RchiOBHm_Chr1g0316321

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0010715
Physical Location & Seq
Forward (+)
3598504 .. 3601586
3083 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1362 bp
ATGCAATATTCTTCATCTCAAATCCATTTTCTGTCACTATTCCTCCTTCTCATCATTGTACCTTCATATTTTTCCTTCCCTCTTGGCCATAACCATAACCCAGAGGAGCCACCTGTACTTGATCATCATCAAAAAACCTATACTGGTCATAATTTTTTGAGACCCTACCCTACAATATTAAGGACAAGCAGGAGGGAGCTTATTACAGCCAGTGCTTCATCCAAGGTTGTTTTTAATGTGCATGATTTTGGAGCTCAAGCAAATGGAGGAGATGATACCAAGGCATTTAGGAACGCATGGAAGAAGGCATGCTCAAATTCTGAAGGAAAAACTGTTGAGCTCGTGGTCCCTAAGAACAGAAACTATCACATCAAACCAATTACATTCTCTGGTCCTTGCAAATCTCAGGTCACCTTTAAGATTTATGGAACGATCAAAGCATCACCATTTCTATTGGATTACGAAAGGGACAGTAGCCATTGGATTATGTTCGAGAATTTGCAGAACTTTAAAGTTGAAGGTGCTGGCACTGGCATCATCAATGGAAATGGAAGGAAATGGTGGGAGAATTCTTGCAAAGTTAACGAGTCCCTTCCTTGCACGAGCGCACCAACTGCTGTGACTTTCTATCAGTGCAATAATTTGGACGTAGCAAATCTGAGGTTCCAGAATGCACAGAGAATGCATCTGACGTTTCAGAAATGTGCGCTTGTAAAAGTTTTGAATCTCATTATAACAGCACCAGGGAACAGTCCTAACACCGATGGAATCCATGTCACTGAAACACAAGATATTCGCATAAACAGCTGCCGCATTAGGACAGGTGACGACTGTATTTCGATAGTAAGTGGGTCAAGGAATGTTCAAGCTAGCGATATAACCTGCGGACCAGGTCATGGAATCAGTATTGGAAGCTTAGGAGCTGAAAATTCAGAAGCTCAGGTTTCCGATGTGGTAGTAAGTAGAGCGAACCTTATAGGCACCACTAATGGATTAAGAATCAAGACTTGGCAAGGAGGTTCTGGTTATGCAAAAAACATCAGATTCGAAAATGTTCTAATGCACAATGTCACCAATCCCATAATCATAGATCAACATTACTGTGATCAGGAAAAACCATGCCAAGATCAGGCTTCAGCTGTAAAAGTAAGCGGAGTGGTATACCAAAATGTGAAAGGCACAAGTGCTTCTAAAGTGGCGGTAAATTTCGATTGCAGTGAGCGCTTCGGATGTCAAGAGATTTTGGTGCAAGACGTGAACATAGTACCTCTAAACGATGAAGGAATTACGACAGCTTCTTGTCAGAATGTTGGATTACGCGATAGAGGGATAGTTTCACCAAAATGCTCTTCCCAAAAGTAG

Protein Analysis

453

Amino Acids

49.89

Weight (kDa)

8.54

Isoelectric Point (pI)

35.88

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 108 - 437 3.7e-98 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: OG0010715)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G07970
fragaria_vesca FvH4_7g01140 FvH4_7g01140
malus_domestica MD02G1309400.v1.1 MD07G1011600.v1.1
prunus_persica Prupe.2G014800_v2.0.a1
pyrus_communis pycom02g26060 pycom07g00970
rosa_chinensis RchiOBHm_Chr1g0316321
rosa_laevigata RLG00000030679
rosa_multiflora Rmu_sc0002531.1_g000005 Rmu_sc0004511.1_g000005
rosa_roxburghii Rroxscaffold_4G00331050
rosa_rugosa Rorug01G0009700 Rorug01G0009700
rosa_samantha Rh1AG019500 Rh1BG014600 Rh1CG017100 Rh1DG014500
rosa_wichuraiana Rw1G001310

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 734
Acc36I ACCTGC 1 cut(s) 890
AccB1I GGYRCC 1 cut(s) 980
AccB7I CCANNNNNTGG 1 cut(s) 896
AccI GTMKAC 1 cut(s) 1161
AccII CGCG 1 cut(s) 1320
AciI CCGC 4 cut(s) 811, 885, 1152, 1199
AcoI YGGCCR 1 cut(s) 85
AcsI RAATTY 5 cut(s) 316, 496, 568, 928, 1204
AcuI CTGAAG 2 cut(s) 342, 1119
AfaI GTAC 3 cut(s) 60, 117, 1266
AfeI AGCGCT 1 cut(s) 1223
AfiI CCNNNNNNNGG 2 cut(s) 896, 1129
AgsI TTSAA 3 cut(s) 518, 724, 866
AjiI CACGTC 1 cut(s) 1255
AjnI CCWGG 2 cut(s) 742, 889
AjuI GAANNNNNNNTTGG 3 cut(s) 991, 1023, 1333
Alw21I GWGCWC 2 cut(s) 256, 342
Alw26I GTCTC 1 cut(s) 154
Aor51HI AGCGCT 1 cut(s) 1223
AoxI GGCC 1 cut(s) 85
ApeKI GCWGC 1 cut(s) 807
ApoI RAATTY 5 cut(s) 316, 496, 568, 928, 1204
ArsI GACNNNNNNTTYG 2 cut(s) 393, 425
Asp700I GAANNNNTTC 1 cut(s) 1053
AspLEI GCGC 3 cut(s) 608, 709, 1224
AspS9I GGNCC 3 cut(s) 346, 392, 887
AsuHPI GGTGA 5 cut(s) 403, 435, 836, 1063, 1329
AsuII TTCGAA 1 cut(s) 1047
AsuNHI GCTAGC 1 cut(s) 869
AvaII GGWCC 3 cut(s) 346, 392, 887
BalI TGGCCA 1 cut(s) 87
BanI GGYRCC 1 cut(s) 980
BanII GRGCYC 2 cut(s) 256, 342
BauI CACGAG 2 cut(s) 341, 601
Bbv12I GWGCWC 2 cut(s) 256, 342
BbvI GCAGC 1 cut(s) 794
BccI CCATC 1 cut(s) 758
BciT130I CCWGG 2 cut(s) 744, 891
BclI TGATCA 2 cut(s) 121, 1105
BcoDI GTCTC 1 cut(s) 154
BfaI CTAG 1 cut(s) 870
BfoI RGCGCY 1 cut(s) 1225
BfuAI ACCTGC 1 cut(s) 890
BisI GCNGC 2 cut(s) 808, 811
BlsI GCNGC 2 cut(s) 809, 812
Bme1390I CCNGG 2 cut(s) 744, 891
Bme18I GGWCC 3 cut(s) 346, 392, 887
BmgBI CACGTC 1 cut(s) 1255
BmgT120I GGNCC 3 cut(s) 346, 392, 887
BmiI GGNNCC 4 cut(s) 108, 348, 665, 982
BmrFI CCNGG 2 cut(s) 744, 891
BmsI GCATC 3 cut(s) 449, 543, 694
BmtI GCTAGC 1 cut(s) 873
Bpu10I CCTNAGC 2 cut(s) 916, 939
Bpu14I TTCGAA 1 cut(s) 1047
BpuEI CTTGAG 1 cut(s) 240
BsaBI GATNNNNATC 1 cut(s) 126
BsaI GGTCTC 1 cut(s) 154
BsaJI CCNNGG 3 cut(s) 222, 279, 743
BsaXI ACNNNNNCTCC 2 cut(s) 27, 57
Bsc4I CCNNNNNNNGG 2 cut(s) 896, 1129
Bse1I ACTGG 3 cut(s) 148, 210, 535
Bse8I GATNNNNATC 1 cut(s) 126
BseBI CCWGG 2 cut(s) 744, 891
BseDI CCNNGG 3 cut(s) 222, 279, 743
BseGI GGATG 2 cut(s) 218, 1235
BseJI GATNNNNATC 1 cut(s) 126
BseLI CCNNNNNNNGG 2 cut(s) 896, 1129
BseMII CTCAG 3 cut(s) 419, 650, 953
BseNI ACTGG 3 cut(s) 148, 210, 535
BseRI GAGGAG 2 cut(s) 119, 282
BseXI GCAGC 1 cut(s) 794
Bsh1236I CGCG 1 cut(s) 1320
BshFI GGCC 1 cut(s) 87
BshNI GGYRCC 1 cut(s) 980
BsiHKAI GWGCWC 2 cut(s) 256, 342
BslFI GGGAC 3 cut(s) 332, 482, 574
BslI CCNNNNNNNGG 2 cut(s) 896, 1129
BsmAI GTCTC 1 cut(s) 154
BsmFI GGGAC 3 cut(s) 332, 482, 574
BsmI GAATGC 2 cut(s) 676, 687
BsnI GGCC 1 cut(s) 87
Bso31I GGTCTC 1 cut(s) 154
Bsp119I TTCGAA 1 cut(s) 1047
Bsp1286I GDGCHC 2 cut(s) 256, 342
Bsp143I GATC 5 cut(s) 121, 432, 1090, 1105, 1126
BspACI CCGC 4 cut(s) 811, 885, 1152, 1199
BspANI GGCC 1 cut(s) 87
BspCNI CTCAG 3 cut(s) 418, 651, 952
BspFNI CGCG 1 cut(s) 1320
BspLI GGNNCC 4 cut(s) 108, 348, 665, 982
BspMI ACCTGC 1 cut(s) 890
BspOI GCTAGC 1 cut(s) 873
BspQI GCTCTTC 1 cut(s) 1354
BspT104I TTCGAA 1 cut(s) 1047
BspT107I GGYRCC 1 cut(s) 980
BspTNI GGTCTC 1 cut(s) 154
BsrI ACTGG 3 cut(s) 148, 210, 535
BssECI CCNNGG 3 cut(s) 222, 279, 743
BssMI GATC 5 cut(s) 121, 432, 1090, 1105, 1126
BssNAI GTATAC 1 cut(s) 1162
BssSI CACGAG 2 cut(s) 341, 601
BssT1I CCWWGG 2 cut(s) 222, 279
Bst1107I GTATAC 1 cut(s) 1162
Bst2BI CACGAG 2 cut(s) 341, 601
Bst2UI CCWGG 2 cut(s) 744, 891
Bst4CI ACNGT 5 cut(s) 334, 473, 752, 833, 1103
Bst6I CTCTTC 1 cut(s) 1354
BstAPI GCANNNNNTGC 1 cut(s) 614
BstBI TTCGAA 1 cut(s) 1047
BstC8I GCNNGC 3 cut(s) 310, 526, 871
BstDEI CTNAG 5 cut(s) 351, 405, 659, 916, 939
BstEII GGTNACC 1 cut(s) 409
BstF5I GGATG 2 cut(s) 218, 1235
BstFNI CGCG 1 cut(s) 1320
BstH2I RGCGCY 1 cut(s) 1225
BstHHI GCGC 3 cut(s) 608, 709, 1224
BstKTI GATC 5 cut(s) 124, 435, 1093, 1108, 1129
BstMAI GTCTC 1 cut(s) 154
BstMBI GATC 5 cut(s) 121, 432, 1090, 1105, 1126
BstMWI GCNNNNNNNGC 3 cut(s) 614, 804, 1221
BstNI CCWGG 2 cut(s) 744, 891
BstNSI RCATGY 1 cut(s) 312
BstPI GGTNACC 1 cut(s) 409
BstSCI CCNGG 2 cut(s) 742, 889
BstUI CGCG 1 cut(s) 1320
BstV1I GCAGC 1 cut(s) 794
BstZ17I GTATAC 1 cut(s) 1162
BsuRI GGCC 1 cut(s) 87
BtrI CACGTC 1 cut(s) 1255
BtsCI GGATG 2 cut(s) 218, 1235
BtsI GCAGTG 1 cut(s) 1222
BtsIMutI CAGTG 5 cut(s) 217, 528, 638, 777, 1222
BveI ACCTGC 1 cut(s) 890
Cac8I GCNNGC 3 cut(s) 310, 526, 871
CfoI GCGC 3 cut(s) 608, 709, 1224
Cfr13I GGNCC 3 cut(s) 346, 392, 887
CsiI ACCWGGT 1 cut(s) 889
Csp6I GTAC 3 cut(s) 59, 116, 1265
CviAII CATG 6 cut(s) 242, 297, 309, 773, 896, 1119
CviQI GTAC 3 cut(s) 59, 116, 1265
DdeI CTNAG 5 cut(s) 351, 405, 659, 916, 939
DpnI GATC 5 cut(s) 123, 434, 1092, 1107, 1128
DpnII GATC 5 cut(s) 121, 432, 1090, 1105, 1126
DraI TTTAAA 1 cut(s) 511
EaeI YGGCCR 1 cut(s) 85
Eam1104I CTCTTC 1 cut(s) 1354
EarI CTCTTC 1 cut(s) 1354
Ecl136II GAGCTC 2 cut(s) 254, 340
Eco130I CCWWGG 2 cut(s) 222, 279
Eco24I GRGCYC 2 cut(s) 256, 342
Eco31I GGTCTC 1 cut(s) 154
Eco47I GGWCC 3 cut(s) 346, 392, 887
Eco47III AGCGCT 1 cut(s) 1223
Eco53kI GAGCTC 2 cut(s) 254, 340
Eco57I CTGAAG 2 cut(s) 342, 1119
Eco91I GGTNACC 1 cut(s) 409
EcoICRI GAGCTC 2 cut(s) 254, 340
EcoO65I GGTNACC 1 cut(s) 409
EcoRI GAATTC 1 cut(s) 568
EcoRII CCWGG 2 cut(s) 742, 889
EcoT14I CCWWGG 2 cut(s) 222, 279
EcoT22I ATGCAT 1 cut(s) 687
EcoT38I GRGCYC 2 cut(s) 256, 342
ErhI CCWWGG 2 cut(s) 222, 279
FaeI CATG 6 cut(s) 245, 300, 312, 776, 899, 1122
FaqI GGGAC 3 cut(s) 332, 482, 574
FatI CATG 6 cut(s) 241, 296, 308, 772, 895, 1118
FbaI TGATCA 2 cut(s) 121, 1105
FblI GTMKAC 1 cut(s) 1161
Fnu4HI GCNGC 2 cut(s) 808, 811
FokI GGATG 2 cut(s) 205, 1242
FriOI GRGCYC 2 cut(s) 256, 342
Fsp4HI GCNGC 2 cut(s) 808, 811
FspBI CTAG 1 cut(s) 870
GlaI GCGC 3 cut(s) 607, 708, 1223
GluI GCNGC 2 cut(s) 808, 811
HaeII RGCGCY 1 cut(s) 1225
HaeIII GGCC 1 cut(s) 87
HhaI GCGC 3 cut(s) 608, 709, 1224
Hin1II CATG 6 cut(s) 245, 300, 312, 776, 899, 1122
Hin6I GCGC 3 cut(s) 606, 707, 1222
HinP1I GCGC 3 cut(s) 606, 707, 1222
HincII GTYRAC 1 cut(s) 583
HindII GTYRAC 1 cut(s) 583
HindIII AAGCTT 1 cut(s) 913
HinfI GANTC 6 cut(s) 587, 724, 768, 900, 999, 1044
HpaI GTTAAC 1 cut(s) 583
HphI GGTGA 5 cut(s) 403, 435, 836, 1063, 1329
Hpy166II GTNNAC 3 cut(s) 583, 1162, 1258
Hpy188I TCNGA 9 cut(s) 322, 660, 690, 699, 934, 949, 1043, 1229, 1305
Hpy188III TCNNGA 5 cut(s) 493, 667, 1003, 1109, 1235
Hpy8I GTNNAC 3 cut(s) 583, 1162, 1258
HpyAV CCTTC 9 cut(s) 56, 72, 85, 298, 317, 512, 546, 602, 1274
HpyCH4III ACNGT 5 cut(s) 334, 473, 752, 833, 1103
HpyCH4IV ACGT 3 cut(s) 648, 692, 1254
HpyF10VI GCNNNNNNNGC 3 cut(s) 614, 804, 1221
HpyF3I CTNAG 5 cut(s) 351, 405, 659, 916, 939
HpySE526I ACGT 3 cut(s) 648, 692, 1254
Hsp92II CATG 6 cut(s) 245, 300, 312, 776, 899, 1122
HspAI GCGC 3 cut(s) 606, 707, 1222
Ksp22I TGATCA 2 cut(s) 121, 1105
KspAI GTTAAC 1 cut(s) 583
Kzo9I GATC 5 cut(s) 121, 432, 1090, 1105, 1126
LguI GCTCTTC 1 cut(s) 1354
LmnI GCTCC 4 cut(s) 106, 196, 251, 920
Lsp1109I GCAGC 1 cut(s) 794
LweI GCATC 3 cut(s) 449, 543, 694
MabI ACCWGGT 1 cut(s) 889
MaeI CTAG 1 cut(s) 870
MaeII ACGT 3 cut(s) 648, 692, 1254
MaeIII GTNAC 6 cut(s) 33, 409, 619, 775, 824, 1069
MalI GATC 5 cut(s) 123, 434, 1092, 1107, 1128
MboI GATC 5 cut(s) 121, 432, 1090, 1105, 1126
MboII GAAGA 3 cut(s) 3, 313, 1341
MhlI GDGCHC 2 cut(s) 256, 342
MlsI TGGCCA 1 cut(s) 87
MluCI AATT 9 cut(s) 151, 316, 378, 496, 568, 640, 928, 1204, 1284
MluNI TGGCCA 1 cut(s) 87
MlyI GAGTC 1 cut(s) 596
MmeI TCCRAC 1 cut(s) 1291
MnlI CCTC 9 cut(s) 53, 90, 97, 186, 260, 654, 1010, 1278, 1319
Mox20I TGGCCA 1 cut(s) 87
Mph1103I ATGCAT 1 cut(s) 687
MroXI GAANNNNTTC 1 cut(s) 1053
MscI TGGCCA 1 cut(s) 87
MseI TTAA 6 cut(s) 179, 234, 417, 510, 582, 995
MslI CAYNNNNRTG 2 cut(s) 1101, 1342
Msp20I TGGCCA 1 cut(s) 87
MspA1I CMGCKG 2 cut(s) 807, 1139
MspR9I CCNGG 2 cut(s) 744, 891
Mva1269I GAATGC 2 cut(s) 676, 687
MvaI CCWGG 2 cut(s) 744, 891
MvnI CGCG 1 cut(s) 1320
MwoI GCNNNNNNNGC 3 cut(s) 614, 804, 1221
NdeII GATC 5 cut(s) 121, 432, 1090, 1105, 1126
NheI GCTAGC 1 cut(s) 869
NlaIII CATG 6 cut(s) 245, 300, 312, 776, 899, 1122
NlaIV GGNNCC 4 cut(s) 108, 348, 665, 982
NmuCI GTSAC 6 cut(s) 33, 409, 619, 775, 824, 1069
NsiI ATGCAT 1 cut(s) 687
NspI RCATGY 1 cut(s) 312
NspV TTCGAA 1 cut(s) 1047
PaeI GCATGC 1 cut(s) 312
PciSI GCTCTTC 1 cut(s) 1354
PctI GAATGC 2 cut(s) 676, 687
PdmI GAANNNNTTC 1 cut(s) 1053
PfeI GAWTC 5 cut(s) 724, 768, 900, 999, 1044
PflFI GACNNNGTC 1 cut(s) 891
PflMI CCANNNNNTGG 1 cut(s) 896
PkrI GCNGC 2 cut(s) 809, 812
PleI GAGTC 1 cut(s) 595
PpsI GAGTC 1 cut(s) 595
PsiI TTATAA 1 cut(s) 734
Psp124BI GAGCTC 2 cut(s) 256, 342
Psp6I CCWGG 2 cut(s) 742, 889
PspEI GGTNACC 1 cut(s) 409
PspGI CCWGG 2 cut(s) 742, 889
PspN4I GGNNCC 4 cut(s) 108, 348, 665, 982
PspPI GGNCC 3 cut(s) 346, 392, 887
PsyI GACNNNGTC 1 cut(s) 891
PvuII CAGCTG 2 cut(s) 807, 1139
RsaI GTAC 3 cut(s) 60, 117, 1266
RsaNI GTAC 3 cut(s) 59, 116, 1265
RseI CAYNNNNRTG 2 cut(s) 1101, 1342
SacI GAGCTC 2 cut(s) 256, 342
SapI GCTCTTC 1 cut(s) 1354
SaqAI TTAA 6 cut(s) 179, 234, 417, 510, 582, 995
SatI GCNGC 2 cut(s) 808, 811
Sau3AI GATC 5 cut(s) 121, 432, 1090, 1105, 1126
Sau96I GGNCC 3 cut(s) 346, 392, 887
SchI GAGTC 1 cut(s) 596
ScrFI CCNGG 2 cut(s) 744, 891
SduI GDGCHC 2 cut(s) 256, 342
SexAI ACCWGGT 1 cut(s) 889
SfaNI GCATC 3 cut(s) 449, 543, 694
SfuI TTCGAA 1 cut(s) 1047
SinI GGWCC 3 cut(s) 346, 392, 887
SmiMI CAYNNNNRTG 2 cut(s) 1101, 1342
SmlI CTYRAG 1 cut(s) 255
SmoI CTYRAG 1 cut(s) 255
SphI GCATGC 1 cut(s) 312
Sse9I AATT 9 cut(s) 151, 316, 378, 496, 568, 640, 928, 1204, 1284
SsiI CCGC 4 cut(s) 811, 885, 1152, 1199
SspI AATATT 2 cut(s) 8, 177
SspMI CTAG 1 cut(s) 870
SstI GAGCTC 2 cut(s) 256, 342
StyD4I CCNGG 2 cut(s) 742, 889
StyI CCWWGG 2 cut(s) 222, 279
TaaI ACNGT 5 cut(s) 334, 473, 752, 833, 1103
TaiI ACGT 3 cut(s) 651, 695, 1257
TaqI TCGA 4 cut(s) 492, 839, 1047, 1209
TasI AATT 9 cut(s) 151, 316, 378, 496, 568, 640, 928, 1204, 1284
TatI WGTACW 1 cut(s) 115
TauI GCSGC 1 cut(s) 813
TfiI GAWTC 5 cut(s) 724, 768, 900, 999, 1044
Tru1I TTAA 6 cut(s) 179, 234, 417, 510, 582, 995
Tru9I TTAA 6 cut(s) 179, 234, 417, 510, 582, 995
TscAI CASTG 5 cut(s) 217, 535, 638, 784, 1222
TseFI GTSAC 6 cut(s) 33, 409, 619, 775, 824, 1069
TseI GCWGC 1 cut(s) 807
Tsp45I GTSAC 6 cut(s) 33, 409, 619, 775, 824, 1069
TspDTI ATGAA 3 cut(s) 54, 207, 1293
TspRI CASTG 5 cut(s) 217, 535, 638, 784, 1222
Tth111I GACNNNGTC 1 cut(s) 891
Van91I CCANNNNNTGG 1 cut(s) 896
VpaK11BI GGWCC 3 cut(s) 346, 392, 887
XapI RAATTY 5 cut(s) 316, 496, 568, 928, 1204
XceI RCATGY 1 cut(s) 312
XmiI GTMKAC 1 cut(s) 1161
XmnI GAANNNNTTC 1 cut(s) 1053
XspI CTAG 1 cut(s) 870
Zsp2I ATGCAT 1 cut(s) 687
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.