Rh3AG277500

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0012763
Physical Location & Seq
Reverse (-)
32103188 .. 32105044
1857 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG277500.1

Sequence Viewer

Length: 1164 bp
ATGAAGAAGCTTTCCAAATTGTCACTAATGTGCGTTTTATTCTTTGGCTTCTTTCTTCTGTCAACCCAAGCCAGATGGCATAACCATACCAAACACAGCAAGCACAACCACCCTCACAGGATTTCTTACATTTCACAGCCTCCTTCCACTTCACCTGGACCTACAGCTAGTTATAGTCCTCCTCCCGAAGAGCCTAAGAATCCATACAACTCTACACCTGGTGTTTTTGATGTTCGATCATATGGGGCTGTTGGGGATGGCCAAACAGATGACACACAGGCATTGAAGATGGCTTGGGACACAGCCTGCCAAAGTGAATCACCAGCAAAGATACTTGTTCCGAACCATTTCACATTCATGATTCAGTCCACAATATTTACCGGTCCCTGCCTTTCAGGCCTGGTGTTACAGGTTGATGGGACTATAGTACCACCTGATGGACCAGAGTCCTGGCCAAAAAACAACAGCAGGCGCCAATGGCTCGTCTTTTATCGAATCAACGAGATGTCGCTGCAAGGGGGTGGTGTTATAGATGGGAGAGGAGACAAATGGTGGCATCTTCCCTGCAAACCCCACATGGGGATAAATGGAACCACCTTGCCCGGACCATGTGATAGCCCAGTTGTAAGTTGCAAAGTTTTGTTCTATGTAACGTTAGCCAACATTGGGAGTCTAGGAAACCACAACTCGCGAGCATGTGTGAAAAATATTACAGTTCGAGACTCAATAATTAGAGTTTCGGATAATGGAGTTCGGATCAAGACATGGCAGGGTGGATCCGGAGCAGTATCTGGAGTAACATTCAGTAACATTCACATGGACAATGTTAGGAACCCGATAATGATTGATCAATTTTACTGCCCTACTAAGAAGTGCATCAATCAAACTGCAGCGGTATATGTATCGGACATCCTATACTTGGGCATAAAGGGAACCTATGATGTCCGGAATGCTCCAATGCATTTTGCCTGCAGTGATTCTCTGCCATGCACTAACTTAACACTCTCAGATGTTGAGCTTCTTCCTGCTGTAGGAGATATGATGTCAGACCCTTATTGTTGGAATGCTTATGGACAACTGCAAACGCTTACTATTCCGCCGGTCTCTTGCTTGTTGGAGGGTACTCCTAGATCTGTACTGAGCGATGAAATAGACCATTGCTGA

Protein Analysis

387

Amino Acids

42.55

Weight (kDa)

7.55

Isoelectric Point (pI)

55.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 103 - 190 9.9e-10 Glycosyl hydrolases family 28
Glyco_hydro_28 PF00295 222 - 341 5.6e-36 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: OG0012763)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G02460
fragaria_vesca FvH4_1g26650
malus_domestica MD09G1287300.v1.1 MD17G1279500.v1.1
prunus_persica Prupe.3G005900_v2.0.a1 Prupe.6G307200_v2.0.a1
pyrus_communis pycom09g19460 pycom17g27760
rosa_chinensis RchiOBHm_Chr3g0486841
rosa_laevigata RLG00000023055
rosa_multiflora Rmu_sc0005709.1_g000005
rosa_roxburghii Rroxscaffold_6G00395520
rosa_rugosa Rorug03G0227400.1
rosa_samantha Rh3AG277500 Rh3BG312600 Rh3CG311500 Rh3DG308100
rosa_wichuraiana Rw3G024640

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 471
AccB7I CCANNNNNTGG 1 cut(s) 437
AccII CGCG 1 cut(s) 691
AccIII TCCGGA 2 cut(s) 779, 945
AciI CCGC 2 cut(s) 893, 1097
AclI AACGTT 1 cut(s) 653
AclWI GGATC 3 cut(s) 764, 771, 784
AcoI YGGCCR 2 cut(s) 259, 452
AcyI GRCGYC 1 cut(s) 472
AdeI CACNNNGTG 1 cut(s) 221
AfaI GTAC 3 cut(s) 429, 1123, 1137
AfiI CCNNNNNNNGG 6 cut(s) 437, 578, 579, 666, 919, 1031
AgeI ACCGGT 1 cut(s) 380
AgsI TTSAA 1 cut(s) 286
AjnI CCWGG 4 cut(s) 154, 217, 399, 449
AleI CACNNNNGTG 1 cut(s) 28
AluBI AGCT 3 cut(s) 10, 167, 1018
AluI AGCT 3 cut(s) 10, 167, 1018
Alw26I GTCTC 3 cut(s) 537, 714, 1108
AlwI GGATC 3 cut(s) 764, 771, 784
AlwNI CAGNNNCTG 1 cut(s) 791
Aor13HI TCCGGA 2 cut(s) 779, 945
AoxI GGCC 3 cut(s) 259, 397, 452
ApeKI GCWGC 2 cut(s) 511, 890
AsiGI ACCGGT 1 cut(s) 380
Asp700I GAANNNNTTC 1 cut(s) 347
AspLEI GCGC 1 cut(s) 474
AspS9I GGNCC 4 cut(s) 158, 383, 440, 605
AsuC2I CCSGG 1 cut(s) 603
AsuHPI GGTGA 2 cut(s) 144, 312
AvaII GGWCC 4 cut(s) 158, 383, 440, 605
BaeI ACNNNNGTAYC 2 cut(s) 411, 444
BalI TGGCCA 2 cut(s) 261, 454
BamHI GGATCC 1 cut(s) 776
BanI GGYRCC 1 cut(s) 471
BbvI GCAGC 2 cut(s) 498, 902
BccI CCATC 6 cut(s) 69, 251, 283, 410, 431, 527
BciT130I CCWGG 4 cut(s) 156, 219, 401, 451
BclI TGATCA 1 cut(s) 847
BcnI CCSGG 1 cut(s) 603
BcoDI GTCTC 3 cut(s) 537, 714, 1108
BfaI CTAG 3 cut(s) 168, 674, 1128
BfmI CTRYAG 5 cut(s) 162, 423, 888, 970, 1029
BfoI RGCGCY 1 cut(s) 475
BglI GCCNNNNNGGC 1 cut(s) 396
BglII AGATCT 1 cut(s) 1130
BisI GCNGC 2 cut(s) 512, 891
BlsI GCNGC 2 cut(s) 513, 892
Bme1390I CCNGG 5 cut(s) 156, 219, 401, 451, 603
Bme18I GGWCC 4 cut(s) 158, 383, 440, 605
BmgT120I GGNCC 4 cut(s) 158, 383, 440, 605
BmiI GGNNCC 6 cut(s) 385, 473, 592, 778, 833, 934
BmrFI CCNGG 5 cut(s) 156, 219, 401, 451, 603
BmrI ACTGGG 1 cut(s) 614
BmsI GCATC 2 cut(s) 565, 885
BmuI ACTGGG 1 cut(s) 614
BoxI GACNNNNGTC 1 cut(s) 445
BpmI CTGGAG 1 cut(s) 813
BpuMI CCSGG 1 cut(s) 603
BsaHI GRCGYC 1 cut(s) 472
BsaI GGTCTC 1 cut(s) 1108
BsaWI WCCGGW 3 cut(s) 380, 779, 945
Bsc4I CCNNNNNNNGG 6 cut(s) 437, 578, 579, 666, 919, 1031
Bse118I RCCGGY 2 cut(s) 380, 1099
Bse1I ACTGG 1 cut(s) 620
Bse3DI GCAATG 1 cut(s) 1156
BseAI TCCGGA 2 cut(s) 779, 945
BseBI CCWGG 4 cut(s) 156, 219, 401, 451
BseGI GGATG 2 cut(s) 262, 909
BseLI CCNNNNNNNGG 6 cut(s) 437, 578, 579, 666, 919, 1031
BseMI GCAATG 1 cut(s) 1156
BseMII CTCAG 2 cut(s) 1020, 1130
BseNI ACTGG 1 cut(s) 620
BseRI GAGGAG 2 cut(s) 171, 555
BseXI GCAGC 2 cut(s) 498, 902
Bsh1236I CGCG 1 cut(s) 691
BshFI GGCC 3 cut(s) 261, 399, 454
BshNI GGYRCC 1 cut(s) 471
BshTI ACCGGT 1 cut(s) 380
BsiSI CCGG 5 cut(s) 381, 603, 780, 946, 1100
BslFI GGGAC 3 cut(s) 311, 369, 433
BslI CCNNNNNNNGG 6 cut(s) 437, 578, 579, 666, 919, 1031
BsmAI GTCTC 3 cut(s) 537, 714, 1108
BsmFI GGGAC 3 cut(s) 311, 369, 433
BsmI GAATGC 2 cut(s) 955, 1069
BsnI GGCC 3 cut(s) 261, 399, 454
Bso31I GGTCTC 1 cut(s) 1108
Bsp13I TCCGGA 2 cut(s) 779, 945
Bsp143I GATC 5 cut(s) 236, 756, 776, 847, 1130
Bsp68I TCGCGA 1 cut(s) 691
BspACI CCGC 2 cut(s) 893, 1097
BspANI GGCC 3 cut(s) 261, 399, 454
BspCNI CTCAG 2 cut(s) 1019, 1131
BspEI TCCGGA 2 cut(s) 779, 945
BspFNI CGCG 1 cut(s) 691
BspHI TCATGA 1 cut(s) 357
BspLI GGNNCC 6 cut(s) 385, 473, 592, 778, 833, 934
BspMAI CTGCAG 2 cut(s) 892, 974
BspPI GGATC 3 cut(s) 764, 771, 784
BspQI GCTCTTC 1 cut(s) 183
BspT107I GGYRCC 1 cut(s) 471
BspTNI GGTCTC 1 cut(s) 1108
BsrDI GCAATG 1 cut(s) 1156
BsrFI RCCGGY 2 cut(s) 380, 1099
BsrI ACTGG 1 cut(s) 620
BssAI RCCGGY 2 cut(s) 380, 1099
BssMI GATC 5 cut(s) 236, 756, 776, 847, 1130
BssNI GRCGYC 1 cut(s) 472
Bst2UI CCWGG 4 cut(s) 156, 219, 401, 451
Bst4CI ACNGT 1 cut(s) 715
Bst6I CTCTTC 1 cut(s) 183
BstACI GRCGYC 1 cut(s) 472
BstC8I GCNNGC 5 cut(s) 101, 307, 470, 693, 970
BstDEI CTNAG 4 cut(s) 195, 867, 1006, 1139
BstENI CCTNNNNNAGG 1 cut(s) 1029
BstF5I GGATG 2 cut(s) 262, 909
BstFNI CGCG 1 cut(s) 691
BstH2I RGCGCY 1 cut(s) 475
BstHHI GCGC 1 cut(s) 474
BstKTI GATC 5 cut(s) 239, 759, 779, 850, 1133
BstMAI GTCTC 3 cut(s) 537, 714, 1108
BstMBI GATC 5 cut(s) 236, 756, 776, 847, 1130
BstMWI GCNNNNNNNGC 2 cut(s) 396, 478
BstNI CCWGG 4 cut(s) 156, 219, 401, 451
BstNSI RCATGY 1 cut(s) 699
BstPAI GACNNNNGTC 1 cut(s) 445
BstSCI CCNGG 5 cut(s) 154, 217, 399, 449, 601
BstSFI CTRYAG 5 cut(s) 162, 423, 888, 970, 1029
BstUI CGCG 1 cut(s) 691
BstV1I GCAGC 2 cut(s) 498, 902
BstX2I RGATCY 2 cut(s) 776, 1130
BstXI CCANNNNNNTGG 1 cut(s) 450
BstYI RGATCY 2 cut(s) 776, 1130
BsuRI GGCC 3 cut(s) 261, 399, 454
BtgZI GCGATG 1 cut(s) 1158
BtsCI GGATG 2 cut(s) 262, 909
BtsI GCAGTG 1 cut(s) 979
BtsIMutI CAGTG 1 cut(s) 979
BtuMI TCGCGA 1 cut(s) 691
Cac8I GCNNGC 5 cut(s) 101, 307, 470, 693, 970
CaiI CAGNNNCTG 1 cut(s) 791
CciI TCATGA 1 cut(s) 357
CfoI GCGC 1 cut(s) 474
Cfr10I RCCGGY 2 cut(s) 380, 1099
Cfr13I GGNCC 4 cut(s) 158, 383, 440, 605
CsiI ACCWGGT 1 cut(s) 217
Csp6I GTAC 3 cut(s) 428, 1122, 1136
CspAI ACCGGT 1 cut(s) 380
CviAII CATG 7 cut(s) 358, 577, 609, 696, 765, 817, 987
CviQI GTAC 3 cut(s) 428, 1122, 1136
DdeI CTNAG 4 cut(s) 195, 867, 1006, 1139
DinI GGCGCC 1 cut(s) 473
DpnI GATC 5 cut(s) 238, 758, 778, 849, 1132
DpnII GATC 5 cut(s) 236, 756, 776, 847, 1130
DraIII CACNNNGTG 1 cut(s) 221
EaeI YGGCCR 2 cut(s) 259, 452
Eam1104I CTCTTC 1 cut(s) 183
EarI CTCTTC 1 cut(s) 183
EciI GGCGGA 1 cut(s) 1086
Eco147I AGGCCT 1 cut(s) 399
Eco31I GGTCTC 1 cut(s) 1108
Eco47I GGWCC 4 cut(s) 158, 383, 440, 605
EcoNI CCTNNNNNAGG 1 cut(s) 1029
EcoRII CCWGG 4 cut(s) 154, 217, 399, 449
EcoT22I ATGCAT 1 cut(s) 963
EgeI GGCGCC 1 cut(s) 473
EheI GGCGCC 1 cut(s) 473
FaeI CATG 7 cut(s) 361, 580, 612, 699, 768, 820, 990
FaqI GGGAC 3 cut(s) 311, 369, 433
FatI CATG 7 cut(s) 357, 576, 608, 695, 764, 816, 986
FauNDI CATATG 1 cut(s) 241
FbaI TGATCA 1 cut(s) 847
Fnu4HI GCNGC 2 cut(s) 512, 891
FokI GGATG 2 cut(s) 269, 896
Fsp4HI GCNGC 2 cut(s) 512, 891
FspBI CTAG 3 cut(s) 168, 674, 1128
GlaI GCGC 1 cut(s) 473
GluI GCNGC 2 cut(s) 512, 891
GsuI CTGGAG 1 cut(s) 813
HaeII RGCGCY 1 cut(s) 475
HaeIII GGCC 3 cut(s) 261, 399, 454
HapII CCGG 5 cut(s) 381, 603, 780, 946, 1100
HhaI GCGC 1 cut(s) 474
Hin1I GRCGYC 1 cut(s) 472
Hin1II CATG 7 cut(s) 361, 580, 612, 699, 768, 820, 990
Hin6I GCGC 1 cut(s) 472
HinP1I GCGC 1 cut(s) 472
HincII GTYRAC 1 cut(s) 63
HindII GTYRAC 1 cut(s) 63
HindIII AAGCTT 1 cut(s) 8
HinfI GANTC 8 cut(s) 199, 317, 361, 446, 495, 670, 722, 977
HpaII CCGG 5 cut(s) 381, 603, 780, 946, 1100
HphI GGTGA 2 cut(s) 144, 312
Hpy166II GTNNAC 2 cut(s) 63, 369
Hpy188I TCNGA 6 cut(s) 342, 742, 756, 907, 1009, 1048
Hpy188III TCNNGA 8 cut(s) 185, 358, 690, 719, 760, 780, 792, 946
Hpy8I GTNNAC 2 cut(s) 63, 369
HpyAV CCTTC 1 cut(s) 153
HpyCH4III ACNGT 1 cut(s) 715
HpyCH4IV ACGT 1 cut(s) 653
HpyCH4V TGCA 9 cut(s) 514, 567, 633, 876, 890, 961, 972, 990, 1081
HpyF10VI GCNNNNNNNGC 2 cut(s) 396, 478
HpyF3I CTNAG 4 cut(s) 195, 867, 1006, 1139
HpySE526I ACGT 1 cut(s) 653
Hsp92I GRCGYC 1 cut(s) 472
Hsp92II CATG 7 cut(s) 361, 580, 612, 699, 768, 820, 990
HspAI GCGC 1 cut(s) 472
KasI GGCGCC 1 cut(s) 471
Kpn2I TCCGGA 2 cut(s) 779, 945
Ksp22I TGATCA 1 cut(s) 847
Kzo9I GATC 5 cut(s) 236, 756, 776, 847, 1130
LguI GCTCTTC 1 cut(s) 183
LmnI GCTCC 2 cut(s) 782, 958
Lsp1109I GCAGC 2 cut(s) 498, 902
LweI GCATC 2 cut(s) 565, 885
MabI ACCWGGT 1 cut(s) 217
MaeI CTAG 3 cut(s) 168, 674, 1128
MaeII ACGT 1 cut(s) 653
MaeIII GTNAC 5 cut(s) 21, 405, 649, 796, 806
MalI GATC 5 cut(s) 238, 758, 778, 849, 1132
MboI GATC 5 cut(s) 236, 756, 776, 847, 1130
MboII GAAGA 6 cut(s) 16, 47, 200, 298, 551, 1013
MflI RGATCY 2 cut(s) 776, 1130
MlsI TGGCCA 2 cut(s) 261, 454
MluCI AATT 3 cut(s) 17, 729, 851
MluNI TGGCCA 2 cut(s) 261, 454
Mly113I GGCGCC 1 cut(s) 472
MlyI GAGTC 3 cut(s) 455, 679, 716
MmeI TCCRAC 2 cut(s) 1040, 1095
MnlI CCTC 6 cut(s) 123, 150, 189, 192, 533, 1111
Mox20I TGGCCA 2 cut(s) 261, 454
Mph1103I ATGCAT 1 cut(s) 963
MroI TCCGGA 2 cut(s) 779, 945
MroXI GAANNNNTTC 1 cut(s) 347
MscI TGGCCA 2 cut(s) 261, 454
MseI TTAA 1 cut(s) 998
MslI CAYNNNNRTG 3 cut(s) 28, 356, 815
Msp20I TGGCCA 2 cut(s) 261, 454
MspA1I CMGCKG 1 cut(s) 893
MspI CCGG 5 cut(s) 381, 603, 780, 946, 1100
MspR9I CCNGG 5 cut(s) 156, 219, 401, 451, 603
Mva1269I GAATGC 2 cut(s) 955, 1069
MvaI CCWGG 4 cut(s) 156, 219, 401, 451
MvnI CGCG 1 cut(s) 691
MwoI GCNNNNNNNGC 2 cut(s) 396, 478
NarI GGCGCC 1 cut(s) 472
NciI CCSGG 1 cut(s) 603
NdeI CATATG 1 cut(s) 241
NdeII GATC 5 cut(s) 236, 756, 776, 847, 1130
NlaIII CATG 7 cut(s) 361, 580, 612, 699, 768, 820, 990
NlaIV GGNNCC 6 cut(s) 385, 473, 592, 778, 833, 934
NmuCI GTSAC 1 cut(s) 21
NruI TCGCGA 1 cut(s) 691
NsiI ATGCAT 1 cut(s) 963
NspI RCATGY 1 cut(s) 699
OliI CACNNNNGTG 1 cut(s) 28
PagI TCATGA 1 cut(s) 357
PceI AGGCCT 1 cut(s) 399
PciSI GCTCTTC 1 cut(s) 183
PctI GAATGC 2 cut(s) 955, 1069
PdmI GAANNNNTTC 1 cut(s) 347
PfeI GAWTC 5 cut(s) 199, 317, 361, 495, 977
PflMI CCANNNNNTGG 1 cut(s) 437
PinAI ACCGGT 1 cut(s) 380
PkrI GCNGC 2 cut(s) 513, 892
PleI GAGTC 3 cut(s) 454, 678, 716
PluTI GGCGCC 1 cut(s) 475
PpsI GAGTC 3 cut(s) 454, 678, 716
PshAI GACNNNNGTC 1 cut(s) 445
Psp1406I AACGTT 1 cut(s) 653
Psp6I CCWGG 4 cut(s) 154, 217, 399, 449
PspGI CCWGG 4 cut(s) 154, 217, 399, 449
PspN4I GGNNCC 6 cut(s) 385, 473, 592, 778, 833, 934
PspPI GGNCC 4 cut(s) 158, 383, 440, 605
PstI CTGCAG 2 cut(s) 892, 974
PstNI CAGNNNCTG 1 cut(s) 791
PsuI RGATCY 2 cut(s) 776, 1130
RruI TCGCGA 1 cut(s) 691
RsaI GTAC 3 cut(s) 429, 1123, 1137
RsaNI GTAC 3 cut(s) 428, 1122, 1136
RseI CAYNNNNRTG 3 cut(s) 28, 356, 815
SapI GCTCTTC 1 cut(s) 183
SaqAI TTAA 1 cut(s) 998
SatI GCNGC 2 cut(s) 512, 891
Sau3AI GATC 5 cut(s) 236, 756, 776, 847, 1130
Sau96I GGNCC 4 cut(s) 158, 383, 440, 605
SchI GAGTC 3 cut(s) 455, 679, 716
ScrFI CCNGG 5 cut(s) 156, 219, 401, 451, 603
SexAI ACCWGGT 1 cut(s) 217
SfaNI GCATC 2 cut(s) 565, 885
SfcI CTRYAG 5 cut(s) 162, 423, 888, 970, 1029
SfoI GGCGCC 1 cut(s) 473
SinI GGWCC 4 cut(s) 158, 383, 440, 605
SmiMI CAYNNNNRTG 3 cut(s) 28, 356, 815
Sse9I AATT 3 cut(s) 17, 729, 851
SseBI AGGCCT 1 cut(s) 399
SsiI CCGC 2 cut(s) 893, 1097
SspDI GGCGCC 1 cut(s) 471
SspI AATATT 2 cut(s) 375, 709
SspMI CTAG 3 cut(s) 168, 674, 1128
StuI AGGCCT 1 cut(s) 399
StyD4I CCNGG 5 cut(s) 154, 217, 399, 449, 601
TaaI ACNGT 1 cut(s) 715
TaiI ACGT 1 cut(s) 656
TaqI TCGA 3 cut(s) 235, 493, 718
TasI AATT 3 cut(s) 17, 729, 851
TatI WGTACW 1 cut(s) 1135
TfiI GAWTC 5 cut(s) 199, 317, 361, 495, 977
Tru1I TTAA 1 cut(s) 998
Tru9I TTAA 1 cut(s) 998
TscAI CASTG 1 cut(s) 979
TseFI GTSAC 1 cut(s) 21
TseI GCWGC 2 cut(s) 511, 890
Tsp45I GTSAC 1 cut(s) 21
TspDTI ATGAA 3 cut(s) 17, 346, 1161
TspRI CASTG 1 cut(s) 979
Van91I CCANNNNNTGG 1 cut(s) 437
VpaK11BI GGWCC 4 cut(s) 158, 383, 440, 605
XagI CCTNNNNNAGG 1 cut(s) 1029
XceI RCATGY 1 cut(s) 699
XmnI GAANNNNTTC 1 cut(s) 347
XspI CTAG 3 cut(s) 168, 674, 1128
Zsp2I ATGCAT 1 cut(s) 963
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.