Rh2BG275800

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2B
OG0001539
Physical Location & Seq
Reverse (-)
29993392 .. 29994899
1508 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2BG275800.1

Sequence Viewer

Length: 1203 bp
ATGATTCAGCTTACAAGGTGTTTTGCCACGGTTGTATTCCTTTTTCTTACAATAATACACCAATCGTCTGCTGCTGACGAGACTACAATAACTTCTTACAACGTCCTGACCTTTGGAGCTAAGCGTAATGGTGTGACGGATTCCACCCAAGCTTTTCTTGATGCTTGGGCTGCTGCCTGTGGAGCCTCCGCGGATTCATCTGAGATATATATACCGAAGGGGAGGTATTTGCTTGGCGCTATTGCCTTCAAAGGTGACTGCAAAAGCTCACATGTCACTTTTCGGATTGATGGAACACTAGTGGCTTCGCCTGATTACCGAGTACTAGGCCAAGCTAACAACTGGTTCAGTTTTGAAGGAGTTACTGCGGTAAACATTGTTGGAGGAGCACTTGATGCTAAGGGTTTCGCCTTGTGGGCTTGCAAATTAAGTACCGAAACCACCAGCTGTCCTAATGGAGCCACGACTTTGAGTTTTACAAACTCAAAAGACATTAGAGTTGAAGGACTAATGTCATTGAACAGCCAAATGTTTCACATTGTGATAAACGGCTGCCAGGATGTACTCATTCAAGGCGTCAAAATTATTGCTGCTGGCAATAGCCCTAACACCGACGGCATTCATGTCCAATTGTCCAAAAATGTTGCAATCTTCGACACCTCCATCAAATCTGGGGACGACTGTGTCTCTATTGGCCCCGGGACCAAGGACTTGTGGATGGAACGCATATCATGCGGACCAGGCCACGGCATTAGCATAGGGAGCCTGGCCAAAGACTTGGAAGAGGAAGGAGTACAAAACGTAACAGTTAAAAATGCAATTTTGAAGGGTACCACAAATGGGCTGAGGATCAAATCTTGGGCAAGACCTAGCACCGGGTTTGTCCAAGGTGTTCGATTCCTTGATGTCGTAATGCTTAATGTCCAAAATCCCATCGTAATTGACCAGAATTACTGCCCACACAACCTCAACTGTCCTGGTCAGGTATCTGGTGTCAAAGTTAGCGATATACTGTACCAGAACATTCGAGGCACATCGACAACAGTAGTTGCAGTAAAATTTGATTGCAGTGCAACAAATCCATGCAGTGGGATAAGACTCGAAAATGTGAATTTGACTTGCCGGAAGCAAGTAGTTCAATCATACTGTACGAATGTACATGGAAAGAGTGTTGGCACTATTCAACCAAGCAGTTGTTTGTAA
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

400

Amino Acids

42.69

Weight (kDa)

7.87

Isoelectric Point (pI)

26.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 33 - 78 1.6e-06 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 65 - 388 4.2e-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
AccII CGCG 1 cut(s) 191
AciI CCGC 4 cut(s) 189, 191, 368, 735
AclWI GGATC 1 cut(s) 857
AcoI YGGCCR 1 cut(s) 768
AcsI RAATTY 2 cut(s) 1058, 1111
AcyI GRCGYC 1 cut(s) 576
AdeI CACNNNGTG 1 cut(s) 541
AfaI GTAC 8 cut(s) 324, 433, 564, 795, 832, 1016, 1150, 1158
AfiI CCNNNNNNNGG 4 cut(s) 746, 840, 875, 1088
AflIII ACRYGT 1 cut(s) 271
AgsI TTSAA 8 cut(s) 250, 356, 503, 520, 572, 826, 1139, 1184
AhlI ACTAGT 1 cut(s) 298
AjnI CCWGG 4 cut(s) 555, 739, 765, 976
AluBI AGCT 6 cut(s) 10, 119, 152, 267, 335, 447
AluI AGCT 6 cut(s) 10, 119, 152, 267, 335, 447
Alw21I GWGCWC 1 cut(s) 391
Alw26I GTCTC 2 cut(s) 74, 691
AlwI GGATC 1 cut(s) 857
Ama87I CYCGRG 1 cut(s) 698
AoxI GGCC 4 cut(s) 328, 694, 742, 768
ApeKI GCWGC 5 cut(s) 71, 170, 173, 552, 590
ApoI RAATTY 2 cut(s) 1058, 1111
Asp718I GGTACC 1 cut(s) 830
AspLEI GCGC 1 cut(s) 239
AspS9I GGNCC 3 cut(s) 695, 702, 737
AsuC2I CCSGG 3 cut(s) 699, 700, 877
AsuHPI GGTGA 1 cut(s) 266
AvaI CYCGRG 1 cut(s) 698
AvaII GGWCC 2 cut(s) 702, 737
BalI TGGCCA 1 cut(s) 770
BanI GGYRCC 1 cut(s) 830
Bbv12I GWGCWC 1 cut(s) 391
BbvCI CCTCAGC 1 cut(s) 845
BbvI GCAGC 5 cut(s) 58, 157, 160, 539, 577
BccI CCATC 4 cut(s) 284, 671, 712, 941
BceAI ACGGC 3 cut(s) 565, 631, 763
BciT130I CCWGG 4 cut(s) 557, 741, 767, 978
BcnI CCSGG 3 cut(s) 699, 700, 877
BcoDI GTCTC 2 cut(s) 74, 691
BcuI ACTAGT 1 cut(s) 298
BfaI CTAG 3 cut(s) 299, 326, 870
BfoI RGCGCY 1 cut(s) 240
BglI GCCNNNNNGGC 1 cut(s) 416
BisI GCNGC 5 cut(s) 72, 171, 174, 553, 591
BlpI GCTNAGC 1 cut(s) 120
BlsI GCNGC 5 cut(s) 73, 172, 175, 554, 592
BmcAI AGTACT 1 cut(s) 324
Bme1390I CCNGG 7 cut(s) 557, 699, 700, 741, 767, 877, 978
Bme18I GGWCC 2 cut(s) 702, 737
BmeT110I CYCGRG 1 cut(s) 698
BmgT120I GGNCC 3 cut(s) 695, 702, 737
BmiI GGNNCC 6 cut(s) 184, 460, 697, 703, 764, 832
BmrFI CCNGG 7 cut(s) 557, 699, 700, 741, 767, 877, 978
BmsI GCATC 2 cut(s) 151, 385
BoxI GACNNNNGTC 1 cut(s) 511
Bpu10I CCTNAGC 2 cut(s) 399, 845
Bpu1102I GCTNAGC 1 cut(s) 120
BpuMI CCSGG 3 cut(s) 699, 700, 877
BsaHI GRCGYC 1 cut(s) 576
BsaJI CCNNGG 7 cut(s) 27, 189, 697, 698, 705, 745, 886
Bsc4I CCNNNNNNNGG 4 cut(s) 746, 840, 875, 1088
Bse1I ACTGG 1 cut(s) 347
BseBI CCWGG 4 cut(s) 557, 741, 767, 978
BseDI CCNNGG 7 cut(s) 27, 189, 697, 698, 705, 745, 886
BseGI GGATG 2 cut(s) 565, 723
BseLI CCNNNNNNNGG 4 cut(s) 746, 840, 875, 1088
BseMII CTCAG 2 cut(s) 192, 836
BseNI ACTGG 1 cut(s) 347
BseRI GAGGAG 1 cut(s) 399
BseXI GCAGC 5 cut(s) 58, 157, 160, 539, 577
Bsh1236I CGCG 1 cut(s) 191
BshFI GGCC 4 cut(s) 330, 696, 744, 770
BshNI GGYRCC 1 cut(s) 830
BsiHKAI GWGCWC 1 cut(s) 391
BsiHKCI CYCGRG 1 cut(s) 698
BsiSI CCGG 3 cut(s) 699, 876, 1123
BslFI GGGAC 2 cut(s) 689, 715
BslI CCNNNNNNNGG 4 cut(s) 746, 840, 875, 1088
BsmAI GTCTC 2 cut(s) 74, 691
BsmFI GGGAC 2 cut(s) 689, 715
BsmI GAATGC 1 cut(s) 618
BsnI GGCC 4 cut(s) 330, 696, 744, 770
BsoBI CYCGRG 1 cut(s) 698
Bsp1286I GDGCHC 1 cut(s) 391
Bsp1407I TGTACA 1 cut(s) 1156
Bsp143I GATC 1 cut(s) 849
Bsp1720I GCTNAGC 1 cut(s) 120
BspACI CCGC 4 cut(s) 189, 191, 368, 735
BspANI GGCC 4 cut(s) 330, 696, 744, 770
BspCNI CTCAG 2 cut(s) 193, 837
BspFNI CGCG 1 cut(s) 191
BspLI GGNNCC 6 cut(s) 184, 460, 697, 703, 764, 832
BspPI GGATC 1 cut(s) 857
BspT107I GGYRCC 1 cut(s) 830
BsrGI TGTACA 1 cut(s) 1156
BsrI ACTGG 1 cut(s) 347
BssECI CCNNGG 7 cut(s) 27, 189, 697, 698, 705, 745, 886
BssMI GATC 1 cut(s) 849
BssNI GRCGYC 1 cut(s) 576
BssT1I CCWWGG 2 cut(s) 705, 886
Bst2UI CCWGG 4 cut(s) 557, 741, 767, 978
Bst4CI ACNGT 7 cut(s) 31, 683, 808, 974, 1014, 1045, 1148
Bst6I CTCTTC 1 cut(s) 777
BstACI GRCGYC 1 cut(s) 576
BstAPI GCANNNNNTGC 2 cut(s) 395, 732
BstAUI TGTACA 1 cut(s) 1156
BstC8I GCNNGC 2 cut(s) 421, 595
BstDEI CTNAG 4 cut(s) 120, 201, 399, 845
BstDSI CCRYGG 3 cut(s) 27, 189, 745
BstF5I GGATG 2 cut(s) 565, 723
BstFNI CGCG 1 cut(s) 191
BstH2I RGCGCY 1 cut(s) 240
BstHHI GCGC 1 cut(s) 239
BstKTI GATC 1 cut(s) 852
BstMAI GTCTC 2 cut(s) 74, 691
BstMBI GATC 1 cut(s) 849
BstMWI GCNNNNNNNGC 7 cut(s) 170, 182, 395, 416, 732, 741, 762
BstNI CCWGG 4 cut(s) 557, 741, 767, 978
BstNSI RCATGY 1 cut(s) 275
BstPAI GACNNNNGTC 1 cut(s) 511
BstSCI CCNGG 7 cut(s) 555, 697, 698, 739, 765, 875, 976
BstUI CGCG 1 cut(s) 191
BstV1I GCAGC 5 cut(s) 58, 157, 160, 539, 577
BstXI CCANNNNNNTGG 1 cut(s) 778
BsuRI GGCC 4 cut(s) 330, 696, 744, 770
BtgI CCRYGG 3 cut(s) 27, 189, 745
BtsCI GGATG 2 cut(s) 565, 723
BtsI GCAGTG 2 cut(s) 1075, 1093
BtsIMutI CAGTG 2 cut(s) 1075, 1093
Cac8I GCNNGC 2 cut(s) 421, 595
CfoI GCGC 1 cut(s) 239
Cfr13I GGNCC 3 cut(s) 695, 702, 737
Cfr42I CCGCGG 1 cut(s) 192
Cfr9I CCCGGG 1 cut(s) 698
CseI GACGC 1 cut(s) 565
Csp6I GTAC 8 cut(s) 323, 432, 563, 794, 831, 1015, 1149, 1157
CviAII CATG 5 cut(s) 272, 623, 732, 1083, 1160
CviQI GTAC 8 cut(s) 323, 432, 563, 794, 831, 1015, 1149, 1157
DdeI CTNAG 4 cut(s) 120, 201, 399, 845
DpnI GATC 1 cut(s) 851
DpnII GATC 1 cut(s) 849
DraIII CACNNNGTG 1 cut(s) 541
DrdI GACNNNNNNGTC 1 cut(s) 683
DseDI GACNNNNNNGTC 1 cut(s) 683
EaeI YGGCCR 1 cut(s) 768
Eam1104I CTCTTC 1 cut(s) 777
EarI CTCTTC 1 cut(s) 777
Eco130I CCWWGG 2 cut(s) 705, 886
Eco47I GGWCC 2 cut(s) 702, 737
Eco88I CYCGRG 1 cut(s) 698
EcoRII CCWGG 4 cut(s) 555, 739, 765, 976
EcoT14I CCWWGG 2 cut(s) 705, 886
ErhI CCWWGG 2 cut(s) 705, 886
FaeI CATG 5 cut(s) 275, 626, 735, 1086, 1163
FalI AAGNNNNNCTT 2 cut(s) 141, 173
FaqI GGGAC 2 cut(s) 689, 715
FatI CATG 5 cut(s) 271, 622, 731, 1082, 1159
Fnu4HI GCNGC 5 cut(s) 72, 171, 174, 553, 591
FokI GGATG 2 cut(s) 572, 730
Fsp4HI GCNGC 5 cut(s) 72, 171, 174, 553, 591
FspBI CTAG 3 cut(s) 299, 326, 870
GlaI GCGC 1 cut(s) 238
GluI GCNGC 5 cut(s) 72, 171, 174, 553, 591
HaeII RGCGCY 1 cut(s) 240
HaeIII GGCC 4 cut(s) 330, 696, 744, 770
HapII CCGG 3 cut(s) 699, 876, 1123
HgaI GACGC 1 cut(s) 565
HhaI GCGC 1 cut(s) 239
Hin1I GRCGYC 1 cut(s) 576
Hin1II CATG 5 cut(s) 275, 626, 735, 1086, 1163
Hin6I GCGC 1 cut(s) 237
HinP1I GCGC 1 cut(s) 237
HindIII AAGCTT 1 cut(s) 150
HinfI GANTC 5 cut(s) 4, 140, 194, 897, 1098
HpaII CCGG 3 cut(s) 699, 876, 1123
HphI GGTGA 1 cut(s) 266
Hpy166II GTNNAC 1 cut(s) 373
Hpy188I TCNGA 2 cut(s) 202, 285
Hpy188III TCNNGA 2 cut(s) 106, 158
Hpy8I GTNNAC 1 cut(s) 373
Hpy99I CGWCG 1 cut(s) 617
HpyAV CCTTC 6 cut(s) 211, 256, 350, 497, 782, 820
HpyCH4III ACNGT 7 cut(s) 31, 683, 808, 974, 1014, 1045, 1148
HpyCH4IV ACGT 2 cut(s) 102, 801
HpyCH4V TGCA 8 cut(s) 261, 423, 647, 818, 1052, 1068, 1073, 1086
HpyF10VI GCNNNNNNNGC 7 cut(s) 170, 182, 395, 416, 732, 741, 762
HpyF3I CTNAG 4 cut(s) 120, 201, 399, 845
HpySE526I ACGT 2 cut(s) 102, 801
Hsp92I GRCGYC 1 cut(s) 576
Hsp92II CATG 5 cut(s) 275, 626, 735, 1086, 1163
HspAI GCGC 1 cut(s) 237
KpnI GGTACC 1 cut(s) 834
KspI CCGCGG 1 cut(s) 192
Kzo9I GATC 1 cut(s) 849
LmnI GCTCC 5 cut(s) 116, 182, 386, 458, 762
Lsp1109I GCAGC 5 cut(s) 58, 157, 160, 539, 577
LweI GCATC 2 cut(s) 151, 385
MaeI CTAG 3 cut(s) 299, 326, 870
MaeII ACGT 2 cut(s) 102, 801
MaeIII GTNAC 5 cut(s) 133, 254, 274, 361, 802
MalI GATC 1 cut(s) 851
MboI GATC 1 cut(s) 849
MboII GAAGA 2 cut(s) 643, 794
MfeI CAATTG 1 cut(s) 629
MhlI GDGCHC 1 cut(s) 391
MlsI TGGCCA 1 cut(s) 770
MluCI AATT 8 cut(s) 425, 582, 629, 819, 939, 949, 1058, 1111
MluNI TGGCCA 1 cut(s) 770
MlyI GAGTC 1 cut(s) 1092
MmeI TCCRAC 1 cut(s) 361
MnlI CCTC 8 cut(s) 196, 216, 377, 670, 778, 840, 977, 1022
Mox20I TGGCCA 1 cut(s) 770
MscI TGGCCA 1 cut(s) 770
MseI TTAA 3 cut(s) 428, 810, 918
Msp20I TGGCCA 1 cut(s) 770
MspA1I CMGCKG 2 cut(s) 191, 447
MspI CCGG 3 cut(s) 699, 876, 1123
MspR9I CCNGG 7 cut(s) 557, 699, 700, 741, 767, 877, 978
MunI CAATTG 1 cut(s) 629
Mva1269I GAATGC 1 cut(s) 618
MvaI CCWGG 4 cut(s) 557, 741, 767, 978
MvnI CGCG 1 cut(s) 191
MwoI GCNNNNNNNGC 7 cut(s) 170, 182, 395, 416, 732, 741, 762
NciI CCSGG 3 cut(s) 699, 700, 877
NdeII GATC 1 cut(s) 849
NlaIII CATG 5 cut(s) 275, 626, 735, 1086, 1163
NlaIV GGNNCC 6 cut(s) 184, 460, 697, 703, 764, 832
NmuCI GTSAC 3 cut(s) 133, 254, 274
NspI RCATGY 1 cut(s) 275
PciI ACATGT 1 cut(s) 271
PctI GAATGC 1 cut(s) 618
PfeI GAWTC 4 cut(s) 4, 140, 194, 897
PflFI GACNNNGTC 1 cut(s) 683
PflMI CCANNNNNTGG 1 cut(s) 1088
PkrI GCNGC 5 cut(s) 73, 172, 175, 554, 592
PleI GAGTC 1 cut(s) 1092
PpsI GAGTC 1 cut(s) 1092
PscI ACATGT 1 cut(s) 271
PshAI GACNNNNGTC 1 cut(s) 511
Psp6I CCWGG 4 cut(s) 555, 739, 765, 976
PspGI CCWGG 4 cut(s) 555, 739, 765, 976
PspN4I GGNNCC 6 cut(s) 184, 460, 697, 703, 764, 832
PspPI GGNCC 3 cut(s) 695, 702, 737
PsyI GACNNNGTC 1 cut(s) 683
PvuII CAGCTG 1 cut(s) 447
RsaI GTAC 8 cut(s) 324, 433, 564, 795, 832, 1016, 1150, 1158
RsaNI GTAC 8 cut(s) 323, 432, 563, 794, 831, 1015, 1149, 1157
SacII CCGCGG 1 cut(s) 192
SaqAI TTAA 3 cut(s) 428, 810, 918
SatI GCNGC 5 cut(s) 72, 171, 174, 553, 591
Sau3AI GATC 1 cut(s) 849
Sau96I GGNCC 3 cut(s) 695, 702, 737
ScaI AGTACT 1 cut(s) 324
SchI GAGTC 1 cut(s) 1092
ScrFI CCNGG 7 cut(s) 557, 699, 700, 741, 767, 877, 978
SduI GDGCHC 1 cut(s) 391
SfaNI GCATC 2 cut(s) 151, 385
Sfr303I CCGCGG 1 cut(s) 192
SgrBI CCGCGG 1 cut(s) 192
SinI GGWCC 2 cut(s) 702, 737
SmaI CCCGGG 1 cut(s) 700
SpeI ACTAGT 1 cut(s) 298
Sse9I AATT 8 cut(s) 425, 582, 629, 819, 939, 949, 1058, 1111
SsiI CCGC 4 cut(s) 189, 191, 368, 735
SspMI CTAG 3 cut(s) 299, 326, 870
StyD4I CCNGG 7 cut(s) 555, 697, 698, 739, 765, 875, 976
StyI CCWWGG 2 cut(s) 705, 886
TaaI ACNGT 7 cut(s) 31, 683, 808, 974, 1014, 1045, 1148
TaiI ACGT 2 cut(s) 105, 804
TaqI TCGA 5 cut(s) 654, 895, 1027, 1037, 1101
TasI AATT 8 cut(s) 425, 582, 629, 819, 939, 949, 1058, 1111
TatI WGTACW 4 cut(s) 322, 562, 793, 1156
TfiI GAWTC 4 cut(s) 4, 140, 194, 897
Tru1I TTAA 3 cut(s) 428, 810, 918
Tru9I TTAA 3 cut(s) 428, 810, 918
TscAI CASTG 2 cut(s) 1075, 1093
TseFI GTSAC 3 cut(s) 133, 254, 274
TseI GCWGC 5 cut(s) 71, 170, 173, 552, 590
Tsp45I GTSAC 3 cut(s) 133, 254, 274
TspDTI ATGAA 2 cut(s) 186, 611
TspGWI ACGGA 1 cut(s) 152
TspMI CCCGGG 1 cut(s) 698
TspRI CASTG 2 cut(s) 1075, 1093
Tth111I GACNNNGTC 1 cut(s) 683
Van91I CCANNNNNTGG 1 cut(s) 1088
VpaK11BI GGWCC 2 cut(s) 702, 737
XapI RAATTY 2 cut(s) 1058, 1111
XceI RCATGY 1 cut(s) 275
XmaI CCCGGG 1 cut(s) 698
XspI CTAG 3 cut(s) 299, 326, 870
ZrmI AGTACT 1 cut(s) 324
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.