Rh6BG254300

Exopolygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0014404
Physical Location & Seq
Reverse (-)
46675650 .. 46677622
1973 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG254300.1

Sequence Viewer

Length: 1266 bp
ATGATGAGCCTCGACTACTTCCATGTTAGATTGCTCTTATTGCTGTCCTTATTTTGCTTCGAATGTGTGTTTGGCAGAGAAAGAGGAGCAGGTTCAGGCTTGCAGACCATCAATGTAGATCGCAAGGCCAAAAGCTCTCTTCTTTTTAATGTCAAGAGCTTTGGTGCCAAAGCAGATGGCCAAACAGATGACAGCAAAGCCTTCACAGCAGCATGGAAAGAGGCGTGCCAGTCCAAAGGTAGAGTCCACTTAATAATCCCAAGAGGAACATACATGATTGGCCCTCTTAAGTTTTCAGGCCCCTGCCAAAACGTATCGGCTCTAAATCTTCGAGTAAAGGGTTACTTGAAGGCTACAGCGGAGTTGTCCAAGTATGAATTCGGTGGTGGTTGGATTGAATTTGCTTGGATGAAGGGGCTAACCTTGACCGGAGGCGGAACCTTTGATGGTCAAGGTGCTAAAGCCTGGCCTCACAATAAGTGCTCTAAAGACTCCAATTGCAAACTTCTTCCAACTAGTTTGAAATTTGTTGCAATGAATAAGACAGTGATCCGGGGCATATCCTCGGTGAACAGCAAGTTCTTTCATATAGCTGTTGTGGAATGTCACAACTTCAAAGGTAGTAAACTCAAGATTCAAGCCCCAGAAACAAGTCCTAATACTGATGGAATCCACATTGAACGAAGCTCGAGTGTGTACTTCTCCTCGTCACACATTGCTACTGGCGATGACTGCATCTCAGTTGGACAAGGGAACTCCCAAGTCACCATAACTAGCATTGCTTGTGGACCTGGTCATGGCATCAGTGTGGGAAGTTTGGGAAAATATCCGAATGAAGGAGATGTTAGTGGGCTTGTGGTCAGAGACTGCACCATTTCAGGTACCACAAATGGTATTAGGATCAAGACATGGGCTAACTCTCCAGGTAGAAGTGCAGCCACCAACATGACATTCACAAACATCATCATGAACAATGTGACCAACCCCATCATAATCGATCAGACATATTGTCCATTCACGTCTTGCGCTACTAAGGTGCCATCAAAAGTGAAGCTGAGTGACATTTACTTCAAGAACATAACAGGGACCTCGTCGTCTCAAGTAGCAGTTGCACTTGAATGTAGCAAAGGGATTCCATGCCAGAACATTTACCTTGAAGATGTTCATCTGGACTTGTCATCTGGGAAGAAGGAAGCCACTTCAACTTGCAGTAATGTGAAAGCCAAATTCATTGGCACCCAAATCCCACCACCATGTACTGATTAG

Protein Analysis

421

Amino Acids

45.21

Weight (kDa)

9.12

Isoelectric Point (pI)

34.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 49 - 93 8e-07 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 76 - 409 1.3e-93 Glycosyl hydrolases family 28
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0014404)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G18180
fragaria_vesca FvH4_2g16950
malus_domestica MD05G1141300.v1.1 MD05G1142200.v1.1
prunus_persica Prupe.8G181300_v2.0.a1
pyrus_communis pycom05g13670
rosa_chinensis RchiOBHm_Chr6g0281151
rosa_laevigata RLG00000012990
rosa_multiflora Rmu_co8202118.1_g000001 Rmu_sc0035236.1_g000002
rosa_roxburghii Rroxscaffold_7G00187250
rosa_rugosa Rorug06G0139300
rosa_samantha Rh6AG251100 Rh6BG254300 Rh6CG253700 Rh6DG245700
rosa_wichuraiana Rw6G021800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1093
Acc36I ACCTGC 1 cut(s) 80
Acc65I GGTACC 1 cut(s) 881
AccB1I GGYRCC 4 cut(s) 164, 881, 1036, 1235
AciI CCGC 2 cut(s) 359, 435
AclWI GGATC 2 cut(s) 544, 908
AcoI YGGCCR 1 cut(s) 178
AcsI RAATTY 4 cut(s) 377, 398, 524, 1226
AfaI GTAC 3 cut(s) 698, 883, 1258
AfiI CCNNNNNNNGG 2 cut(s) 797, 836
AflII CTTAAG 1 cut(s) 287
AhdI GACNNNNNGTC 1 cut(s) 1008
AhlI ACTAGT 1 cut(s) 515
AjiI CACGTC 1 cut(s) 1020
AjnI CCWGG 3 cut(s) 464, 790, 922
AjuI GAANNNNNNNTTGG 6 cut(s) 54, 86, 362, 394, 935, 967
AluBI AGCT 5 cut(s) 135, 159, 593, 687, 1054
AluI AGCT 5 cut(s) 135, 159, 593, 687, 1054
Alw21I GWGCWC 1 cut(s) 485
Alw26I GTCTC 2 cut(s) 858, 1101
AlwI GGATC 2 cut(s) 544, 908
AlwNI CAGNNNCTG 1 cut(s) 867
Ama87I CYCGRG 1 cut(s) 688
AoxI GGCC 5 cut(s) 126, 178, 280, 298, 467
ApeKI GCWGC 2 cut(s) 209, 935
ApoI RAATTY 4 cut(s) 377, 398, 524, 1226
ArsI GACNNNNNNTTYG 2 cut(s) 228, 260
Asp700I GAANNNNTTC 1 cut(s) 1161
Asp718I GGTACC 1 cut(s) 881
AspLEI GCGC 1 cut(s) 1028
AspS9I GGNCC 4 cut(s) 281, 299, 788, 1086
AsuC2I CCSGG 1 cut(s) 554
AsuHPI GGTGA 2 cut(s) 580, 757
AsuII TTCGAA 1 cut(s) 60
AvaI CYCGRG 1 cut(s) 688
AvaII GGWCC 2 cut(s) 788, 1086
BalI TGGCCA 1 cut(s) 180
BanI GGYRCC 4 cut(s) 164, 881, 1036, 1235
Bbv12I GWGCWC 1 cut(s) 485
BbvI GCAGC 2 cut(s) 221, 947
BccI CCATC 6 cut(s) 116, 170, 440, 659, 995, 1048
BciT130I CCWGG 3 cut(s) 466, 792, 924
BcnI CCSGG 1 cut(s) 554
BcoDI GTCTC 2 cut(s) 858, 1101
BcuI ACTAGT 1 cut(s) 515
BfaI CTAG 2 cut(s) 516, 774
BfmI CTRYAG 1 cut(s) 354
BfrI CTTAAG 1 cut(s) 287
BfuAI ACCTGC 1 cut(s) 80
BisI GCNGC 2 cut(s) 210, 936
BlsI GCNGC 2 cut(s) 211, 937
Bme1390I CCNGG 4 cut(s) 466, 554, 792, 924
Bme18I GGWCC 2 cut(s) 788, 1086
BmeRI GACNNNNNGTC 1 cut(s) 1008
BmeT110I CYCGRG 1 cut(s) 688
BmgBI CACGTC 1 cut(s) 1020
BmgT120I GGNCC 4 cut(s) 281, 299, 788, 1086
BmiI GGNNCC 7 cut(s) 166, 301, 439, 883, 1038, 1087, 1237
BmrFI CCNGG 4 cut(s) 466, 554, 792, 924
BmsI GCATC 2 cut(s) 744, 810
BpmI CTGGAG 1 cut(s) 906
Bpu14I TTCGAA 1 cut(s) 60
BpuEI CTTGAG 2 cut(s) 614, 1083
BpuMI CCSGG 1 cut(s) 554
Bsa29I ATCGAT 1 cut(s) 996
BsaBI GATNNNNATC 1 cut(s) 1164
BsaJI CCNNGG 2 cut(s) 553, 564
BsaWI WCCGGW 1 cut(s) 428
Bsc4I CCNNNNNNNGG 2 cut(s) 797, 836
Bse1I ACTGG 2 cut(s) 229, 727
Bse3DI GCAATG 3 cut(s) 540, 714, 777
Bse8I GATNNNNATC 1 cut(s) 1164
BseBI CCWGG 3 cut(s) 466, 792, 924
BseCI ATCGAT 1 cut(s) 996
BseDI CCNNGG 2 cut(s) 553, 564
BseGI GGATG 1 cut(s) 414
BseJI GATNNNNATC 1 cut(s) 1164
BseLI CCNNNNNNNGG 2 cut(s) 797, 836
BseMI GCAATG 3 cut(s) 540, 714, 777
BseMII CTCAG 2 cut(s) 753, 1046
BseNI ACTGG 2 cut(s) 229, 727
BseRI GAGGAG 2 cut(s) 99, 694
BseXI GCAGC 2 cut(s) 221, 947
BsgI GTGCAG 2 cut(s) 853, 954
BshFI GGCC 5 cut(s) 128, 180, 282, 300, 469
BshNI GGYRCC 4 cut(s) 164, 881, 1036, 1235
BshVI ATCGAT 1 cut(s) 996
BsiHKAI GWGCWC 1 cut(s) 485
BsiHKCI CYCGRG 1 cut(s) 688
BsiSI CCGG 2 cut(s) 429, 553
BslFI GGGAC 1 cut(s) 1099
BslI CCNNNNNNNGG 2 cut(s) 797, 836
BsmAI GTCTC 2 cut(s) 858, 1101
BsmBI CGTCTC 1 cut(s) 1101
BsmFI GGGAC 1 cut(s) 1099
BsnI GGCC 5 cut(s) 128, 180, 282, 300, 469
BsoBI CYCGRG 1 cut(s) 688
Bsp119I TTCGAA 1 cut(s) 60
Bsp1286I GDGCHC 1 cut(s) 485
Bsp143I GATC 4 cut(s) 118, 549, 900, 997
BspACI CCGC 2 cut(s) 359, 435
BspANI GGCC 5 cut(s) 128, 180, 282, 300, 469
BspCNI CTCAG 2 cut(s) 752, 1047
BspDI ATCGAT 1 cut(s) 996
BspHI TCATGA 1 cut(s) 966
BspLI GGNNCC 7 cut(s) 166, 301, 439, 883, 1038, 1087, 1237
BspMI ACCTGC 1 cut(s) 80
BspPI GGATC 2 cut(s) 544, 908
BspT104I TTCGAA 1 cut(s) 60
BspT107I GGYRCC 4 cut(s) 164, 881, 1036, 1235
BspTI CTTAAG 1 cut(s) 287
BsrDI GCAATG 3 cut(s) 540, 714, 777
BsrI ACTGG 2 cut(s) 229, 727
BssECI CCNNGG 2 cut(s) 553, 564
BssMI GATC 4 cut(s) 118, 549, 900, 997
Bst2UI CCWGG 3 cut(s) 466, 792, 924
Bst4CI ACNGT 1 cut(s) 547
Bst6I CTCTTC 1 cut(s) 144
BstAFI CTTAAG 1 cut(s) 287
BstBI TTCGAA 1 cut(s) 60
BstC8I GCNNGC 2 cut(s) 101, 226
BstDEI CTNAG 3 cut(s) 739, 1032, 1055
BstF5I GGATG 1 cut(s) 414
BstHHI GCGC 1 cut(s) 1028
BstKTI GATC 4 cut(s) 121, 552, 903, 1000
BstMAI GTCTC 2 cut(s) 858, 1101
BstMBI GATC 4 cut(s) 118, 549, 900, 997
BstMWI GCNNNNNNNGC 3 cut(s) 40, 206, 732
BstNI CCWGG 3 cut(s) 466, 792, 924
BstSCI CCNGG 4 cut(s) 464, 552, 790, 922
BstSFI CTRYAG 1 cut(s) 354
BstV1I GCAGC 2 cut(s) 221, 947
Bsu15I ATCGAT 1 cut(s) 996
BsuRI GGCC 5 cut(s) 128, 180, 282, 300, 469
BsuTUI ATCGAT 1 cut(s) 996
BtgZI GCGATG 1 cut(s) 741
BtrI CACGTC 1 cut(s) 1020
BtsCI GGATG 1 cut(s) 414
BtsIMutI CAGTG 2 cut(s) 552, 811
BveI ACCTGC 1 cut(s) 80
Cac8I GCNNGC 2 cut(s) 101, 226
CaiI CAGNNNCTG 1 cut(s) 867
CciI TCATGA 1 cut(s) 966
CfoI GCGC 1 cut(s) 1028
Cfr13I GGNCC 4 cut(s) 281, 299, 788, 1086
ClaI ATCGAT 1 cut(s) 996
CsiI ACCWGGT 1 cut(s) 790
Csp6I GTAC 3 cut(s) 697, 882, 1257
CviAII CATG 9 cut(s) 23, 213, 274, 797, 909, 946, 967, 1137, 1254
CviQI GTAC 3 cut(s) 697, 882, 1257
DdeI CTNAG 3 cut(s) 739, 1032, 1055
DpnI GATC 4 cut(s) 120, 551, 902, 999
DpnII GATC 4 cut(s) 118, 549, 900, 997
DrdI GACNNNNNNGTC 1 cut(s) 1093
DriI GACNNNNNGTC 1 cut(s) 1008
DseDI GACNNNNNNGTC 1 cut(s) 1093
EaeI YGGCCR 1 cut(s) 178
Eam1104I CTCTTC 1 cut(s) 144
Eam1105I GACNNNNNGTC 1 cut(s) 1008
EarI CTCTTC 1 cut(s) 144
EciI GGCGGA 1 cut(s) 450
Eco47I GGWCC 2 cut(s) 788, 1086
Eco88I CYCGRG 1 cut(s) 688
EcoO109I RGGNCCY 2 cut(s) 299, 1086
EcoRI GAATTC 1 cut(s) 377
EcoRII CCWGG 3 cut(s) 464, 790, 922
Esp3I CGTCTC 1 cut(s) 1101
FaeI CATG 9 cut(s) 26, 216, 277, 800, 912, 949, 970, 1140, 1257
FalI AAGNNNNNCTT 2 cut(s) 329, 361
FaqI GGGAC 1 cut(s) 1099
FatI CATG 9 cut(s) 22, 212, 273, 796, 908, 945, 966, 1136, 1253
Fnu4HI GCNGC 2 cut(s) 210, 936
FokI GGATG 1 cut(s) 421
Fsp4HI GCNGC 2 cut(s) 210, 936
FspBI CTAG 2 cut(s) 516, 774
GlaI GCGC 1 cut(s) 1027
GluI GCNGC 2 cut(s) 210, 936
GsuI CTGGAG 1 cut(s) 906
HaeIII GGCC 5 cut(s) 128, 180, 282, 300, 469
HapII CCGG 2 cut(s) 429, 553
HhaI GCGC 1 cut(s) 1028
Hin1II CATG 9 cut(s) 26, 216, 277, 800, 912, 949, 970, 1140, 1257
Hin6I GCGC 1 cut(s) 1026
HinP1I GCGC 1 cut(s) 1026
HinfI GANTC 5 cut(s) 243, 491, 634, 669, 1132
HpaII CCGG 2 cut(s) 429, 553
HphI GGTGA 2 cut(s) 580, 757
Hpy166II GTNNAC 5 cut(s) 247, 571, 626, 697, 788
Hpy188I TCNGA 3 cut(s) 831, 863, 1002
Hpy188III TCNNGA 6 cut(s) 154, 631, 904, 967, 1072, 1169
Hpy8I GTNNAC 5 cut(s) 247, 571, 626, 697, 788
Hpy99I CGWCG 1 cut(s) 1096
HpyAV CCTTC 5 cut(s) 211, 343, 406, 830, 1183
HpyCH4III ACNGT 1 cut(s) 547
HpyCH4IV ACGT 2 cut(s) 312, 1019
HpyCH4V TGCA 8 cut(s) 103, 501, 533, 735, 870, 935, 1112, 1209
HpyF10VI GCNNNNNNNGC 3 cut(s) 40, 206, 732
HpyF3I CTNAG 3 cut(s) 739, 1032, 1055
HpySE526I ACGT 2 cut(s) 312, 1019
Hsp92II CATG 9 cut(s) 26, 216, 277, 800, 912, 949, 970, 1140, 1257
HspAI GCGC 1 cut(s) 1026
KpnI GGTACC 1 cut(s) 885
Kzo9I GATC 4 cut(s) 118, 549, 900, 997
LmnI GCTCC 1 cut(s) 86
Lsp1109I GCAGC 2 cut(s) 221, 947
LweI GCATC 2 cut(s) 744, 810
MabI ACCWGGT 1 cut(s) 790
MaeI CTAG 2 cut(s) 516, 774
MaeII ACGT 2 cut(s) 312, 1019
MaeIII GTNAC 6 cut(s) 341, 605, 708, 763, 976, 1058
MalI GATC 4 cut(s) 120, 551, 902, 999
MboI GATC 4 cut(s) 118, 549, 900, 997
MboII GAAGA 5 cut(s) 131, 320, 500, 1169, 1198
MfeI CAATTG 1 cut(s) 496
MhlI GDGCHC 1 cut(s) 485
MlsI TGGCCA 1 cut(s) 180
MluCI AATT 5 cut(s) 377, 398, 496, 524, 1226
MluNI TGGCCA 1 cut(s) 180
MlyI GAGTC 2 cut(s) 252, 485
MmeI TCCRAC 3 cut(s) 371, 536, 724
Mox20I TGGCCA 1 cut(s) 180
MroXI GAANNNNTTC 1 cut(s) 1161
MscI TGGCCA 1 cut(s) 180
MseI TTAA 3 cut(s) 147, 251, 288
MslI CAYNNNNRTG 5 cut(s) 806, 944, 965, 1117, 1252
Msp20I TGGCCA 1 cut(s) 180
MspA1I CMGCKG 1 cut(s) 359
MspCI CTTAAG 1 cut(s) 287
MspI CCGG 2 cut(s) 429, 553
MspR9I CCNGG 4 cut(s) 466, 554, 792, 924
MunI CAATTG 1 cut(s) 496
MvaI CCWGG 3 cut(s) 466, 792, 924
MwoI GCNNNNNNNGC 3 cut(s) 40, 206, 732
NciI CCSGG 1 cut(s) 554
NdeII GATC 4 cut(s) 118, 549, 900, 997
NlaIII CATG 9 cut(s) 26, 216, 277, 800, 912, 949, 970, 1140, 1257
NlaIV GGNNCC 7 cut(s) 166, 301, 439, 883, 1038, 1087, 1237
NmuCI GTSAC 5 cut(s) 605, 708, 763, 976, 1058
NspV TTCGAA 1 cut(s) 60
PaeR7I CTCGAG 1 cut(s) 688
PagI TCATGA 1 cut(s) 966
PdmI GAANNNNTTC 1 cut(s) 1161
PfeI GAWTC 3 cut(s) 634, 669, 1132
PflFI GACNNNGTC 2 cut(s) 792, 1090
PkrI GCNGC 2 cut(s) 211, 937
PleI GAGTC 2 cut(s) 251, 485
PpsI GAGTC 2 cut(s) 251, 485
PpuMI RGGWCCY 1 cut(s) 1086
Psp5II RGGWCCY 1 cut(s) 1086
Psp6I CCWGG 3 cut(s) 464, 790, 922
PspGI CCWGG 3 cut(s) 464, 790, 922
PspN4I GGNNCC 7 cut(s) 166, 301, 439, 883, 1038, 1087, 1237
PspPI GGNCC 4 cut(s) 281, 299, 788, 1086
PspPPI RGGWCCY 1 cut(s) 1086
PspXI VCTCGAGB 1 cut(s) 688
PstNI CAGNNNCTG 1 cut(s) 867
PsyI GACNNNGTC 2 cut(s) 792, 1090
RsaI GTAC 3 cut(s) 698, 883, 1258
RsaNI GTAC 3 cut(s) 697, 882, 1257
RseI CAYNNNNRTG 5 cut(s) 806, 944, 965, 1117, 1252
SaqAI TTAA 3 cut(s) 147, 251, 288
SatI GCNGC 2 cut(s) 210, 936
Sau3AI GATC 4 cut(s) 118, 549, 900, 997
Sau96I GGNCC 4 cut(s) 281, 299, 788, 1086
SchI GAGTC 2 cut(s) 252, 485
ScrFI CCNGG 4 cut(s) 466, 554, 792, 924
SduI GDGCHC 1 cut(s) 485
SexAI ACCWGGT 1 cut(s) 790
SfaNI GCATC 2 cut(s) 744, 810
SfcI CTRYAG 1 cut(s) 354
Sfr274I CTCGAG 1 cut(s) 688
SfuI TTCGAA 1 cut(s) 60
SinI GGWCC 2 cut(s) 788, 1086
SlaI CTCGAG 1 cut(s) 688
SmiMI CAYNNNNRTG 5 cut(s) 806, 944, 965, 1117, 1252
SmlI CTYRAG 4 cut(s) 287, 629, 688, 1098
SmoI CTYRAG 4 cut(s) 287, 629, 688, 1098
SpeI ACTAGT 1 cut(s) 515
Sse9I AATT 5 cut(s) 377, 398, 496, 524, 1226
SsiI CCGC 2 cut(s) 359, 435
SspMI CTAG 2 cut(s) 516, 774
StyD4I CCNGG 4 cut(s) 464, 552, 790, 922
TaaI ACNGT 1 cut(s) 547
TaiI ACGT 2 cut(s) 315, 1022
TaqI TCGA 5 cut(s) 12, 60, 331, 689, 996
TasI AATT 5 cut(s) 377, 398, 496, 524, 1226
TatI WGTACW 2 cut(s) 696, 1256
TfiI GAWTC 3 cut(s) 634, 669, 1132
Tru1I TTAA 3 cut(s) 147, 251, 288
Tru9I TTAA 3 cut(s) 147, 251, 288
TscAI CASTG 2 cut(s) 552, 811
TseFI GTSAC 5 cut(s) 605, 708, 763, 976, 1058
TseI GCWGC 2 cut(s) 209, 935
Tsp45I GTSAC 5 cut(s) 605, 708, 763, 976, 1058
TspDTI ATGAA 8 cut(s) 390, 425, 551, 575, 849, 983, 1154, 1219
TspRI CASTG 2 cut(s) 552, 811
Tth111I GACNNNGTC 2 cut(s) 792, 1090
Vha464I CTTAAG 1 cut(s) 287
VpaK11BI GGWCC 2 cut(s) 788, 1086
XapI RAATTY 4 cut(s) 377, 398, 524, 1226
XhoI CTCGAG 1 cut(s) 688
XmnI GAANNNNTTC 1 cut(s) 1161
XspI CTAG 2 cut(s) 516, 774
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.