Rroxscaffold_2G00126930

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0001539
Physical Location & Seq
Forward (+)
62346765 .. 62371649
24885 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00126930.1

Sequence Viewer

Length: 1494 bp
ATGATTCAGCTTACAAGGTGTTTTGTCACGGTTCTATTCCTTTTTCTTACAATAATACACCAATCGTCTGCTGCTGACGAGACTACAATAACTTCTTACAATGTCCTGAGCTTTGGAGCTAAGCGTAATGGTGTAACGGATTCCACCCAAGCTTTTCTTGATGCTTGGGCTGCTGCCTGTGGAGCCTCAGCAGATTCATCTGAGATATATATACCGAAGGGGAGGTATTTGCTTGGCGCTATTGCCTTTAAAGGTGACTGCAAAAGCGCACAAGTCACTTTTCGGATTGATGGAACACTAGTGGCTTCGCCTGATTACCGAGTACTAGGCCAAGCTAACAACTGGTTCAGTTTTGAAGGAGTTACTGGGGTAAACATTGTTGGAGGAGCACTTGATGCTAAGGGTTCCGCCTTGTGGGCTTGCAAATTAAGTACCGAAATCACCAGCTGTCCAAATGGAGCCACGACTTTGAGTTTTACAAACTCAAAAGACATTAGAGTTGAAGGACTAATGTCATTGAACAGCCAAATGTTTCACATTGTGATAAACGGCTGCCAGAATGTACTCATTCAAGGCGTCAAAATTATTGCTGCTGGCAATAGCCCTAACACCGACGGCATTCATGTCCAATTGTCCAAAAATGTTGCAATCTTCGACACCTCCATCAAAACTGGGGACGACTGTGTCTCTATTGGCCCTGGGACCAAGGACTTGTGGATGGAACGCATATCATGCGGACCTGGCCACGGCATTAGCATAGGGAGCCTGGCCAAAGACTTGGAAGAGGAAGGAGTACAAAACGTAACAGTTAAAAATGCAATTTTGAAGGGTACCACAAATGGGCTGAGGATCAAATCTTGGGCAAGACCAAGCACCGGGTTTGTCCAAGGTGTTCGATTCCTTGATGTCGTAATGCTTAATGTCCAAAATCCCATCGTAATTGACCAGAATTACTGCCCACACAACCTCAACTGTCCTGGTCAGGTATCTGGTGTCAAAGTTAGCGATATACTGTACCAGAACATTCGTGGCACATCGACAACAGCAGTTGCAGTAAAATTTGATTGCAGTGCAACAAATCCATGCAGTGGGATAAGACTCGAAAATGTGAATTTGACTTGCCGGAAGCAAAAAAACCTGTTTTTGCTTTTTCCCCAATTTGCTGCTAAAAATCACGGCGGAAGCGTGAATTTGATATTTAACCGGATGCAGCAATCGCCTTTACTTGGTCGGTTACACGACCGTTACTTGATCCAACAAGGCAAGAAAAAGCAACGCTCAACACTCCCAAGTTCCTCGAAAGCGGCAAAACAGTCACAGGACCACCCCCACCCAAAATCAACTGTCGAGTGCCGCAAGTGCCTCCAATCCGTGAACCCACTCACTTCTTTTCCGGCCCTGATTCCCTCATCGGATATGGATTTCAATCTAGTTGGGAACTTACAGCTGTCGAACAAAGAAGTGACAGAAAGGGGAACCTATCGGAGTAAGTGA
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

497

Amino Acids

53.73

Weight (kDa)

9.07

Isoelectric Point (pI)

32.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 33 - 78 2.7e-06 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 65 - 376 1e-86 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 683
Acc65I GGTACC 1 cut(s) 830
AccB1I GGYRCC 1 cut(s) 830
AccB7I CCANNNNNTGG 1 cut(s) 1088
AciI CCGC 5 cut(s) 408, 735, 1179, 1304, 1354
AclWI GGATC 2 cut(s) 857, 1246
AcoI YGGCCR 2 cut(s) 742, 768
AcsI RAATTY 3 cut(s) 1058, 1111, 1189
AcyI GRCGYC 1 cut(s) 576
AdeI CACNNNGTG 1 cut(s) 541
AfaI GTAC 6 cut(s) 324, 433, 564, 795, 832, 1016
AfiI CCNNNNNNNGG 6 cut(s) 414, 746, 840, 875, 1088, 1226
AgsI TTSAA 6 cut(s) 356, 503, 520, 572, 826, 1426
AhlI ACTAGT 1 cut(s) 298
AjnI CCWGG 4 cut(s) 697, 739, 765, 976
AluBI AGCT 7 cut(s) 10, 111, 119, 152, 335, 447, 1447
AluI AGCT 7 cut(s) 10, 111, 119, 152, 335, 447, 1447
Alw21I GWGCWC 1 cut(s) 391
Alw26I GTCTC 2 cut(s) 74, 691
AlwI GGATC 2 cut(s) 857, 1246
AoxI GGCC 5 cut(s) 328, 694, 742, 768, 1395
ApeKI GCWGC 7 cut(s) 71, 170, 173, 552, 590, 1163, 1210
ApoI RAATTY 3 cut(s) 1058, 1111, 1189
Asp718I GGTACC 1 cut(s) 830
AspLEI GCGC 2 cut(s) 239, 269
AspS9I GGNCC 5 cut(s) 695, 702, 737, 1321, 1396
AsuC2I CCSGG 1 cut(s) 877
AsuHPI GGTGA 2 cut(s) 266, 433
AvaII GGWCC 3 cut(s) 702, 737, 1321
BalI TGGCCA 2 cut(s) 744, 770
BanI GGYRCC 1 cut(s) 830
Bbv12I GWGCWC 1 cut(s) 391
BbvCI CCTCAGC 2 cut(s) 187, 845
BbvI GCAGC 7 cut(s) 58, 157, 160, 539, 577, 1150, 1222
BccI CCATC 4 cut(s) 284, 671, 712, 941
BceAI ACGGC 4 cut(s) 565, 631, 763, 1192
BciT130I CCWGG 4 cut(s) 699, 741, 767, 978
BcnI CCSGG 1 cut(s) 877
BcoDI GTCTC 2 cut(s) 74, 691
BcuI ACTAGT 1 cut(s) 298
BfaI CTAG 3 cut(s) 299, 326, 1430
BfoI RGCGCY 1 cut(s) 240
BglI GCCNNNNNGGC 1 cut(s) 416
BisI GCNGC 9 cut(s) 72, 171, 174, 553, 591, 1164, 1211, 1305, 1354
BlpI GCTNAGC 1 cut(s) 120
BlsI GCNGC 9 cut(s) 73, 172, 175, 554, 592, 1165, 1212, 1306, 1355
BmcAI AGTACT 1 cut(s) 324
Bme1390I CCNGG 5 cut(s) 699, 741, 767, 877, 978
Bme18I GGWCC 3 cut(s) 702, 737, 1321
BmgT120I GGNCC 5 cut(s) 695, 702, 737, 1321, 1396
BmiI GGNNCC 7 cut(s) 184, 406, 460, 703, 764, 832, 1477
BmrFI CCNGG 5 cut(s) 699, 741, 767, 877, 978
BmrI ACTGGG 2 cut(s) 375, 681
BmsI GCATC 3 cut(s) 151, 385, 1197
BmuI ACTGGG 2 cut(s) 375, 681
BoxI GACNNNNGTC 1 cut(s) 511
Bpu10I CCTNAGC 4 cut(s) 107, 187, 399, 845
Bpu1102I GCTNAGC 1 cut(s) 120
BpuMI CCSGG 1 cut(s) 877
BsaBI GATNNNNATC 1 cut(s) 1425
BsaHI GRCGYC 1 cut(s) 576
BsaJI CCNNGG 5 cut(s) 697, 698, 705, 745, 886
BsaWI WCCGGW 1 cut(s) 1203
Bsc4I CCNNNNNNNGG 6 cut(s) 414, 746, 840, 875, 1088, 1226
Bse1I ACTGG 3 cut(s) 347, 370, 676
Bse8I GATNNNNATC 1 cut(s) 1425
BseBI CCWGG 4 cut(s) 699, 741, 767, 978
BseDI CCNNGG 5 cut(s) 697, 698, 705, 745, 886
BseGI GGATG 2 cut(s) 723, 1212
BseJI GATNNNNATC 1 cut(s) 1425
BseLI CCNNNNNNNGG 6 cut(s) 414, 746, 840, 875, 1088, 1226
BseMII CTCAG 4 cut(s) 98, 192, 201, 836
BseNI ACTGG 3 cut(s) 347, 370, 676
BseRI GAGGAG 1 cut(s) 399
BseXI GCAGC 7 cut(s) 58, 157, 160, 539, 577, 1150, 1222
Bsh1285I CGRYCG 1 cut(s) 1243
BshFI GGCC 5 cut(s) 330, 696, 744, 770, 1397
BshNI GGYRCC 1 cut(s) 830
BsiEI CGRYCG 1 cut(s) 1243
BsiHKAI GWGCWC 1 cut(s) 391
BsiSI CCGG 4 cut(s) 876, 1123, 1204, 1394
BslFI GGGAC 2 cut(s) 689, 715
BslI CCNNNNNNNGG 6 cut(s) 414, 746, 840, 875, 1088, 1226
BsmAI GTCTC 2 cut(s) 74, 691
BsmFI GGGAC 2 cut(s) 689, 715
BsmI GAATGC 1 cut(s) 618
BsnI GGCC 5 cut(s) 330, 696, 744, 770, 1397
Bsp1286I GDGCHC 1 cut(s) 391
Bsp143I GATC 2 cut(s) 849, 1251
Bsp1720I GCTNAGC 1 cut(s) 120
BspACI CCGC 5 cut(s) 408, 735, 1179, 1304, 1354
BspANI GGCC 5 cut(s) 330, 696, 744, 770, 1397
BspCNI CTCAG 4 cut(s) 99, 193, 200, 837
BspLI GGNNCC 7 cut(s) 184, 406, 460, 703, 764, 832, 1477
BspPI GGATC 2 cut(s) 857, 1246
BspT107I GGYRCC 1 cut(s) 830
BsrI ACTGG 3 cut(s) 347, 370, 676
BssECI CCNNGG 5 cut(s) 697, 698, 705, 745, 886
BssMI GATC 2 cut(s) 849, 1251
BssNI GRCGYC 1 cut(s) 576
BssT1I CCWWGG 2 cut(s) 705, 886
Bst2UI CCWGG 4 cut(s) 699, 741, 767, 978
Bst4CI ACNGT 8 cut(s) 31, 683, 808, 974, 1014, 1244, 1314, 1345
Bst6I CTCTTC 1 cut(s) 777
BstACI GRCGYC 1 cut(s) 576
BstAPI GCANNNNNTGC 2 cut(s) 395, 732
BstC8I GCNNGC 2 cut(s) 421, 595
BstDEI CTNAG 6 cut(s) 107, 120, 187, 201, 399, 845
BstDSI CCRYGG 1 cut(s) 745
BstF5I GGATG 2 cut(s) 723, 1212
BstH2I RGCGCY 1 cut(s) 240
BstHHI GCGC 2 cut(s) 239, 269
BstKTI GATC 2 cut(s) 852, 1254
BstMAI GTCTC 2 cut(s) 74, 691
BstMBI GATC 2 cut(s) 849, 1251
BstMCI CGRYCG 1 cut(s) 1243
BstMWI GCNNNNNNNGC 9 cut(s) 170, 182, 395, 416, 732, 741, 762, 1216, 1359
BstNI CCWGG 4 cut(s) 699, 741, 767, 978
BstPAI GACNNNNGTC 1 cut(s) 511
BstSCI CCNGG 5 cut(s) 697, 739, 765, 875, 976
BstV1I GCAGC 7 cut(s) 58, 157, 160, 539, 577, 1150, 1222
BstXI CCANNNNNNTGG 1 cut(s) 778
BsuRI GGCC 5 cut(s) 330, 696, 744, 770, 1397
BtgI CCRYGG 1 cut(s) 745
BtsCI GGATG 2 cut(s) 723, 1212
BtsI GCAGTG 2 cut(s) 1075, 1093
BtsIMutI CAGTG 2 cut(s) 1075, 1093
Cac8I GCNNGC 2 cut(s) 421, 595
CfoI GCGC 2 cut(s) 239, 269
Cfr13I GGNCC 5 cut(s) 695, 702, 737, 1321, 1396
CseI GACGC 1 cut(s) 565
Csp6I GTAC 6 cut(s) 323, 432, 563, 794, 831, 1015
CviAII CATG 3 cut(s) 623, 732, 1083
CviQI GTAC 6 cut(s) 323, 432, 563, 794, 831, 1015
DdeI CTNAG 6 cut(s) 107, 120, 187, 201, 399, 845
DpnI GATC 2 cut(s) 851, 1253
DpnII GATC 2 cut(s) 849, 1251
DraI TTTAAA 1 cut(s) 250
DraIII CACNNNGTG 1 cut(s) 541
DrdI GACNNNNNNGTC 1 cut(s) 683
DseDI GACNNNNNNGTC 1 cut(s) 683
EaeI YGGCCR 2 cut(s) 742, 768
Eam1104I CTCTTC 1 cut(s) 777
EarI CTCTTC 1 cut(s) 777
EciI GGCGGA 2 cut(s) 397, 1194
Eco130I CCWWGG 2 cut(s) 705, 886
Eco47I GGWCC 3 cut(s) 702, 737, 1321
EcoRII CCWGG 4 cut(s) 697, 739, 765, 976
EcoT14I CCWWGG 2 cut(s) 705, 886
ErhI CCWWGG 2 cut(s) 705, 886
FaeI CATG 3 cut(s) 626, 735, 1086
FalI AAGNNNNNCTT 2 cut(s) 141, 173
FaqI GGGAC 2 cut(s) 689, 715
FatI CATG 3 cut(s) 622, 731, 1082
Fnu4HI GCNGC 9 cut(s) 72, 171, 174, 553, 591, 1164, 1211, 1305, 1354
FokI GGATG 2 cut(s) 730, 1219
Fsp4HI GCNGC 9 cut(s) 72, 171, 174, 553, 591, 1164, 1211, 1305, 1354
FspBI CTAG 3 cut(s) 299, 326, 1430
GlaI GCGC 2 cut(s) 238, 268
GluI GCNGC 9 cut(s) 72, 171, 174, 553, 591, 1164, 1211, 1305, 1354
HaeII RGCGCY 1 cut(s) 240
HaeIII GGCC 5 cut(s) 330, 696, 744, 770, 1397
HapII CCGG 4 cut(s) 876, 1123, 1204, 1394
HgaI GACGC 1 cut(s) 565
HhaI GCGC 2 cut(s) 239, 269
Hin1I GRCGYC 1 cut(s) 576
Hin1II CATG 3 cut(s) 626, 735, 1086
Hin6I GCGC 2 cut(s) 237, 267
HinP1I GCGC 2 cut(s) 237, 267
HindIII AAGCTT 1 cut(s) 150
HinfI GANTC 6 cut(s) 4, 140, 194, 897, 1098, 1402
HpaII CCGG 4 cut(s) 876, 1123, 1204, 1394
HphI GGTGA 2 cut(s) 266, 433
Hpy166II GTNNAC 2 cut(s) 373, 1375
Hpy188I TCNGA 4 cut(s) 202, 285, 1414, 1485
Hpy188III TCNNGA 2 cut(s) 106, 158
Hpy8I GTNNAC 2 cut(s) 373, 1375
Hpy99I CGWCG 1 cut(s) 617
HpyAV CCTTC 5 cut(s) 211, 350, 497, 782, 820
HpyCH4III ACNGT 8 cut(s) 31, 683, 808, 974, 1014, 1244, 1314, 1345
HpyCH4IV ACGT 1 cut(s) 801
HpyCH4V TGCA 9 cut(s) 261, 423, 647, 818, 1052, 1068, 1073, 1086, 1210
HpyF10VI GCNNNNNNNGC 9 cut(s) 170, 182, 395, 416, 732, 741, 762, 1216, 1359
HpyF3I CTNAG 6 cut(s) 107, 120, 187, 201, 399, 845
HpySE526I ACGT 1 cut(s) 801
Hsp92I GRCGYC 1 cut(s) 576
Hsp92II CATG 3 cut(s) 626, 735, 1086
HspAI GCGC 2 cut(s) 237, 267
KpnI GGTACC 1 cut(s) 834
Kzo9I GATC 2 cut(s) 849, 1251
LmnI GCTCC 5 cut(s) 116, 182, 386, 458, 762
Lsp1109I GCAGC 7 cut(s) 58, 157, 160, 539, 577, 1150, 1222
LweI GCATC 3 cut(s) 151, 385, 1197
MaeI CTAG 3 cut(s) 299, 326, 1430
MaeII ACGT 1 cut(s) 801
MalI GATC 2 cut(s) 851, 1253
MboI GATC 2 cut(s) 849, 1251
MboII GAAGA 2 cut(s) 643, 794
MfeI CAATTG 1 cut(s) 629
MhlI GDGCHC 1 cut(s) 391
MlsI TGGCCA 2 cut(s) 744, 770
MluNI TGGCCA 2 cut(s) 744, 770
MlyI GAGTC 1 cut(s) 1092
MmeI TCCRAC 2 cut(s) 361, 1279
Mox20I TGGCCA 2 cut(s) 744, 770
MscI TGGCCA 2 cut(s) 744, 770
MseI TTAA 5 cut(s) 249, 428, 810, 918, 1200
Msp20I TGGCCA 2 cut(s) 744, 770
MspA1I CMGCKG 2 cut(s) 447, 1447
MspI CCGG 4 cut(s) 876, 1123, 1204, 1394
MspR9I CCNGG 5 cut(s) 699, 741, 767, 877, 978
MunI CAATTG 1 cut(s) 629
Mva1269I GAATGC 1 cut(s) 618
MvaI CCWGG 4 cut(s) 699, 741, 767, 978
MwoI GCNNNNNNNGC 9 cut(s) 170, 182, 395, 416, 732, 741, 762, 1216, 1359
NciI CCSGG 1 cut(s) 877
NdeII GATC 2 cut(s) 849, 1251
NlaIII CATG 3 cut(s) 626, 735, 1086
NlaIV GGNNCC 7 cut(s) 184, 406, 460, 703, 764, 832, 1477
NmuCI GTSAC 5 cut(s) 25, 254, 274, 1314, 1462
PasI CCCWGGG 1 cut(s) 698
PcsI WCGNNNNNNNCGW 1 cut(s) 1182
PctI GAATGC 1 cut(s) 618
PfeI GAWTC 5 cut(s) 4, 140, 194, 897, 1402
PflFI GACNNNGTC 1 cut(s) 683
PflMI CCANNNNNTGG 1 cut(s) 1088
PkrI GCNGC 9 cut(s) 73, 172, 175, 554, 592, 1165, 1212, 1306, 1355
PleI GAGTC 1 cut(s) 1092
PpsI GAGTC 1 cut(s) 1092
PshAI GACNNNNGTC 1 cut(s) 511
Psp6I CCWGG 4 cut(s) 697, 739, 765, 976
PspGI CCWGG 4 cut(s) 697, 739, 765, 976
PspN4I GGNNCC 7 cut(s) 184, 406, 460, 703, 764, 832, 1477
PspPI GGNCC 5 cut(s) 695, 702, 737, 1321, 1396
PsyI GACNNNGTC 1 cut(s) 683
PvuII CAGCTG 2 cut(s) 447, 1447
RsaI GTAC 6 cut(s) 324, 433, 564, 795, 832, 1016
RsaNI GTAC 6 cut(s) 323, 432, 563, 794, 831, 1015
SaqAI TTAA 5 cut(s) 249, 428, 810, 918, 1200
SatI GCNGC 9 cut(s) 72, 171, 174, 553, 591, 1164, 1211, 1305, 1354
Sau3AI GATC 2 cut(s) 849, 1251
Sau96I GGNCC 5 cut(s) 695, 702, 737, 1321, 1396
ScaI AGTACT 1 cut(s) 324
SchI GAGTC 1 cut(s) 1092
ScrFI CCNGG 5 cut(s) 699, 741, 767, 877, 978
SduI GDGCHC 1 cut(s) 391
SfaNI GCATC 3 cut(s) 151, 385, 1197
SinI GGWCC 3 cut(s) 702, 737, 1321
SpeI ACTAGT 1 cut(s) 298
SsiI CCGC 5 cut(s) 408, 735, 1179, 1304, 1354
SspMI CTAG 3 cut(s) 299, 326, 1430
StyD4I CCNGG 5 cut(s) 697, 739, 765, 875, 976
StyI CCWWGG 2 cut(s) 705, 886
TaaI ACNGT 8 cut(s) 31, 683, 808, 974, 1014, 1244, 1314, 1345
TaiI ACGT 1 cut(s) 804
TaqI TCGA 7 cut(s) 654, 895, 1037, 1101, 1298, 1347, 1451
TatI WGTACW 3 cut(s) 322, 562, 793
TauI GCSGC 2 cut(s) 1307, 1356
TfiI GAWTC 5 cut(s) 4, 140, 194, 897, 1402
Tru1I TTAA 5 cut(s) 249, 428, 810, 918, 1200
Tru9I TTAA 5 cut(s) 249, 428, 810, 918, 1200
TscAI CASTG 2 cut(s) 1075, 1093
TseFI GTSAC 5 cut(s) 25, 254, 274, 1314, 1462
TseI GCWGC 7 cut(s) 71, 170, 173, 552, 590, 1163, 1210
Tsp45I GTSAC 5 cut(s) 25, 254, 274, 1314, 1462
TspDTI ATGAA 2 cut(s) 186, 611
TspGWI ACGGA 2 cut(s) 152, 1360
TspRI CASTG 2 cut(s) 1075, 1093
Tth111I GACNNNGTC 1 cut(s) 683
Van91I CCANNNNNTGG 1 cut(s) 1088
VpaK11BI GGWCC 3 cut(s) 702, 737, 1321
XapI RAATTY 3 cut(s) 1058, 1111, 1189
XcmI CCANNNNNNNNNTGG 1 cut(s) 1025
XspI CTAG 3 cut(s) 299, 326, 1430
ZrmI AGTACT 1 cut(s) 324
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.