI GCATC 1 cut(s) 1009
MaeI CTAG 8 cut(s) 141, 422, 656, 768, 930, 1058, 1098, 1406
MaeII ACGT 1 cut(s) 383
MaeIII GTNAC 7 cut(s) 136, 410, 722, 784, 847, 994, 1339
MalI GATC 4 cut(s) 167, 303, 762, 1149
MboI GATC 4 cut(s) 165, 301, 760, 1147
MboII GAAGA 6 cut(s) 26, 478, 542, 619, 986, 1245
MfeI CAATTG 2 cut(s) 619, 940
MluCI AATT 9 cut(s) 316, 428, 442, 482, 619, 813, 940, 1121, 1133
MlyI GAGTC 1 cut(s) 1384
MmeI TCCRAC 2 cut(s) 119, 225
MroXI GAANNNNTTC 2 cut(s) 237, 402
MseI TTAA 4 cut(s) 492, 827, 1064, 1281
MspA1I CMGCKG 1 cut(s) 809
MspI CCGG 4 cut(s) 189, 408, 747, 1276
MspR9I CCNGG 3 cut(s) 190, 270, 408
MunI CAATTG 2 cut(s) 619, 940
MvaI CCWGG 1 cut(s) 270
MwoI GCNNNNNNNGC 1 cut(s) 262
NciI CCSGG 2 cut(s) 190, 408
NcoI CCATGG 1 cut(s) 1113
NdeII GATC 4 cut(s) 165, 301, 760, 1147
NheI GCTAGC 1 cut(s) 767
NlaIII CATG 7 cut(s) 44, 77, 847, 973, 995, 1117, 1337
NlaIV GGNNCC 3 cut(s) 344, 1094, 1231
NmuCI GTSAC 6 cut(s) 136, 410, 722, 847, 994, 1339
NspI RCATGY 1 cut(s) 1337
NspV TTCGAA 1 cut(s) 123
PagI TCATGA 1 cut(s) 73
PdmI GAANNNNTTC 2 cut(s) 237, 402
PfeI GAWTC 6 cut(s) 273, 519, 560, 596, 652, 1054
PkrI GCNGC 1 cut(s) 267
Ple19I CGATCG 1 cut(s) 168
PleI GAGTC 1 cut(s) 1383
PpsI GAGTC 1 cut(s) 1383
PshBI ATTAAT 1 cut(s) 1281
PsiI TTATAA 1 cut(s) 867
Psp1406I AACGTT 1 cut(s) 383
Psp6I CCWGG 1 cut(s) 268
PspEI GGTNACC 1 cut(s) 410
PspFI CCCAGC 1 cut(s) 330
PspGI CCWGG 1 cut(s) 268
PspN4I GGNNCC 3 cut(s) 344, 1094, 1231
PspPI GGNCC 2 cut(s) 667, 1230
PvuI CGATCG 1 cut(s) 168
PvuII CAGCTG 1 cut(s) 809
RsaI GTAC 3 cut(s) 173, 858, 1105
RsaNI GTAC 3 cut(s) 172, 857, 1104
SaqAI TTAA 4 cut(s) 492, 827, 1064, 1281
SatI GCNGC 1 cut(s) 266
Sau3AI GATC 4 cut(s) 165, 301, 760, 1147
Sau96I GGNCC 2 cut(s) 667, 1230
ScaI AGTACT 1 cut(s) 1105
SchI GAGTC 1 cut(s) 1384
ScrFI CCNGG 3 cut(s) 190, 270, 408
SfaNI GCATC 1 cut(s) 1009
SfuI TTCGAA 1 cut(s) 123
SinI GGWCC 1 cut(s) 1230
Sse9I AATT 9 cut(s) 316, 428, 442, 482, 619, 813, 940, 1121, 1133
SsiI CCGC 4 cut(s) 104, 252, 415, 510
SspI AATATT 2 cut(s) 801, 1069
SspMI CTAG 8 cut(s) 141, 422, 656, 768, 930, 1058, 1098, 1406
StyD4I CCNGG 3 cut(s) 188, 268, 406
StyI CCWWGG 1 cut(s) 1113
TaaI ACNGT 4 cut(s) 342, 715, 1108, 1201
TaiI ACGT 1 cut(s) 386
TaqI TCGA 8 cut(s) 123, 426, 504, 558, 594, 660, 759, 1352
TasI AATT 9 cut(s) 316, 428, 442, 482, 619, 813, 940, 1121, 1133
TatI WGTACW 1 cut(s) 1103
TfiI GAWTC 6 cut(s) 273, 519, 560, 596, 652, 1054
Tru1I TTAA 4 cut(s) 492, 827, 1064, 1281
Tru9I TTAA 4 cut(s) 492, 827, 1064, 1281
TscAI CASTG 2 cut(s) 283, 1093
TseFI GTSAC 6 cut(s) 136, 410, 722, 847, 994, 1339
TseI GCWGC 1 cut(s) 265
Tsp45I GTSAC 6 cut(s) 136, 410, 722, 847, 994, 1339
TspDTI ATGAA 5 cut(s) 57, 62, 90, 577, 980
TspRI CASTG 2 cut(s) 283, 1093
VpaK11BI GGWCC 1 cut(s) 1230
VspI ATTAAT 1 cut(s) 1281
XapI RAATTY 1 cut(s) 442
XceI RCATGY 1 cut(s) 1337
XmiI GTMKAC 1 cut(s) 37
XmnI GAANNNNTTC 2 cut(s) 237, 402
XspI CTAG 8 cut(s) 141, 422, 656, 768, 930, 1058, 1098, 1406
ZrmI AGTACT 1 cut(s) 1105
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.