Rw1G010220

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0000702
Physical Location & Seq
Forward (+)
22876158 .. 22880832
4675 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G010220.1

Sequence Viewer

Length: 1071 bp
ATGGAAAATCCCATAAGCCTCATTTTTCTCTCACTTTTTATTGTCTTCATAAACTCAGCCGTATCAACTGCAGTCACTTACAATGTGGCCGATTTAGGAGCCAAACCAGATGGCAAAACTGACTCAACCAAGGCCTTCCCTTCTGGATGGGCCGAAGCTTGTGCCTCGGCCAAGCCCTCGGTCATTTATGTCCCAGCCGGAAGGTTCTTGCTTCGCAATGCGATTTTCAACGGGCCATGCAAGAACAGGGCCATCACGTTTCGCATTGCTGGCACACTCGTCGCCCCTTCAGATTACCAGGTCATAGGAAATGCTGGTAACTGGCTTTTCTTTAGGCATGTGAATGGGGTTACCATCTCCGGTGGAATTCTTGACGGACAAGGCACTGGTTTGTGGGATTGCAAGGCCCCCGGCAAGGTTTGCGCCAGCGGAGCAACTACACTGGAGTTTTCCAACTCGAACAACATTATCGTGAGTGGAGTGACATCCCTAAAAGCCCAAATGTTCCACATAGTCATCAACGGCTGCAACAATGTGAAAGTGCAAGGTGTTAGGGTTTCTGCCTCTGTCCTCGGTCCGGCAACAACTAATCAATGGATTGAAAACGTCGCATGTGGACCCGGCCATGGAATCAGCATTGGGAGTTTAGGCAAGGACCTGGAAGAGGATGGAGTGCAAAATGTAACTGTCAAAACTGTTACATTTACAGGTACTCAAAATGGTTTGAGAATCAAATCAAGGGGAAGACCCAGTACTGGGTTTGCTAAGAACATTCTTTTCCAACATGCTGTCATGTTCAATGTCCGAAATCCGATCGTTATTGATCAAAATTATTGCCCAGGCAAAAAAGGGTGCCCTGGTCAGGTTTCGGGAGTTCAAATTAGTGAAGTGACATATCAAAACATCCACGGCACATCAGCAACACAAGTTACTGTGAAATTCGACTGTAATTCTACTATCTACACACTGGATGATGTGAAGCTCAGTTACAAGAACCAAGCAGCCGAAGCTTCATGTAGCCATGCCGGTGGAACAGCTGTGGGTATGGTTCAGCCGACAAGTTGTTTGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005576 GO:0005618 GO:0005623 GO:0030312 GO:0044464 GO:0071944
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

356

Amino Acids

37.49

Weight (kDa)

8.93

Isoelectric Point (pI)

22.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 28 - 246 3.3e-11 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 54 - 189 1.1e-16 Glycosyl hydrolases family 28
Glyco_hydro_28 PF00295 195 - 340 5.3e-38 Glycosyl hydrolases family 28
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: OG0000702)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G43870 AT3G59850 AT3G59850
fragaria_vesca FvH4_1g00290 FvH4_1g00290 FvH4_1g21842 FvH4_1g21850 FvH4_1g21851
malus_domestica MD00G1070500.v1.1 MD00G1087900.v1.1
prunus_persica Prupe.4G261700_v2.0.a1 Prupe.4G261800_v2.0.a1 Prupe.4G261900_v2.0.a1 Prupe.4G262200_v2.0.a1 Prupe.4G262200_v2.0.a1 Prupe.7G269200_v2.0.a1
pyrus_communis pycom02g00030 pycom03g19680
rosa_chinensis RchiOBHm_Chr2g0084591 RchiOBHm_Chr2g0085391 RchiOBHm_Chr2g0115741 RchiOBHm_Chr2g0115771 RchiOBHm_Chr2g0115801 RchiOBHm_Chr2g0115811 RchiOBHm_Chr2g0115821 RchiOBHm_Chr5g0021021 RchiOBHm_Chr5g0021031
rosa_laevigata RLG00000015683 RLG00000018208 RLG00000018211 RLG00000018212
rosa_multiflora Rmu_co8137638.1_g000001 Rmu_sc0000742.1_g000006 Rmu_sc0004926.1_g000013 Rmu_sc0008355.1_g000010 Rmu_sc0011452.1_g000015 Rmu_ssc0000197.1_g000031 Rmu_ssc0000197.1_g000032 Rmu_ssc0000197.1_g000056
rosa_roxburghii Rroxscaffold_2G00127770 Rroxscaffold_2G00127780 Rroxscaffold_2G00127790 Rroxscaffold_2G00127830 Rroxscaffold_2G00127850 Rroxscaffold_2G00128630 Rroxscaffold_2G00128640 Rroxscaffold_2G00128680 Rroxscaffold_2G00128730 Rroxscaffold_2G00128740
rosa_rugosa Rorug01G0455200 Rorug01G0460100 Rorug02G0199800 Rorug02G0199900
rosa_samantha Rh2BG003000 Rh2BG267500 Rh2BG267700 Rh2BG267800 Rh2BG267900 Rh2CG003400 Rh2CG010000 Rh2CG262800 Rh2CG263200 Rh2CG263300 Rh2CG263400 Rh5CG165700 Rh5CG165800
rosa_wichuraiana Rw0G014320 Rw0G014330 Rw1G010220 Rw2G000800 Rw2G020110 Rw2G020130 Rw2G020150 Rw2G020160

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 852
AciI CCGC 1 cut(s) 429
AcoI YGGCCR 3 cut(s) 87, 168, 622
AcsI RAATTY 2 cut(s) 366, 938
AcuI CTGAAG 1 cut(s) 273
AfaI GTAC 2 cut(s) 712, 754
AfiI CCNNNNNNNGG 7 cut(s) 415, 577, 626, 664, 755, 756, 862
AgsI TTSAA 4 cut(s) 229, 602, 799, 878
AjnI CCWGG 4 cut(s) 297, 657, 838, 856
AluBI AGCT 4 cut(s) 158, 982, 1010, 1037
AluI AGCT 4 cut(s) 158, 982, 1010, 1037
AoxI GGCC 8 cut(s) 87, 132, 150, 168, 233, 249, 405, 622
ApeKI GCWGC 2 cut(s) 525, 1001
ApoI RAATTY 2 cut(s) 366, 938
ArsI GACNNNNNNTTYG 1 cut(s) 1048
AspLEI GCGC 1 cut(s) 425
AspS9I GGNCC 7 cut(s) 150, 233, 249, 406, 575, 617, 655
AsuC2I CCSGG 2 cut(s) 411, 621
AvaII GGWCC 3 cut(s) 575, 617, 655
BaeGI GKGCMC 1 cut(s) 857
BanI GGYRCC 1 cut(s) 852
BarI GAAGNNNNNNTAC 4 cut(s) 736, 768, 971, 1003
BbsI GAAGAC 2 cut(s) 37, 751
BbvI GCAGC 2 cut(s) 512, 1013
BccI CCATC 5 cut(s) 104, 141, 260, 362, 662
BceAI ACGGC 3 cut(s) 44, 538, 925
BcgI CGANNNNNNTGC 4 cut(s) 143, 177, 262, 296
BciT130I CCWGG 4 cut(s) 299, 659, 840, 858
BclI TGATCA 1 cut(s) 823
BcnI CCSGG 2 cut(s) 411, 621
BfmI CTRYAG 1 cut(s) 69
BisI GCNGC 2 cut(s) 526, 1002
BlsI GCNGC 2 cut(s) 527, 1003
BmcAI AGTACT 1 cut(s) 754
Bme1390I CCNGG 6 cut(s) 299, 411, 621, 659, 840, 858
Bme18I GGWCC 3 cut(s) 575, 617, 655
BmgT120I GGNCC 7 cut(s) 150, 233, 249, 406, 575, 617, 655
BmiI GGNNCC 4 cut(s) 100, 408, 619, 854
BmrFI CCNGG 6 cut(s) 299, 411, 621, 659, 840, 858
BmrI ACTGGG 2 cut(s) 744, 765
BmuI ACTGGG 2 cut(s) 744, 765
BpiI GAAGAC 2 cut(s) 37, 751
BpmI CTGGAG 1 cut(s) 464
BpuMI CCSGG 2 cut(s) 411, 621
BsaJI CCNNGG 9 cut(s) 129, 165, 177, 409, 571, 625, 838, 856, 907
BsaWI WCCGGW 1 cut(s) 359
Bsc4I CCNNNNNNNGG 7 cut(s) 415, 577, 626, 664, 755, 756, 862
Bse118I RCCGGY 1 cut(s) 1025
Bse1I ACTGG 6 cut(s) 326, 391, 447, 750, 760, 972
Bse3DI GCAATG 2 cut(s) 223, 264
BseBI CCWGG 4 cut(s) 299, 659, 840, 858
BseDI CCNNGG 9 cut(s) 129, 165, 177, 409, 571, 625, 838, 856, 907
BseGI GGATG 5 cut(s) 152, 485, 673, 903, 976
BseLI CCNNNNNNNGG 7 cut(s) 415, 577, 626, 664, 755, 756, 862
BseMI GCAATG 2 cut(s) 223, 264
BseMII CTCAG 2 cut(s) 69, 997
BseNI ACTGG 6 cut(s) 326, 391, 447, 750, 760, 972
BseSI GKGCMC 1 cut(s) 857
BseXI GCAGC 2 cut(s) 512, 1013
BseYI CCCAGC 1 cut(s) 193
Bsh1285I CGRYCG 1 cut(s) 816
BshFI GGCC 8 cut(s) 89, 134, 152, 170, 235, 251, 407, 624
BshNI GGYRCC 1 cut(s) 852
BsiEI CGRYCG 1 cut(s) 816
BsiSI CCGG 6 cut(s) 198, 360, 411, 578, 621, 1026
BslFI GGGAC 1 cut(s) 176
BslI CCNNNNNNNGG 7 cut(s) 415, 577, 626, 664, 755, 756, 862
BsmFI GGGAC 1 cut(s) 176
BsnI GGCC 8 cut(s) 89, 134, 152, 170, 235, 251, 407, 624
Bsp1286I GDGCHC 1 cut(s) 857
Bsp143I GATC 2 cut(s) 813, 823
Bsp19I CCATGG 1 cut(s) 625
BspACI CCGC 1 cut(s) 429
BspANI GGCC 8 cut(s) 89, 134, 152, 170, 235, 251, 407, 624
BspCNI CTCAG 2 cut(s) 68, 996
BspLI GGNNCC 4 cut(s) 100, 408, 619, 854
BspMAI CTGCAG 1 cut(s) 73
BspT107I GGYRCC 1 cut(s) 852
BsrDI GCAATG 2 cut(s) 223, 264
BsrFI RCCGGY 1 cut(s) 1025
BsrI ACTGG 6 cut(s) 326, 391, 447, 750, 760, 972
BssAI RCCGGY 1 cut(s) 1025
BssECI CCNNGG 9 cut(s) 129, 165, 177, 409, 571, 625, 838, 856, 907
BssMI GATC 2 cut(s) 813, 823
BssT1I CCWWGG 2 cut(s) 129, 625
Bst2UI CCWGG 4 cut(s) 299, 659, 840, 858
Bst4CI ACNGT 4 cut(s) 688, 697, 934, 947
Bst6I CTCTTC 1 cut(s) 657
BstAPI GCANNNNNTGC 1 cut(s) 420
BstC8I GCNNGC 2 cut(s) 271, 427
BstDEI CTNAG 3 cut(s) 55, 765, 983
BstDSI CCRYGG 2 cut(s) 625, 907
BstEII GGTNACC 1 cut(s) 349
BstENI CCTNNNNNAGG 1 cut(s) 662
BstF5I GGATG 5 cut(s) 152, 485, 673, 903, 976
BstHHI GCGC 1 cut(s) 425
BstKTI GATC 2 cut(s) 816, 826
BstMBI GATC 2 cut(s) 813, 823
BstMCI CGRYCG 1 cut(s) 816
BstMWI GCNNNNNNNGC 4 cut(s) 270, 420, 431, 1007
BstNI CCWGG 4 cut(s) 299, 659, 840, 858
BstNSI RCATGY 3 cut(s) 341, 615, 788
BstPI GGTNACC 1 cut(s) 349
BstSCI CCNGG 6 cut(s) 297, 409, 619, 657, 838, 856
BstSFI CTRYAG 1 cut(s) 69
BstSLI GKGCMC 1 cut(s) 857
BstV1I GCAGC 2 cut(s) 512, 1013
BstV2I GAAGAC 2 cut(s) 37, 751
BstXI CCANNNNNNTGG 1 cut(s) 1028
BsuRI GGCC 8 cut(s) 89, 134, 152, 170, 235, 251, 407, 624
BtgI CCRYGG 2 cut(s) 625, 907
BtsCI GGATG 5 cut(s) 152, 485, 673, 903, 976
BtsIMutI CAGTG 3 cut(s) 384, 440, 965
Cac8I GCNNGC 2 cut(s) 271, 427
CfoI GCGC 1 cut(s) 425
Cfr10I RCCGGY 1 cut(s) 1025
Cfr13I GGNCC 7 cut(s) 150, 233, 249, 406, 575, 617, 655
CpoI CGGWCCG 1 cut(s) 575
CsiI ACCWGGT 1 cut(s) 297
Csp6I GTAC 2 cut(s) 711, 753
CspI CGGWCCG 1 cut(s) 575
CviAII CATG 8 cut(s) 237, 338, 612, 626, 785, 793, 1014, 1022
CviQI GTAC 2 cut(s) 711, 753
DdeI CTNAG 3 cut(s) 55, 765, 983
DpnI GATC 2 cut(s) 815, 825
DpnII GATC 2 cut(s) 813, 823
EaeI YGGCCR 3 cut(s) 87, 168, 622
Eam1104I CTCTTC 1 cut(s) 657
EarI CTCTTC 1 cut(s) 657
Eco130I CCWWGG 2 cut(s) 129, 625
Eco147I AGGCCT 1 cut(s) 134
Eco47I GGWCC 3 cut(s) 575, 617, 655
Eco57I CTGAAG 1 cut(s) 273
Eco91I GGTNACC 1 cut(s) 349
EcoNI CCTNNNNNAGG 1 cut(s) 662
EcoO109I RGGNCCY 2 cut(s) 406, 655
EcoO65I GGTNACC 1 cut(s) 349
EcoRI GAATTC 1 cut(s) 366
EcoRII CCWGG 4 cut(s) 297, 657, 838, 856
EcoT14I CCWWGG 2 cut(s) 129, 625
ErhI CCWWGG 2 cut(s) 129, 625
FaeI CATG 8 cut(s) 240, 341, 615, 629, 788, 796, 1017, 1025
FaqI GGGAC 1 cut(s) 176
FatI CATG 8 cut(s) 236, 337, 611, 625, 784, 792, 1013, 1021
FbaI TGATCA 1 cut(s) 823
Fnu4HI GCNGC 2 cut(s) 526, 1002
FokI GGATG 5 cut(s) 159, 472, 680, 890, 983
Fsp4HI GCNGC 2 cut(s) 526, 1002
GlaI GCGC 1 cut(s) 424
GluI GCNGC 2 cut(s) 526, 1002
GsaI CCCAGC 1 cut(s) 197
GsuI CTGGAG 1 cut(s) 464
HaeIII GGCC 8 cut(s) 89, 134, 152, 170, 235, 251, 407, 624
HapII CCGG 6 cut(s) 198, 360, 411, 578, 621, 1026
HhaI GCGC 1 cut(s) 425
Hin1II CATG 8 cut(s) 240, 341, 615, 629, 788, 796, 1017, 1025
Hin6I GCGC 1 cut(s) 423
HinP1I GCGC 1 cut(s) 423
HindIII AAGCTT 2 cut(s) 156, 1008
HinfI GANTC 3 cut(s) 122, 630, 729
HpaII CCGG 6 cut(s) 198, 360, 411, 578, 621, 1026
Hpy166II GTNNAC 1 cut(s) 617
Hpy188I TCNGA 3 cut(s) 292, 806, 813
Hpy188III TCNNGA 4 cut(s) 144, 371, 472, 870
Hpy8I GTNNAC 1 cut(s) 617
Hpy99I CGWCG 2 cut(s) 284, 611
HpyAV CCTTC 4 cut(s) 145, 150, 195, 297
HpyCH4III ACNGT 4 cut(s) 688, 697, 934, 947
HpyCH4IV ACGT 2 cut(s) 257, 606
HpyCH4V TGCA 6 cut(s) 71, 240, 402, 528, 544, 676
HpyF10VI GCNNNNNNNGC 4 cut(s) 270, 420, 431, 1007
HpyF3I CTNAG 3 cut(s) 55, 765, 983
HpySE526I ACGT 2 cut(s) 257, 606
Hsp92II CATG 8 cut(s) 240, 341, 615, 629, 788, 796, 1017, 1025
HspAI GCGC 1 cut(s) 423
Ksp22I TGATCA 1 cut(s) 823
Kzo9I GATC 2 cut(s) 813, 823
LmnI GCTCC 2 cut(s) 98, 431
Lsp1109I GCAGC 2 cut(s) 512, 1013
MabI ACCWGGT 1 cut(s) 297
MaeII ACGT 2 cut(s) 257, 606
MaeIII GTNAC 9 cut(s) 73, 317, 349, 481, 682, 697, 889, 928, 986
MalI GATC 2 cut(s) 815, 825
MboI GATC 2 cut(s) 813, 823
MboII GAAGA 3 cut(s) 37, 674, 756
MhlI GDGCHC 1 cut(s) 857
MluCI AATT 5 cut(s) 366, 829, 879, 938, 949
MlyI GAGTC 1 cut(s) 116
MmeI TCCRAC 2 cut(s) 477, 805
MnlI CCTC 6 cut(s) 29, 175, 187, 574, 581, 658
MslI CAYNNNNRTG 3 cut(s) 342, 470, 1026
MspA1I CMGCKG 2 cut(s) 429, 1037
MspI CCGG 6 cut(s) 198, 360, 411, 578, 621, 1026
MspR9I CCNGG 6 cut(s) 299, 411, 621, 659, 840, 858
MvaI CCWGG 4 cut(s) 299, 659, 840, 858
MwoI GCNNNNNNNGC 4 cut(s) 270, 420, 431, 1007
NciI CCSGG 2 cut(s) 411, 621
NcoI CCATGG 1 cut(s) 625
NdeII GATC 2 cut(s) 813, 823
NlaIII CATG 8 cut(s) 240, 341, 615, 629, 788, 796, 1017, 1025
NlaIV GGNNCC 4 cut(s) 100, 408, 619, 854
NmeAIII GCCGAG 1 cut(s) 146
NmuCI GTSAC 3 cut(s) 73, 481, 889
NspI RCATGY 3 cut(s) 341, 615, 788
PceI AGGCCT 1 cut(s) 134
PfeI GAWTC 2 cut(s) 630, 729
PkrI GCNGC 2 cut(s) 527, 1003
Ple19I CGATCG 1 cut(s) 816
PleI GAGTC 1 cut(s) 116
PpsI GAGTC 1 cut(s) 116
PpuMI RGGWCCY 1 cut(s) 655
Psp5II RGGWCCY 1 cut(s) 655
Psp6I CCWGG 4 cut(s) 297, 657, 838, 856
PspEI GGTNACC 1 cut(s) 349
PspFI CCCAGC 1 cut(s) 193
PspGI CCWGG 4 cut(s) 297, 657, 838, 856
PspN4I GGNNCC 4 cut(s) 100, 408, 619, 854
PspPI GGNCC 7 cut(s) 150, 233, 249, 406, 575, 617, 655
PspPPI RGGWCCY 1 cut(s) 655
PstI CTGCAG 1 cut(s) 73
PvuI CGATCG 1 cut(s) 816
PvuII CAGCTG 1 cut(s) 1037
RsaI GTAC 2 cut(s) 712, 754
RsaNI GTAC 2 cut(s) 711, 753
RseI CAYNNNNRTG 3 cut(s) 342, 470, 1026
Rsr2I CGGWCCG 1 cut(s) 575
RsrII CGGWCCG 1 cut(s) 575
SatI GCNGC 2 cut(s) 526, 1002
Sau3AI GATC 2 cut(s) 813, 823
Sau96I GGNCC 7 cut(s) 150, 233, 249, 406, 575, 617, 655
ScaI AGTACT 1 cut(s) 754
SchI GAGTC 1 cut(s) 116
ScrFI CCNGG 6 cut(s) 299, 411, 621, 659, 840, 858
SduI GDGCHC 1 cut(s) 857
SexAI ACCWGGT 1 cut(s) 297
SfcI CTRYAG 1 cut(s) 69
SinI GGWCC 3 cut(s) 575, 617, 655
SmiMI CAYNNNNRTG 3 cut(s) 342, 470, 1026
Sse9I AATT 5 cut(s) 366, 829, 879, 938, 949
SseBI AGGCCT 1 cut(s) 134
SsiI CCGC 1 cut(s) 429
StuI AGGCCT 1 cut(s) 134
StyD4I CCNGG 6 cut(s) 297, 409, 619, 657, 838, 856
StyI CCWWGG 2 cut(s) 129, 625
TaaI ACNGT 4 cut(s) 688, 697, 934, 947
TaiI ACGT 2 cut(s) 260, 609
TaqI TCGA 2 cut(s) 458, 942
TaqII GACCGA 2 cut(s) 169, 563
TasI AATT 5 cut(s) 366, 829, 879, 938, 949
TatI WGTACW 1 cut(s) 752
TfiI GAWTC 2 cut(s) 630, 729
TscAI CASTG 3 cut(s) 391, 447, 972
TseFI GTSAC 3 cut(s) 73, 481, 889
TseI GCWGC 2 cut(s) 525, 1001
Tsp45I GTSAC 3 cut(s) 73, 481, 889
TspDTI ATGAA 2 cut(s) 37, 1002
TspGWI ACGGA 1 cut(s) 390
TspRI CASTG 3 cut(s) 391, 447, 972
VpaK11BI GGWCC 3 cut(s) 575, 617, 655
XagI CCTNNNNNAGG 1 cut(s) 662
XapI RAATTY 2 cut(s) 366, 938
XceI RCATGY 3 cut(s) 341, 615, 788
ZrmI AGTACT 1 cut(s) 754
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.