RchiOBHm_Chr2g0085391

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0000702
Physical Location & Seq
Reverse (-)
836348 .. 838807
2460 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ46094

Sequence Viewer

Length: 1170 bp
ATGGCAAACCACAAATGGCAAACCATATTCCTATTTATTTTCATCAACTCCGCCATGGCCAAGGCAGTCACTTACAGCGTGACCACCTTAGGAGCCAAACCAGATGGCAAGACCGACTCAACTAAGGCCTTCCTTTCTGCATGGGCTAAAGCTTGTGCCTCGGTGAAACCCGCCGTGATTTACGTGCCGGCAGGGAGGTTCTTGCTCCGCAATGCCTTGTTCAGCGGACCATGCAAGAACAGCCGCATCACCTTCCGCATCGCCGGCACCCTTGTTGCTCCGTCCGATTACCAGGTCATCGGAAATGCCGGTAACTGGCTTCTCTTTCTGCACGTCAGCGGAGTCACCATTTCCGGAGGAATTCTTGACGGTCAAGGCACTGGTTTGTGGGCTTGCAAGAACTCCGGCAAGAGTTGCCCCACGGGAGCCACGACATTGAGTTTTTCCAACTCCAACAATATTGTGGTTAGCGGATTGGTATCTCTAAACAGCCAAATGTTTCACATAGTCGTTAACGGTTGCAACAATGTGAAAATGCAAGGGGTTAAAGTATCGGCCTCCGGCAACAGCCCTAACACCGACGGTATCCATGTTCAAATGTCATCGGGTGTTACCATTCTCAACTCAAAGATCTCTACTGGTGATGATTGTGTATCAATTGGTCCCGGCACTTCTAACTTGTGGATTGAAAATGTTGCATGCGGACCGGGTCATGGAATTAGCATTGGGAGTCTAGGCAAAGACCTACAGGAAGCTGGTGTGCAAAATGTAACGGTGAAAACAGTGACATTTACCAATACTCAAAATGGTGTGAGAATCAAGTCCTGGGGGAGGGCTAGCACTGGATTTGCCAGGAACATTCTTTTCCAACATGCTGTCATGATTAACGTTCAAAATCCGATCGTCATCGATCAACAATATTGTCCCGACAAAAAGGGCTGCCCTGGCCAGGTTTCTGGAGTTAAAATCAGTGATGTGACATATCAAGACATTCATGGCACATCGGCAACAGAAGTTGCAGTGAAATTCGATTGTAGTTCAAAGTACCCATGTAGCAGAATCAGATTGGAGAATGTGAAGTTCACATACAAGAACCAAGAAGCTCTAGCTTCTTGTAGCAATGCTGGTGGAACATCTGCGGGTATGGTGCTGCCTACAAGTTGTCTATAG
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

389

Amino Acids

40.95

Weight (kDa)

9.26

Isoelectric Point (pI)

28.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 26 - 277 1e-14 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 52 - 375 2.6e-88 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) 266
AccIII TCCGGA 1 cut(s) 353
AclI AACGTT 1 cut(s) 888
AcoI YGGCCR 2 cut(s) 57, 946
AcsI RAATTY 2 cut(s) 360, 1025
AfaI GTAC 1 cut(s) 1046
AfiI CCNNNNNNNGG 4 cut(s) 315, 713, 831, 949
AgsI TTSAA 4 cut(s) 596, 689, 893, 1041
AjiI CACGTC 1 cut(s) 334
AjnI CCWGG 5 cut(s) 291, 824, 851, 943, 948
AluBI AGCT 4 cut(s) 152, 755, 1103, 1109
AluI AGCT 4 cut(s) 152, 755, 1103, 1109
Aor13HI TCCGGA 1 cut(s) 353
AoxI GGCC 4 cut(s) 57, 126, 555, 946
ApeKI GCWGC 2 cut(s) 939, 1150
ApoI RAATTY 2 cut(s) 360, 1025
AspS9I GGNCC 3 cut(s) 227, 662, 704
AsuC2I CCSGG 2 cut(s) 666, 708
AsuHPI GGTGA 5 cut(s) 175, 241, 337, 653, 787
AsuNHI GCTAGC 1 cut(s) 836
AvaII GGWCC 3 cut(s) 227, 662, 704
AxyI CCTNAGG 1 cut(s) 88
BalI TGGCCA 2 cut(s) 59, 948
BanI GGYRCC 1 cut(s) 266
BarI GAAGNNNNNNTAC 2 cut(s) 1070, 1102
BbvI GCAGC 2 cut(s) 926, 1137
BccI CCATC 1 cut(s) 98
BceAI ACGGC 1 cut(s) 158
BciT130I CCWGG 5 cut(s) 293, 826, 853, 945, 950
BciVI GTATCC 1 cut(s) 596
BcnI CCSGG 2 cut(s) 666, 708
BfaI CTAG 3 cut(s) 734, 837, 1106
BfmI CTRYAG 2 cut(s) 746, 1166
BfuI GTATCC 1 cut(s) 596
BglII AGATCT 1 cut(s) 630
BisI GCNGC 3 cut(s) 244, 940, 1151
BlsI GCNGC 3 cut(s) 245, 941, 1152
Bme1390I CCNGG 7 cut(s) 293, 666, 708, 826, 853, 945, 950
Bme18I GGWCC 3 cut(s) 227, 662, 704
BmgBI CACGTC 1 cut(s) 334
BmgT120I GGNCC 3 cut(s) 227, 662, 704
BmiI GGNNCC 4 cut(s) 94, 268, 427, 664
BmrFI CCNGG 7 cut(s) 293, 666, 708, 826, 853, 945, 950
BmsI GCATC 2 cut(s) 255, 267
BmtI GCTAGC 1 cut(s) 840
BpmI CTGGAG 1 cut(s) 978
BpuMI CCSGG 2 cut(s) 666, 708
Bsa29I ATCGAT 1 cut(s) 909
BsaAI YACGTR 1 cut(s) 184
BsaBI GATNNNNATC 2 cut(s) 478, 905
BsaJI CCNNGG 6 cut(s) 54, 60, 159, 420, 825, 943
BsaWI WCCGGW 1 cut(s) 353
Bsc4I CCNNNNNNNGG 4 cut(s) 315, 713, 831, 949
Bse118I RCCGGY 3 cut(s) 187, 263, 308
Bse1I ACTGG 4 cut(s) 320, 385, 643, 847
Bse21I CCTNAGG 1 cut(s) 88
Bse3DI GCAATG 2 cut(s) 217, 1126
Bse8I GATNNNNATC 2 cut(s) 478, 905
BseAI TCCGGA 1 cut(s) 353
BseBI CCWGG 5 cut(s) 293, 826, 853, 945, 950
BseCI ATCGAT 1 cut(s) 909
BseDI CCNNGG 6 cut(s) 54, 60, 159, 420, 825, 943
BseJI GATNNNNATC 2 cut(s) 478, 905
BseLI CCNNNNNNNGG 4 cut(s) 315, 713, 831, 949
BseMI GCAATG 2 cut(s) 217, 1126
BseNI ACTGG 4 cut(s) 320, 385, 643, 847
BseXI GCAGC 2 cut(s) 926, 1137
BsgI GTGCAG 1 cut(s) 314
Bsh1285I CGRYCG 1 cut(s) 903
BshFI GGCC 4 cut(s) 59, 128, 557, 948
BshNI GGYRCC 1 cut(s) 266
BshVI ATCGAT 1 cut(s) 909
BsiEI CGRYCG 1 cut(s) 903
BsiSI CCGG 8 cut(s) 188, 264, 309, 354, 405, 561, 666, 707
BslFI GGGAC 2 cut(s) 648, 909
BslI CCNNNNNNNGG 4 cut(s) 315, 713, 831, 949
BsmFI GGGAC 2 cut(s) 648, 909
BsnI GGCC 4 cut(s) 59, 128, 557, 948
Bsp13I TCCGGA 1 cut(s) 353
Bsp143I GATC 3 cut(s) 630, 900, 910
Bsp19I CCATGG 1 cut(s) 54
BspANI GGCC 4 cut(s) 59, 128, 557, 948
BspDI ATCGAT 1 cut(s) 909
BspEI TCCGGA 1 cut(s) 353
BspHI TCATGA 1 cut(s) 879
BspLI GGNNCC 4 cut(s) 94, 268, 427, 664
BspOI GCTAGC 1 cut(s) 840
BspT107I GGYRCC 1 cut(s) 266
BsrDI GCAATG 2 cut(s) 217, 1126
BsrFI RCCGGY 3 cut(s) 187, 263, 308
BsrI ACTGG 4 cut(s) 320, 385, 643, 847
BssAI RCCGGY 3 cut(s) 187, 263, 308
BssECI CCNNGG 6 cut(s) 54, 60, 159, 420, 825, 943
BssMI GATC 3 cut(s) 630, 900, 910
BssT1I CCWWGG 2 cut(s) 54, 60
Bst2UI CCWGG 5 cut(s) 293, 826, 853, 945, 950
Bst4CI ACNGT 5 cut(s) 371, 518, 584, 775, 784
BstAPI GCANNNNNTGC 1 cut(s) 414
BstBAI YACGTR 1 cut(s) 184
BstC8I GCNNGC 5 cut(s) 189, 265, 394, 700, 838
BstDEI CTNAG 2 cut(s) 88, 123
BstDSI CCRYGG 2 cut(s) 54, 420
BstENI CCTNNNNNAGG 1 cut(s) 829
BstKTI GATC 3 cut(s) 633, 903, 913
BstMBI GATC 3 cut(s) 630, 900, 910
BstMCI CGRYCG 1 cut(s) 903
BstMWI GCNNNNNNNGC 5 cut(s) 231, 240, 264, 414, 945
BstNI CCWGG 5 cut(s) 293, 826, 853, 945, 950
BstNSI RCATGY 2 cut(s) 702, 875
BstSCI CCNGG 7 cut(s) 291, 664, 706, 824, 851, 943, 948
BstSFI CTRYAG 2 cut(s) 746, 1166
BstV1I GCAGC 2 cut(s) 926, 1137
BstX2I RGATCY 1 cut(s) 630
BstXI CCANNNNNNTGG 1 cut(s) 956
BstYI RGATCY 1 cut(s) 630
Bsu15I ATCGAT 1 cut(s) 909
Bsu36I CCTNAGG 1 cut(s) 88
BsuI GTATCC 1 cut(s) 596
BsuRI GGCC 4 cut(s) 59, 128, 557, 948
BsuTUI ATCGAT 1 cut(s) 909
BtgI CCRYGG 2 cut(s) 54, 420
BtgZI GCGATG 1 cut(s) 244
BtrI CACGTC 1 cut(s) 334
BtsI GCAGTG 1 cut(s) 1026
BtsIMutI CAGTG 5 cut(s) 378, 789, 840, 976, 1026
Cac8I GCNNGC 5 cut(s) 189, 265, 394, 700, 838
CciI TCATGA 1 cut(s) 879
Cfr10I RCCGGY 3 cut(s) 187, 263, 308
Cfr13I GGNCC 3 cut(s) 227, 662, 704
ClaI ATCGAT 1 cut(s) 909
CpoI CGGWCCG 1 cut(s) 704
CsiI ACCWGGT 1 cut(s) 291
Csp6I GTAC 1 cut(s) 1045
CspCI CAANNNNNGTGG 2 cut(s) 1108, 1143
CspI CGGWCCG 1 cut(s) 704
CviQI GTAC 1 cut(s) 1045
DdeI CTNAG 2 cut(s) 88, 123
DpnI GATC 3 cut(s) 632, 902, 912
DpnII GATC 3 cut(s) 630, 900, 910
EaeI YGGCCR 2 cut(s) 57, 946
EciI GGCGGA 1 cut(s) 40
Eco130I CCWWGG 2 cut(s) 54, 60
Eco147I AGGCCT 1 cut(s) 128
Eco47I GGWCC 3 cut(s) 227, 662, 704
Eco81I CCTNAGG 1 cut(s) 88
EcoNI CCTNNNNNAGG 1 cut(s) 829
EcoRI GAATTC 1 cut(s) 360
EcoRII CCWGG 5 cut(s) 291, 824, 851, 943, 948
EcoT14I CCWWGG 2 cut(s) 54, 60
ErhI CCWWGG 2 cut(s) 54, 60
FaqI GGGAC 2 cut(s) 648, 909
FauI CCCGC 2 cut(s) 178, 1132
Fnu4HI GCNGC 3 cut(s) 244, 940, 1151
Fsp4HI GCNGC 3 cut(s) 244, 940, 1151
FspBI CTAG 3 cut(s) 734, 837, 1106
GluI GCNGC 3 cut(s) 244, 940, 1151
GsuI CTGGAG 1 cut(s) 978
HaeIII GGCC 4 cut(s) 59, 128, 557, 948
HapII CCGG 8 cut(s) 188, 264, 309, 354, 405, 561, 666, 707
HincII GTYRAC 1 cut(s) 514
HindII GTYRAC 1 cut(s) 514
HindIII AAGCTT 1 cut(s) 150
HinfI GANTC 5 cut(s) 116, 342, 730, 816, 1059
HpaI GTTAAC 1 cut(s) 514
HpaII CCGG 8 cut(s) 188, 264, 309, 354, 405, 561, 666, 707
HphI GGTGA 5 cut(s) 175, 241, 337, 653, 787
Hpy166II GTNNAC 2 cut(s) 514, 1083
Hpy188I TCNGA 4 cut(s) 286, 302, 900, 1064
Hpy188III TCNNGA 6 cut(s) 354, 365, 880, 926, 957, 986
Hpy8I GTNNAC 2 cut(s) 514, 1083
Hpy99I CGWCG 1 cut(s) 584
HpyAV CCTTC 2 cut(s) 139, 262
HpyCH4III ACNGT 5 cut(s) 371, 518, 584, 775, 784
HpyCH4IV ACGT 3 cut(s) 183, 333, 888
HpyCH4V TGCA 9 cut(s) 140, 234, 331, 396, 522, 538, 698, 763, 1019
HpyF10VI GCNNNNNNNGC 5 cut(s) 231, 240, 264, 414, 945
HpyF3I CTNAG 2 cut(s) 88, 123
HpySE526I ACGT 3 cut(s) 183, 333, 888
Kpn2I TCCGGA 1 cut(s) 353
KroI GCCGGC 2 cut(s) 187, 263
KroNI GCCGGC 2 cut(s) 189, 265
KspAI GTTAAC 1 cut(s) 514
Kzo9I GATC 3 cut(s) 630, 900, 910
LmnI GCTCC 4 cut(s) 92, 210, 283, 425
Lsp1109I GCAGC 2 cut(s) 926, 1137
LweI GCATC 2 cut(s) 255, 267
MabI ACCWGGT 1 cut(s) 291
MaeI CTAG 3 cut(s) 734, 837, 1106
MaeII ACGT 3 cut(s) 183, 333, 888
MaeIII GTNAC 8 cut(s) 67, 79, 311, 343, 610, 769, 784, 976
MalI GATC 3 cut(s) 632, 902, 912
MboI GATC 3 cut(s) 630, 900, 910
MfeI CAATTG 1 cut(s) 657
MflI RGATCY 1 cut(s) 630
MlsI TGGCCA 2 cut(s) 59, 948
MluCI AATT 4 cut(s) 360, 657, 717, 1025
MluNI TGGCCA 2 cut(s) 59, 948
MlyI GAGTC 3 cut(s) 110, 351, 739
MmeI TCCRAC 3 cut(s) 471, 477, 892
MnlI CCTC 5 cut(s) 169, 189, 350, 568, 825
Mox20I TGGCCA 2 cut(s) 59, 948
MroI TCCGGA 1 cut(s) 353
MroNI GCCGGC 2 cut(s) 187, 263
MscI TGGCCA 2 cut(s) 59, 948
MseI TTAA 4 cut(s) 513, 546, 885, 963
Msp20I TGGCCA 2 cut(s) 59, 948
MspA1I CMGCKG 2 cut(s) 225, 339
MspI CCGG 8 cut(s) 188, 264, 309, 354, 405, 561, 666, 707
MspR9I CCNGG 7 cut(s) 293, 666, 708, 826, 853, 945, 950
MunI CAATTG 1 cut(s) 657
MvaI CCWGG 5 cut(s) 293, 826, 853, 945, 950
MwoI GCNNNNNNNGC 5 cut(s) 231, 240, 264, 414, 945
NaeI GCCGGC 2 cut(s) 189, 265
NciI CCSGG 2 cut(s) 666, 708
NcoI CCATGG 1 cut(s) 54
NdeII GATC 3 cut(s) 630, 900, 910
NgoMIV GCCGGC 2 cut(s) 187, 263
NheI GCTAGC 1 cut(s) 836
NlaIV GGNNCC 4 cut(s) 94, 268, 427, 664
NmuCI GTSAC 5 cut(s) 67, 79, 343, 784, 976
NspI RCATGY 2 cut(s) 702, 875
PaeI GCATGC 1 cut(s) 702
PagI TCATGA 1 cut(s) 879
PceI AGGCCT 1 cut(s) 128
PcsI WCGNNNNNNNCGW 1 cut(s) 428
PdiI GCCGGC 2 cut(s) 189, 265
PfeI GAWTC 2 cut(s) 816, 1059
PflFI GACNNNGTC 1 cut(s) 708
PkrI GCNGC 3 cut(s) 245, 941, 1152
Ple19I CGATCG 1 cut(s) 903
PleI GAGTC 3 cut(s) 110, 350, 738
PpsI GAGTC 3 cut(s) 110, 350, 738
Ppu21I YACGTR 1 cut(s) 184
Psp1406I AACGTT 1 cut(s) 888
Psp6I CCWGG 5 cut(s) 291, 824, 851, 943, 948
PspGI CCWGG 5 cut(s) 291, 824, 851, 943, 948
PspN4I GGNNCC 4 cut(s) 94, 268, 427, 664
PspPI GGNCC 3 cut(s) 227, 662, 704
PsuI RGATCY 1 cut(s) 630
PsyI GACNNNGTC 1 cut(s) 708
PvuI CGATCG 1 cut(s) 903
RsaI GTAC 1 cut(s) 1046
RsaNI GTAC 1 cut(s) 1045
Rsr2I CGGWCCG 1 cut(s) 704
RsrII CGGWCCG 1 cut(s) 704
SaqAI TTAA 4 cut(s) 513, 546, 885, 963
SatI GCNGC 3 cut(s) 244, 940, 1151
Sau3AI GATC 3 cut(s) 630, 900, 910
Sau96I GGNCC 3 cut(s) 227, 662, 704
SchI GAGTC 3 cut(s) 110, 351, 739
ScrFI CCNGG 7 cut(s) 293, 666, 708, 826, 853, 945, 950
SexAI ACCWGGT 1 cut(s) 291
SfaNI GCATC 2 cut(s) 255, 267
SfcI CTRYAG 2 cut(s) 746, 1166
SinI GGWCC 3 cut(s) 227, 662, 704
SphI GCATGC 1 cut(s) 702
Sse9I AATT 4 cut(s) 360, 657, 717, 1025
SseBI AGGCCT 1 cut(s) 128
SspI AATATT 2 cut(s) 460, 920
SspMI CTAG 3 cut(s) 734, 837, 1106
StuI AGGCCT 1 cut(s) 128
StyD4I CCNGG 7 cut(s) 291, 664, 706, 824, 851, 943, 948
StyI CCWWGG 2 cut(s) 54, 60
TaaI ACNGT 5 cut(s) 371, 518, 584, 775, 784
TaiI ACGT 3 cut(s) 186, 336, 891
TaqI TCGA 2 cut(s) 909, 1029
TaqII GACCGA 1 cut(s) 128
TasI AATT 4 cut(s) 360, 657, 717, 1025
TauI GCSGC 1 cut(s) 246
TfiI GAWTC 2 cut(s) 816, 1059
Tru1I TTAA 4 cut(s) 513, 546, 885, 963
Tru9I TTAA 4 cut(s) 513, 546, 885, 963
TscAI CASTG 5 cut(s) 385, 789, 847, 976, 1026
TseFI GTSAC 5 cut(s) 67, 79, 343, 784, 976
TseI GCWGC 2 cut(s) 939, 1150
Tsp45I GTSAC 5 cut(s) 67, 79, 343, 784, 976
TspDTI ATGAA 2 cut(s) 31, 983
TspGWI ACGGA 1 cut(s) 270
TspRI CASTG 5 cut(s) 385, 789, 847, 976, 1026
Tth111I GACNNNGTC 1 cut(s) 708
VpaK11BI GGWCC 3 cut(s) 227, 662, 704
XagI CCTNNNNNAGG 1 cut(s) 829
XapI RAATTY 2 cut(s) 360, 1025
XceI RCATGY 2 cut(s) 702, 875
XcmI CCANNNNNNNNNTGG 1 cut(s) 460
XspI CTAG 3 cut(s) 734, 837, 1106
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.