RchiOBHm_Chr6g0287311

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0003318
Physical Location & Seq
Forward (+)
50678124 .. 50680665
2542 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ25772

Sequence Viewer

Length: 1329 bp
ATGGCTCTAATGGGACCTTTATTGCTGTTCTGTGTTCTTCTTGTTCTCTCTTTGAGTTCTTCATGTTATAGTAGCAGCTTCCAAGAGAACTCATTACTTCATAGTTATGTTGATGATGCTTATCGTGAAGCAACTGGTTTTTTTGGTTCCGGGGCAGCTCATCCTTCGTACACGAGCATCCTTGAGAATCTCAAGTTCTCTGACCGGATCAATCTCCGAACTCGGCTCTTCAGCACATCATCTTCCGTTAAAAAGGTTAGCGTCGATGATTTTGGCGCCAAAGGGAATGGTGCTGCTGATGACACACAGGCATTCCAAAAGGCATGGAAGACAGCTTGTAGTTCCAGTGGGGCACTAGTTCTTCTGGTGCCAAAGAAGAACTATCTTGTTAAGCCAATCACATTTTCAGGGCCATGCAAATCTCAGCTTACAATGCAGATATATGGAACCATAGAAGCATCTGGTGACAGGTCAGTCTACAGCAAAGATCTCAATCACTGGATCATGTTTGACAACGTTCGAAATCTGTTAGTTCAGGGTCCTGGAACCATCAATGGCAACGGTCAAATCTGGTGGCAAAACTCTTGCAAAAGAAAACAAACCAAGGCTGTGACCTTCTACAAATGTAATAACTTGGTGGTGAAGGATCTGAAGTTCCAAGACGCACAGCAAATGCACGTCAGTTTCGAAGAGTGCACTAATGTTCAAGCTTTGTATCTAACAGTAACTGCGCCGGAGACTAGTCCCAACACTGACGGTATTCATGTTGCCAATACCCAGAACATCACAATCTCGAACAGTAATATCGGAACAGGTGATGATTGCATTTCAATTGTGAGTGGATCCCAAAATGTGCAAGCCTCCAGTATTACCTGTGGACCTGGCCATGGAATCAGTATCGGTAGCTTGGGGAAAGGAGGGTCTGAAGACCATGTTTCGCAAGTAACAGTGAACGGAGCTAAGATTTCAGGAACCACGAATGGAATCAGGATCAAAACATGGCAAGGAGGCTCAGGAATGGCAAGCGACATTGCTTTTCAAAACATAGAAATGAATGATGTGACCAACCCCATAATCATAGACCAAAACTACTGTGACACCAGTGACGAAGGACAATGCAAACAACAGAGCAAGGCAGTGAAGGTACAAAATGTGTTGTACCAAAACATCAGAGGGACAAGCACTTCAAAAGATGCCATAACATTTGATTGCAGCAAGAGCATTCCATGTCAGGGAATTGTGCTGCAAAATGTTCAACTCGACAAAGGAGCAGAATGCAGCAATGTTAATCTGGCTTACAAAGGAAATGTCTCCCCTCGATGTGCTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

442

Amino Acids

47.62

Weight (kDa)

7.84

Isoelectric Point (pI)

27.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 86 - 207 6.5e-07 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 113 - 430 8.8e-101 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) 473
AccB1I GGYRCC 2 cut(s) 275, 367
AccI GTMKAC 1 cut(s) 477
AclI AACGTT 1 cut(s) 516
AclWI GGATC 6 cut(s) 215, 509, 654, 837, 850, 998
AcoI YGGCCR 1 cut(s) 883
AcuI CTGAAG 3 cut(s) 214, 671, 945
AcyI GRCGYC 1 cut(s) 276
AfaI GTAC 3 cut(s) 170, 1146, 1160
AfiI CCNNNNNNNGG 2 cut(s) 887, 1232
AgsI TTSAA 5 cut(s) 707, 831, 1040, 1188, 1256
AhlI ACTAGT 2 cut(s) 355, 740
AjiI CACGTC 1 cut(s) 679
AjnI CCWGG 2 cut(s) 541, 880
AjuI GAANNNNNNNTTGG 2 cut(s) 388, 420
AloI GAACNNNNNNTCC 2 cut(s) 638, 670
AluBI AGCT 7 cut(s) 78, 158, 335, 427, 710, 906, 959
AluI AGCT 7 cut(s) 78, 158, 335, 427, 710, 906, 959
Alw21I GWGCWC 1 cut(s) 698
Alw26I GTCTC 2 cut(s) 731, 1315
Alw44I GTGCAC 1 cut(s) 694
AlwI GGATC 6 cut(s) 215, 509, 654, 837, 850, 998
AlwNI CAGNNNCTG 1 cut(s) 728
AoxI GGCC 2 cut(s) 410, 883
ApaLI GTGCAC 1 cut(s) 694
ApeKI GCWGC 6 cut(s) 75, 155, 293, 1212, 1243, 1278
ArsI GACNNNNNNTTYG 2 cut(s) 1293, 1325
AspLEI GCGC 2 cut(s) 278, 733
AspS9I GGNCC 4 cut(s) 14, 410, 539, 878
AsuC2I CCSGG 1 cut(s) 151
AsuHPI GGTGA 3 cut(s) 476, 652, 827
AsuII TTCGAA 2 cut(s) 520, 687
AvaII GGWCC 3 cut(s) 14, 539, 878
BaeGI GKGCMC 2 cut(s) 355, 698
BalI TGGCCA 1 cut(s) 885
BamHI GGATCC 1 cut(s) 842
BanI GGYRCC 2 cut(s) 275, 367
BauI CACGAG 1 cut(s) 172
BbsI GAAGAC 2 cut(s) 335, 933
Bbv12I GWGCWC 1 cut(s) 698
BbvI GCAGC 6 cut(s) 87, 167, 280, 1224, 1230, 1290
BccI CCATC 1 cut(s) 557
BciT130I CCWGG 2 cut(s) 543, 882
BcnI CCSGG 1 cut(s) 151
BcoDI GTCTC 2 cut(s) 731, 1315
BcuI ACTAGT 2 cut(s) 355, 740
BfaI CTAG 2 cut(s) 356, 741
BfmI CTRYAG 1 cut(s) 478
BfoI RGCGCY 1 cut(s) 279
BglII AGATCT 1 cut(s) 487
BisI GCNGC 6 cut(s) 76, 156, 294, 1213, 1244, 1279
BlsI GCNGC 6 cut(s) 77, 157, 295, 1214, 1245, 1280
Bme1390I CCNGG 3 cut(s) 151, 543, 882
Bme18I GGWCC 3 cut(s) 14, 539, 878
BmgBI CACGTC 1 cut(s) 679
BmgT120I GGNCC 4 cut(s) 14, 410, 539, 878
BmiI GGNNCC 9 cut(s) 15, 148, 277, 369, 448, 540, 547, 844, 973
BmrFI CCNGG 3 cut(s) 151, 543, 882
BmsI GCATC 4 cut(s) 106, 186, 467, 1183
BpiI GAAGAC 2 cut(s) 335, 933
BpmI CTGGAG 1 cut(s) 847
Bpu10I CCTNAGC 1 cut(s) 1012
Bpu14I TTCGAA 2 cut(s) 520, 687
BpuEI CTTGAG 2 cut(s) 176, 203
BpuMI CCSGG 1 cut(s) 151
BsaBI GATNNNNATC 2 cut(s) 120, 492
BsaHI GRCGYC 1 cut(s) 276
BsaJI CCNNGG 3 cut(s) 150, 603, 886
BsaWI WCCGGW 1 cut(s) 204
Bsc4I CCNNNNNNNGG 2 cut(s) 887, 1232
Bse1I ACTGG 5 cut(s) 139, 345, 503, 864, 1101
Bse3DI GCAATG 2 cut(s) 1029, 1288
Bse8I GATNNNNATC 2 cut(s) 120, 492
BseBI CCWGG 2 cut(s) 543, 882
BseDI CCNNGG 3 cut(s) 150, 603, 886
BseGI GGATG 2 cut(s) 160, 177
BseJI GATNNNNATC 2 cut(s) 120, 492
BseLI CCNNNNNNNGG 2 cut(s) 887, 1232
BseMI GCAATG 2 cut(s) 1029, 1288
BseMII CTCAG 2 cut(s) 437, 1026
BseNI ACTGG 5 cut(s) 139, 345, 503, 864, 1101
BseSI GKGCMC 2 cut(s) 355, 698
BseXI GCAGC 6 cut(s) 87, 167, 280, 1224, 1230, 1290
BshFI GGCC 2 cut(s) 412, 885
BshNI GGYRCC 2 cut(s) 275, 367
BsiHKAI GWGCWC 1 cut(s) 698
BsiSI CCGG 3 cut(s) 150, 205, 734
BslFI GGGAC 3 cut(s) 27, 729, 1189
BslI CCNNNNNNNGG 2 cut(s) 887, 1232
BsmAI GTCTC 2 cut(s) 731, 1315
BsmFI GGGAC 3 cut(s) 27, 729, 1189
BsmI GAATGC 3 cut(s) 311, 1221, 1280
BsnI GGCC 2 cut(s) 412, 885
Bsp119I TTCGAA 2 cut(s) 520, 687
Bsp1286I GDGCHC 2 cut(s) 355, 698
Bsp143I GATC 6 cut(s) 207, 487, 501, 646, 842, 990
Bsp19I CCATGG 1 cut(s) 886
BspANI GGCC 2 cut(s) 412, 885
BspCNI CTCAG 2 cut(s) 436, 1025
BspLI GGNNCC 9 cut(s) 15, 148, 277, 369, 448, 540, 547, 844, 973
BspPI GGATC 6 cut(s) 215, 509, 654, 837, 850, 998
BspQI GCTCTTC 1 cut(s) 233
BspT104I TTCGAA 2 cut(s) 520, 687
BspT107I GGYRCC 2 cut(s) 275, 367
BsrDI GCAATG 2 cut(s) 1029, 1288
BsrI ACTGG 5 cut(s) 139, 345, 503, 864, 1101
BssECI CCNNGG 3 cut(s) 150, 603, 886
BssMI GATC 6 cut(s) 207, 487, 501, 646, 842, 990
BssNI GRCGYC 1 cut(s) 276
BssSI CACGAG 1 cut(s) 172
BssT1I CCWWGG 2 cut(s) 603, 886
Bst2BI CACGAG 1 cut(s) 172
Bst2UI CCWGG 2 cut(s) 543, 882
Bst4CI ACNGT 6 cut(s) 563, 724, 758, 800, 949, 1094
Bst6I CTCTTC 2 cut(s) 233, 684
BstACI GRCGYC 1 cut(s) 276
BstBI TTCGAA 2 cut(s) 520, 687
BstC8I GCNNGC 2 cut(s) 858, 1024
BstDEI CTNAG 3 cut(s) 423, 960, 1012
BstDSI CCRYGG 1 cut(s) 886
BstF5I GGATG 2 cut(s) 160, 177
BstH2I RGCGCY 1 cut(s) 279
BstHHI GCGC 2 cut(s) 278, 733
BstKTI GATC 6 cut(s) 210, 490, 504, 649, 845, 993
BstMAI GTCTC 2 cut(s) 731, 1315
BstMBI GATC 6 cut(s) 207, 487, 501, 646, 842, 990
BstMWI GCNNNNNNNGC 2 cut(s) 433, 1218
BstNI CCWGG 2 cut(s) 543, 882
BstSCI CCNGG 3 cut(s) 149, 541, 880
BstSFI CTRYAG 1 cut(s) 478
BstSLI GKGCMC 2 cut(s) 355, 698
BstV1I GCAGC 6 cut(s) 87, 167, 280, 1224, 1230, 1290
BstV2I GAAGAC 2 cut(s) 335, 933
BstX2I RGATCY 3 cut(s) 487, 646, 842
BstYI RGATCY 3 cut(s) 487, 646, 842
BsuRI GGCC 2 cut(s) 412, 885
BtgI CCRYGG 1 cut(s) 886
BtrI CACGTC 1 cut(s) 679
BtsCI GGATG 2 cut(s) 160, 177
BtsI GCAGTG 1 cut(s) 1143
BtsIMutI CAGTG 6 cut(s) 352, 496, 750, 954, 1108, 1143
Cac8I GCNNGC 2 cut(s) 858, 1024
CaiI CAGNNNCTG 1 cut(s) 728
CfoI GCGC 2 cut(s) 278, 733
Cfr13I GGNCC 4 cut(s) 14, 410, 539, 878
CseI GACGC 2 cut(s) 250, 671
Csp6I GTAC 3 cut(s) 169, 1145, 1159
CspCI CAANNNNNGTGG 2 cut(s) 554, 589
CviAII CATG 9 cut(s) 63, 324, 414, 505, 764, 887, 932, 999, 1227
CviQI GTAC 3 cut(s) 169, 1145, 1159
DdeI CTNAG 3 cut(s) 423, 960, 1012
DinI GGCGCC 1 cut(s) 277
DpnI GATC 6 cut(s) 209, 489, 503, 648, 844, 992
DpnII GATC 6 cut(s) 207, 487, 501, 646, 842, 990
DrdI GACNNNNNNGTC 1 cut(s) 473
DseDI GACNNNNNNGTC 1 cut(s) 473
EaeI YGGCCR 1 cut(s) 883
Eam1104I CTCTTC 2 cut(s) 233, 684
EarI CTCTTC 2 cut(s) 233, 684
Eco130I CCWWGG 2 cut(s) 603, 886
Eco47I GGWCC 3 cut(s) 14, 539, 878
Eco57I CTGAAG 3 cut(s) 214, 671, 945
EcoO109I RGGNCCY 2 cut(s) 14, 539
EcoRII CCWGG 2 cut(s) 541, 880
EcoT14I CCWWGG 2 cut(s) 603, 886
EgeI GGCGCC 1 cut(s) 277
EheI GGCGCC 1 cut(s) 277
ErhI CCWWGG 2 cut(s) 603, 886
FaeI CATG 9 cut(s) 66, 327, 417, 508, 767, 890, 935, 1002, 1230
FaqI GGGAC 3 cut(s) 27, 729, 1189
FatI CATG 9 cut(s) 62, 323, 413, 504, 763, 886, 931, 998, 1226
FblI GTMKAC 1 cut(s) 477
Fnu4HI GCNGC 6 cut(s) 76, 156, 294, 1213, 1244, 1279
FokI GGATG 2 cut(s) 147, 164
Fsp4HI GCNGC 6 cut(s) 76, 156, 294, 1213, 1244, 1279
FspBI CTAG 2 cut(s) 356, 741
GlaI GCGC 2 cut(s) 277, 732
GluI GCNGC 6 cut(s) 76, 156, 294, 1213, 1244, 1279
GsuI CTGGAG 1 cut(s) 847
HaeII RGCGCY 1 cut(s) 279
HaeIII GGCC 2 cut(s) 412, 885
HapII CCGG 3 cut(s) 150, 205, 734
HgaI GACGC 2 cut(s) 250, 671
HhaI GCGC 2 cut(s) 278, 733
Hin1I GRCGYC 1 cut(s) 276
Hin1II CATG 9 cut(s) 66, 327, 417, 508, 767, 890, 935, 1002, 1230
Hin6I GCGC 2 cut(s) 276, 731
HinP1I GCGC 2 cut(s) 276, 731
HindIII AAGCTT 1 cut(s) 708
HinfI GANTC 3 cut(s) 187, 891, 984
HpaII CCGG 3 cut(s) 150, 205, 734
HphI GGTGA 3 cut(s) 476, 652, 827
Hpy166II GTNNAC 5 cut(s) 171, 478, 696, 878, 952
Hpy188I TCNGA 6 cut(s) 202, 218, 651, 809, 925, 1172
Hpy188III TCNNGA 5 cut(s) 125, 793, 969, 988, 1014
Hpy8I GTNNAC 5 cut(s) 171, 478, 696, 878, 952
Hpy99I CGWCG 1 cut(s) 266
HpyAV CCTTC 5 cut(s) 174, 625, 637, 1103, 1135
HpyCH4III ACNGT 6 cut(s) 563, 724, 758, 800, 949, 1094
HpyCH4IV ACGT 2 cut(s) 516, 678
HpyF10VI GCNNNNNNNGC 2 cut(s) 433, 1218
HpyF3I CTNAG 3 cut(s) 423, 960, 1012
HpySE526I ACGT 2 cut(s) 516, 678
Hsp92I GRCGYC 1 cut(s) 276
Hsp92II CATG 9 cut(s) 66, 327, 417, 508, 767, 890, 935, 1002, 1230
HspAI GCGC 2 cut(s) 276, 731
KasI GGCGCC 1 cut(s) 275
Kzo9I GATC 6 cut(s) 207, 487, 501, 646, 842, 990
LguI GCTCTTC 1 cut(s) 233
LmnI GCTCC 2 cut(s) 956, 1268
Lsp1109I GCAGC 6 cut(s) 87, 167, 280, 1224, 1230, 1290
LweI GCATC 4 cut(s) 106, 186, 467, 1183
MaeI CTAG 2 cut(s) 356, 741
MaeII ACGT 2 cut(s) 516, 678
MaeIII GTNAC 7 cut(s) 464, 610, 724, 943, 1060, 1094, 1103
MalI GATC 6 cut(s) 209, 489, 503, 648, 844, 992
MboI GATC 6 cut(s) 207, 487, 501, 646, 842, 990
MboII GAAGA 9 cut(s) 29, 51, 220, 234, 340, 353, 388, 701, 938
MfeI CAATTG 1 cut(s) 831
MflI RGATCY 3 cut(s) 487, 646, 842
MhlI GDGCHC 2 cut(s) 355, 698
MlsI TGGCCA 1 cut(s) 885
MluCI AATT 2 cut(s) 831, 1236
MluNI TGGCCA 1 cut(s) 885
Mly113I GGCGCC 1 cut(s) 276
MnlI CCTC 5 cut(s) 871, 911, 1001, 1166, 1326
Mox20I TGGCCA 1 cut(s) 885
MscI TGGCCA 1 cut(s) 885
MseI TTAA 4 cut(s) 249, 390, 1287, 1327
MslI CAYNNNNRTG 2 cut(s) 105, 1049
Msp20I TGGCCA 1 cut(s) 885
MspI CCGG 3 cut(s) 150, 205, 734
MspR9I CCNGG 3 cut(s) 151, 543, 882
MunI CAATTG 1 cut(s) 831
Mva1269I GAATGC 3 cut(s) 311, 1221, 1280
MvaI CCWGG 2 cut(s) 543, 882
MwoI GCNNNNNNNGC 2 cut(s) 433, 1218
NarI GGCGCC 1 cut(s) 276
NciI CCSGG 1 cut(s) 151
NcoI CCATGG 1 cut(s) 886
NdeII GATC 6 cut(s) 207, 487, 501, 646, 842, 990
NlaIII CATG 9 cut(s) 66, 327, 417, 508, 767, 890, 935, 1002, 1230
NlaIV GGNNCC 9 cut(s) 15, 148, 277, 369, 448, 540, 547, 844, 973
NmeAIII GCCGAG 1 cut(s) 202
NmuCI GTSAC 5 cut(s) 464, 610, 1060, 1094, 1103
NspV TTCGAA 2 cut(s) 520, 687
PciSI GCTCTTC 1 cut(s) 233
PcsI WCGNNNNNNNCGW 1 cut(s) 684
PctI GAATGC 3 cut(s) 311, 1221, 1280
PfeI GAWTC 3 cut(s) 187, 891, 984
PfoI TCCNGGA 1 cut(s) 541
PkrI GCNGC 6 cut(s) 77, 157, 295, 1214, 1245, 1280
PluTI GGCGCC 1 cut(s) 279
PpuMI RGGWCCY 2 cut(s) 14, 539
Psp1406I AACGTT 1 cut(s) 516
Psp5II RGGWCCY 2 cut(s) 14, 539
Psp6I CCWGG 2 cut(s) 541, 880
PspGI CCWGG 2 cut(s) 541, 880
PspN4I GGNNCC 9 cut(s) 15, 148, 277, 369, 448, 540, 547, 844, 973
PspPI GGNCC 4 cut(s) 14, 410, 539, 878
PspPPI RGGWCCY 2 cut(s) 14, 539
PstNI CAGNNNCTG 1 cut(s) 728
PsuI RGATCY 3 cut(s) 487, 646, 842
RsaI GTAC 3 cut(s) 170, 1146, 1160
RsaNI GTAC 3 cut(s) 169, 1145, 1159
RseI CAYNNNNRTG 2 cut(s) 105, 1049
SapI GCTCTTC 1 cut(s) 233
SaqAI TTAA 4 cut(s) 249, 390, 1287, 1327
SatI GCNGC 6 cut(s) 76, 156, 294, 1213, 1244, 1279
Sau3AI GATC 6 cut(s) 207, 487, 501, 646, 842, 990
Sau96I GGNCC 4 cut(s) 14, 410, 539, 878
ScrFI CCNGG 3 cut(s) 151, 543, 882
SduI GDGCHC 2 cut(s) 355, 698
SfaNI GCATC 4 cut(s) 106, 186, 467, 1183
SfcI CTRYAG 1 cut(s) 478
SfoI GGCGCC 1 cut(s) 277
SfuI TTCGAA 2 cut(s) 520, 687
SinI GGWCC 3 cut(s) 14, 539, 878
SmiMI CAYNNNNRTG 2 cut(s) 105, 1049
SmlI CTYRAG 2 cut(s) 182, 191
SmoI CTYRAG 2 cut(s) 182, 191
SpeI ACTAGT 2 cut(s) 355, 740
Sse9I AATT 2 cut(s) 831, 1236
SspDI GGCGCC 1 cut(s) 275
SspMI CTAG 2 cut(s) 356, 741
StyD4I CCNGG 3 cut(s) 149, 541, 880
StyI CCWWGG 2 cut(s) 603, 886
TaaI ACNGT 6 cut(s) 563, 724, 758, 800, 949, 1094
TaiI ACGT 2 cut(s) 519, 681
TaqI TCGA 6 cut(s) 264, 520, 687, 794, 1260, 1318
TasI AATT 2 cut(s) 831, 1236
TfiI GAWTC 3 cut(s) 187, 891, 984
Tru1I TTAA 4 cut(s) 249, 390, 1287, 1327
Tru9I TTAA 4 cut(s) 249, 390, 1287, 1327
TscAI CASTG 6 cut(s) 352, 503, 757, 954, 1108, 1143
TseFI GTSAC 5 cut(s) 464, 610, 1060, 1094, 1103
TseI GCWGC 6 cut(s) 75, 155, 293, 1212, 1243, 1278
Tsp45I GTSAC 5 cut(s) 464, 610, 1060, 1094, 1103
TspDTI ATGAA 4 cut(s) 51, 89, 752, 1067
TspGWI ACGGA 2 cut(s) 235, 969
TspRI CASTG 6 cut(s) 352, 503, 757, 954, 1108, 1143
VneI GTGCAC 1 cut(s) 694
VpaK11BI GGWCC 3 cut(s) 14, 539, 878
XmiI GTMKAC 1 cut(s) 477
XspI CTAG 2 cut(s) 356, 741
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.