Rh2BG267900

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2B
OG0000702
Physical Location & Seq
Reverse (-)
28859300 .. 28861294
1995 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2BG267900.1

Sequence Viewer

Length: 987 bp
ATGGAAAATCCCATAAGCCTCATTTTTCTCTCACTTTTTATCGTCTTCATAAACTCAGCCGTATCAACTGCAGTCACTTACAATGTGGCCAATTTAGGAGCCAAACCAGATGGCAAAACTGACTCAACCAAGGCCTTCCTTTCTGGATGGGCCGAAGCTTGTGCCTCGGCCAAGCCCTCGGTCATTTATGTCCCAGCCGGAAGGTTCTTGCTTCGCAATGCGATTTTCAACGGGCCATGCAAGAACAGGGCCATCACGTTTCGCATTGCTGGCACACTCGTCGCCCCTTCAGATTACCAGGTCATAGGAAATGCTGGTTACTGGCTTTTCTTTAGGCATGTGAATGGGGTTACCATCTCCGGTGGAATTCTTGACGGACAAGGCACTGGTTTGTGGGATTGCAAGGCCTCCGGCAAGGTTTGCGCCAGCGGAGCAACTACACTGGAGTTTTCCAACTCGAACAACATTGTCGTGAGTGGAGTGACATCCCTAAACGCCCAAATGTTCCACATAGTCATCAACGGCTGCAACAATGTGAAAGTGCAAGGTGTTAGGGTTTCTGCCTCTGGTCACAGCCCAAACACCGATGGAATCCACGTCCAAAAGTCCTCGGGCGTCACTATTCTCGACTCTAAGATTGCAACCGGTGACGACTGTGTCTCAATTGGTCCGGCAACAACTAATCTATGGATTGAAAACGTCGCATGTGGACCCGGCCATGGAATCAGCATTGGGAGTTTAGGCAAGGACCTGGTGGAGGATGGAGTGCAAAATGTAACGGTCAAAACTGTTACATTTACAGGTACTCAAAATGGTCTGAGAATCAAATCATGGGGAAGACCCAGTACTGGGTTTGCTAAGAACATTCTTTTCCAACATGCTGTCATGTTCAATGTCCAAAATCCGATCGTTATTGATCAAAATTATTGCCCAGGCGAAAAAGGGTGCCCTGGTCAGGTGAGATATTGTTTACGACTACTTGTATAA
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

328

Amino Acids

34.6

Weight (kDa)

8.9

Isoelectric Point (pI)

21.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 28 - 279 3.2e-13 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 54 - 314 5.8e-70 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)
AasI GACNNNNNNGTC 1 cut(s) 656
AccB1I GGYRCC 1 cut(s) 945
AciI CCGC 1 cut(s) 429
AcoI YGGCCR 3 cut(s) 87, 168, 715
AcsI RAATTY 1 cut(s) 366
AcuI CTGAAG 1 cut(s) 273
AcyI GRCGYC 1 cut(s) 615
AfaI GTAC 2 cut(s) 805, 847
AfiI CCNNNNNNNGG 5 cut(s) 719, 757, 848, 849, 955
AgeI ACCGGT 1 cut(s) 644
AgsI TTSAA 3 cut(s) 229, 695, 892
AjiI CACGTC 1 cut(s) 598
AjnI CCWGG 4 cut(s) 297, 750, 931, 949
AluBI AGCT 1 cut(s) 158
AluI AGCT 1 cut(s) 158
Alw26I GTCTC 1 cut(s) 664
Ama87I CYCGRG 1 cut(s) 610
AoxI GGCC 8 cut(s) 87, 132, 150, 168, 233, 249, 405, 715
ApeKI GCWGC 1 cut(s) 525
ApoI RAATTY 1 cut(s) 366
AsiGI ACCGGT 1 cut(s) 644
AspLEI GCGC 1 cut(s) 425
AspS9I GGNCC 6 cut(s) 150, 233, 249, 668, 710, 748
AsuC2I CCSGG 1 cut(s) 714
AsuHPI GGTGA 2 cut(s) 659, 970
AvaI CYCGRG 1 cut(s) 610
AvaII GGWCC 3 cut(s) 668, 710, 748
BaeGI GKGCMC 1 cut(s) 950
BalI TGGCCA 1 cut(s) 89
BanI GGYRCC 1 cut(s) 945
BarI GAAGNNNNNNTAC 2 cut(s) 829, 861
BbsI GAAGAC 2 cut(s) 37, 844
BbvI GCAGC 1 cut(s) 512
BccI CCATC 6 cut(s) 104, 141, 260, 362, 581, 755
BceAI ACGGC 2 cut(s) 44, 538
BcgI CGANNNNNNTGC 4 cut(s) 143, 177, 262, 296
BciT130I CCWGG 4 cut(s) 299, 752, 933, 951
BclI TGATCA 1 cut(s) 916
BcnI CCSGG 1 cut(s) 714
BcoDI GTCTC 1 cut(s) 664
BfmI CTRYAG 1 cut(s) 69
BisI GCNGC 1 cut(s) 526
BlsI GCNGC 1 cut(s) 527
BmcAI AGTACT 1 cut(s) 847
Bme1390I CCNGG 5 cut(s) 299, 714, 752, 933, 951
Bme18I GGWCC 3 cut(s) 668, 710, 748
BmeT110I CYCGRG 1 cut(s) 610
BmgBI CACGTC 1 cut(s) 598
BmgT120I GGNCC 6 cut(s) 150, 233, 249, 668, 710, 748
BmiI GGNNCC 3 cut(s) 100, 712, 947
BmrFI CCNGG 5 cut(s) 299, 714, 752, 933, 951
BmrI ACTGGG 2 cut(s) 837, 858
BmuI ACTGGG 2 cut(s) 837, 858
BpiI GAAGAC 2 cut(s) 37, 844
BpmI CTGGAG 1 cut(s) 464
BpuMI CCSGG 1 cut(s) 714
BsaHI GRCGYC 1 cut(s) 615
BsaJI CCNNGG 7 cut(s) 129, 165, 177, 609, 718, 931, 949
BsaWI WCCGGW 2 cut(s) 359, 644
Bsc4I CCNNNNNNNGG 5 cut(s) 719, 757, 848, 849, 955
Bse118I RCCGGY 1 cut(s) 644
Bse1I ACTGG 5 cut(s) 326, 391, 447, 843, 853
Bse3DI GCAATG 2 cut(s) 223, 264
BseBI CCWGG 4 cut(s) 299, 752, 933, 951
BseDI CCNNGG 7 cut(s) 129, 165, 177, 609, 718, 931, 949
BseGI GGATG 3 cut(s) 152, 485, 766
BseLI CCNNNNNNNGG 5 cut(s) 719, 757, 848, 849, 955
BseMI GCAATG 2 cut(s) 223, 264
BseMII CTCAG 2 cut(s) 69, 809
BseNI ACTGG 5 cut(s) 326, 391, 447, 843, 853
BseSI GKGCMC 1 cut(s) 950
BseXI GCAGC 1 cut(s) 512
BseYI CCCAGC 1 cut(s) 193
Bsh1285I CGRYCG 1 cut(s) 909
BshFI GGCC 8 cut(s) 89, 134, 152, 170, 235, 251, 407, 717
BshNI GGYRCC 1 cut(s) 945
BshTI ACCGGT 1 cut(s) 644
BsiEI CGRYCG 1 cut(s) 909
BsiHKCI CYCGRG 1 cut(s) 610
BsiSI CCGG 6 cut(s) 198, 360, 411, 645, 671, 714
BslFI GGGAC 1 cut(s) 176
BslI CCNNNNNNNGG 5 cut(s) 719, 757, 848, 849, 955
BsmAI GTCTC 1 cut(s) 664
BsmFI GGGAC 1 cut(s) 176
BsnI GGCC 8 cut(s) 89, 134, 152, 170, 235, 251, 407, 717
BsoBI CYCGRG 1 cut(s) 610
Bsp1286I GDGCHC 1 cut(s) 950
Bsp143I GATC 2 cut(s) 906, 916
Bsp19I CCATGG 1 cut(s) 718
BspACI CCGC 1 cut(s) 429
BspANI GGCC 8 cut(s) 89, 134, 152, 170, 235, 251, 407, 717
BspCNI CTCAG 2 cut(s) 68, 810
BspLI GGNNCC 3 cut(s) 100, 712, 947
BspMAI CTGCAG 1 cut(s) 73
BspT107I GGYRCC 1 cut(s) 945
BsrDI GCAATG 2 cut(s) 223, 264
BsrFI RCCGGY 1 cut(s) 644
BsrI ACTGG 5 cut(s) 326, 391, 447, 843, 853
BssAI RCCGGY 1 cut(s) 644
BssECI CCNNGG 7 cut(s) 129, 165, 177, 609, 718, 931, 949
BssMI GATC 2 cut(s) 906, 916
BssNI GRCGYC 1 cut(s) 615
BssT1I CCWWGG 2 cut(s) 129, 718
Bst2UI CCWGG 4 cut(s) 299, 752, 933, 951
Bst4CI ACNGT 3 cut(s) 656, 781, 790
BstACI GRCGYC 1 cut(s) 615
BstAPI GCANNNNNTGC 1 cut(s) 420
BstC8I GCNNGC 2 cut(s) 271, 427
BstDEI CTNAG 4 cut(s) 55, 633, 818, 858
BstDSI CCRYGG 1 cut(s) 718
BstEII GGTNACC 1 cut(s) 349
BstENI CCTNNNNNAGG 1 cut(s) 755
BstF5I GGATG 3 cut(s) 152, 485, 766
BstHHI GCGC 1 cut(s) 425
BstKTI GATC 2 cut(s) 909, 919
BstMAI GTCTC 1 cut(s) 664
BstMBI GATC 2 cut(s) 906, 916
BstMCI CGRYCG 1 cut(s) 909
BstMWI GCNNNNNNNGC 3 cut(s) 270, 420, 431
BstNI CCWGG 4 cut(s) 299, 752, 933, 951
BstNSI RCATGY 3 cut(s) 341, 708, 881
BstPI GGTNACC 1 cut(s) 349
BstSCI CCNGG 5 cut(s) 297, 712, 750, 931, 949
BstSFI CTRYAG 1 cut(s) 69
BstSLI GKGCMC 1 cut(s) 950
BstV1I GCAGC 1 cut(s) 512
BstV2I GAAGAC 2 cut(s) 37, 844
BsuRI GGCC 8 cut(s) 89, 134, 152, 170, 235, 251, 407, 717
BtgI CCRYGG 1 cut(s) 718
BtrI CACGTC 1 cut(s) 598
BtsCI GGATG 3 cut(s) 152, 485, 766
BtsIMutI CAGTG 2 cut(s) 384, 440
Cac8I GCNNGC 2 cut(s) 271, 427
CfoI GCGC 1 cut(s) 425
Cfr10I RCCGGY 1 cut(s) 644
Cfr13I GGNCC 6 cut(s) 150, 233, 249, 668, 710, 748
CseI GACGC 1 cut(s) 604
CsiI ACCWGGT 2 cut(s) 297, 750
Csp6I GTAC 2 cut(s) 804, 846
CspAI ACCGGT 1 cut(s) 644
CviAII CATG 7 cut(s) 237, 338, 705, 719, 831, 878, 886
CviQI GTAC 2 cut(s) 804, 846
DdeI CTNAG 4 cut(s) 55, 633, 818, 858
DpnI GATC 2 cut(s) 908, 918
DpnII GATC 2 cut(s) 906, 916
DrdI GACNNNNNNGTC 1 cut(s) 656
DseDI GACNNNNNNGTC 1 cut(s) 656
EaeI YGGCCR 3 cut(s) 87, 168, 715
Eco130I CCWWGG 2 cut(s) 129, 718
Eco147I AGGCCT 2 cut(s) 134, 407
Eco47I GGWCC 3 cut(s) 668, 710, 748
Eco57I CTGAAG 1 cut(s) 273
Eco88I CYCGRG 1 cut(s) 610
Eco91I GGTNACC 1 cut(s) 349
EcoNI CCTNNNNNAGG 1 cut(s) 755
EcoO109I RGGNCCY 1 cut(s) 748
EcoO65I GGTNACC 1 cut(s) 349
EcoRI GAATTC 1 cut(s) 366
EcoRII CCWGG 4 cut(s) 297, 750, 931, 949
EcoT14I CCWWGG 2 cut(s) 129, 718
ErhI CCWWGG 2 cut(s) 129, 718
FaeI CATG 7 cut(s) 240, 341, 708, 722, 834, 881, 889
FaqI GGGAC 1 cut(s) 176
FatI CATG 7 cut(s) 236, 337, 704, 718, 830, 877, 885
FbaI TGATCA 1 cut(s) 916
Fnu4HI GCNGC 1 cut(s) 526
FokI GGATG 3 cut(s) 159, 472, 773
Fsp4HI GCNGC 1 cut(s) 526
GlaI GCGC 1 cut(s) 424
GluI GCNGC 1 cut(s) 526
GsaI CCCAGC 1 cut(s) 197
GsuI CTGGAG 1 cut(s) 464
HaeIII GGCC 8 cut(s) 89, 134, 152, 170, 235, 251, 407, 717
HapII CCGG 6 cut(s) 198, 360, 411, 645, 671, 714
HgaI GACGC 1 cut(s) 604
HhaI GCGC 1 cut(s) 425
Hin1I GRCGYC 1 cut(s) 615
Hin1II CATG 7 cut(s) 240, 341, 708, 722, 834, 881, 889
Hin6I GCGC 1 cut(s) 423
HinP1I GCGC 1 cut(s) 423
HindIII AAGCTT 1 cut(s) 156
HinfI GANTC 5 cut(s) 122, 591, 629, 723, 822
HpaII CCGG 6 cut(s) 198, 360, 411, 645, 671, 714
HphI GGTGA 2 cut(s) 659, 970
Hpy166II GTNNAC 2 cut(s) 710, 971
Hpy188I TCNGA 3 cut(s) 292, 819, 906
Hpy188III TCNNGA 4 cut(s) 144, 371, 472, 626
Hpy8I GTNNAC 2 cut(s) 710, 971
Hpy99I CGWCG 2 cut(s) 284, 704
HpyAV CCTTC 3 cut(s) 145, 195, 297
HpyCH4III ACNGT 3 cut(s) 656, 781, 790
HpyCH4IV ACGT 3 cut(s) 257, 597, 699
HpyCH4V TGCA 7 cut(s) 71, 240, 402, 528, 544, 641, 769
HpyF10VI GCNNNNNNNGC 3 cut(s) 270, 420, 431
HpyF3I CTNAG 4 cut(s) 55, 633, 818, 858
HpySE526I ACGT 3 cut(s) 257, 597, 699
Hsp92I GRCGYC 1 cut(s) 615
Hsp92II CATG 7 cut(s) 240, 341, 708, 722, 834, 881, 889
HspAI GCGC 1 cut(s) 423
Ksp22I TGATCA 1 cut(s) 916
Kzo9I GATC 2 cut(s) 906, 916
LmnI GCTCC 2 cut(s) 98, 431
Lsp1109I GCAGC 1 cut(s) 512
MabI ACCWGGT 2 cut(s) 297, 750
MaeII ACGT 3 cut(s) 257, 597, 699
MaeIII GTNAC 9 cut(s) 73, 317, 349, 481, 569, 616, 647, 775, 790
MalI GATC 2 cut(s) 908, 918
MboI GATC 2 cut(s) 906, 916
MboII GAAGA 2 cut(s) 37, 849
MfeI CAATTG 1 cut(s) 663
MhlI GDGCHC 1 cut(s) 950
MlsI TGGCCA 1 cut(s) 89
MluCI AATT 4 cut(s) 91, 366, 663, 922
MluNI TGGCCA 1 cut(s) 89
MlyI GAGTC 2 cut(s) 116, 623
MmeI TCCRAC 2 cut(s) 477, 898
MnlI CCTC 7 cut(s) 29, 175, 187, 418, 574, 619, 751
Mox20I TGGCCA 1 cut(s) 89
MscI TGGCCA 1 cut(s) 89
MslI CAYNNNNRTG 2 cut(s) 342, 470
Msp20I TGGCCA 1 cut(s) 89
MspA1I CMGCKG 1 cut(s) 429
MspI CCGG 6 cut(s) 198, 360, 411, 645, 671, 714
MspR9I CCNGG 5 cut(s) 299, 714, 752, 933, 951
MunI CAATTG 1 cut(s) 663
MvaI CCWGG 4 cut(s) 299, 752, 933, 951
MwoI GCNNNNNNNGC 3 cut(s) 270, 420, 431
NciI CCSGG 1 cut(s) 714
NcoI CCATGG 1 cut(s) 718
NdeII GATC 2 cut(s) 906, 916
NlaIII CATG 7 cut(s) 240, 341, 708, 722, 834, 881, 889
NlaIV GGNNCC 3 cut(s) 100, 712, 947
NmeAIII GCCGAG 1 cut(s) 146
NmuCI GTSAC 5 cut(s) 73, 481, 569, 616, 647
NspI RCATGY 3 cut(s) 341, 708, 881
PceI AGGCCT 2 cut(s) 134, 407
PfeI GAWTC 3 cut(s) 591, 723, 822
PflFI GACNNNGTC 1 cut(s) 656
PinAI ACCGGT 1 cut(s) 644
PkrI GCNGC 1 cut(s) 527
Ple19I CGATCG 1 cut(s) 909
PleI GAGTC 2 cut(s) 116, 623
PpsI GAGTC 2 cut(s) 116, 623
PpuMI RGGWCCY 1 cut(s) 748
Psp5II RGGWCCY 1 cut(s) 748
Psp6I CCWGG 4 cut(s) 297, 750, 931, 949
PspEI GGTNACC 1 cut(s) 349
PspFI CCCAGC 1 cut(s) 193
PspGI CCWGG 4 cut(s) 297, 750, 931, 949
PspN4I GGNNCC 3 cut(s) 100, 712, 947
PspPI GGNCC 6 cut(s) 150, 233, 249, 668, 710, 748
PspPPI RGGWCCY 1 cut(s) 748
PstI CTGCAG 1 cut(s) 73
PsyI GACNNNGTC 1 cut(s) 656
PvuI CGATCG 1 cut(s) 909
RsaI GTAC 2 cut(s) 805, 847
RsaNI GTAC 2 cut(s) 804, 846
RseI CAYNNNNRTG 2 cut(s) 342, 470
SatI GCNGC 1 cut(s) 526
Sau3AI GATC 2 cut(s) 906, 916
Sau96I GGNCC 6 cut(s) 150, 233, 249, 668, 710, 748
ScaI AGTACT 1 cut(s) 847
SchI GAGTC 2 cut(s) 116, 623
ScrFI CCNGG 5 cut(s) 299, 714, 752, 933, 951
SduI GDGCHC 1 cut(s) 950
SexAI ACCWGGT 2 cut(s) 297, 750
SfcI CTRYAG 1 cut(s) 69
SinI GGWCC 3 cut(s) 668, 710, 748
SmiMI CAYNNNNRTG 2 cut(s) 342, 470
Sse9I AATT 4 cut(s) 91, 366, 663, 922
SseBI AGGCCT 2 cut(s) 134, 407
SsiI CCGC 1 cut(s) 429
StuI AGGCCT 2 cut(s) 134, 407
StyD4I CCNGG 5 cut(s) 297, 712, 750, 931, 949
StyI CCWWGG 2 cut(s) 129, 718
TaaI ACNGT 3 cut(s) 656, 781, 790
TaiI ACGT 3 cut(s) 260, 600, 702
TaqI TCGA 2 cut(s) 458, 627
TaqII GACCGA 1 cut(s) 169
TasI AATT 4 cut(s) 91, 366, 663, 922
TatI WGTACW 1 cut(s) 845
TfiI GAWTC 3 cut(s) 591, 723, 822
TscAI CASTG 2 cut(s) 391, 447
TseFI GTSAC 5 cut(s) 73, 481, 569, 616, 647
TseI GCWGC 1 cut(s) 525
Tsp45I GTSAC 5 cut(s) 73, 481, 569, 616, 647
TspDTI ATGAA 1 cut(s) 37
TspGWI ACGGA 1 cut(s) 390
TspRI CASTG 2 cut(s) 391, 447
Tth111I GACNNNGTC 1 cut(s) 656
VpaK11BI GGWCC 3 cut(s) 668, 710, 748
XagI CCTNNNNNAGG 1 cut(s) 755
XapI RAATTY 1 cut(s) 366
XceI RCATGY 3 cut(s) 341, 708, 881
ZrmI AGTACT 1 cut(s) 847
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.