Rh6AG298300

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0003318
Physical Location & Seq
Forward (+)
49711413 .. 49713854
2442 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG298300.1

Sequence Viewer

Length: 1353 bp
ATGGCTCTAATGGGACCTTTATTGCTTTTCTGTGTTCTTCTTGTTCTCTCTTTGAGTTCTTCATGTTATAGTAGCAGCTTCCAAGAGAACTCATTACTTCATAGTTATGTTGATGATGCTCATCGTGAAGCAACTGGTTTTTATGGTTCCGGGGCAGCTCATCCTTCGTACATGAGCATCCTTGAGAATCTCAAGTTCTCTGACCGGATCAATCTCCGAACTCGGCTCTTCAGCACATCATCTTCCGTTAAAAAGGTTAGCGTCGATGATTTTGGCGCCAAAGGGAATGGTGCTGCTGATGACACACAGGCATTCCAAAAGGCATGGAAGACAGCTTGTAGTTCCAGTGGGGCACTAGTTCTTCTGGTGCCAAAGAAGAACTATCTTGTTAAGCCAATCACATTTTCAGGGCCATGCAAATCTCAGCTTACAATGCAGATATATGGAACCATAGAAGCATCTGGTGACAGGTCAGTCTACAGCAAAGATCTCAATCACTGGATCATGTTTGACAACGTTCGAAATCTGTTAGTTCAGGGTCCTGGAACCATCAATGGCAACGGTCAAATCTGGTGGCAAAACTCTTGCAAAAGAAAACAAACCAAGCCCTGCGGGACGCAAGCACCTACGGCTGTGACCTTCTACAAATGCAATAACTTTGTGGTGAAGAATCTGAAGTTCCAAGACGCACAGCAAATGCACGTCAGTTTCGAAGAGTGCACTAATGTTCAAGCTTTGTATCTAACAGTAACTGCGCCGGAGACTAGTCCCAACACTGACGGTATTCATGTTGCCAATACCCAGAACATCACAATCTCGAACAGCAATATCGGAACAGGTGATGATTGCATTTCAATTGTAAGTGGATCCCAAAATGTGCAAGCCTCCAGTATTACCTGTGGACCTGGCCATGGAATCAGTATCGGTAGCTTGGGGAAAGGAGGGTCTGAAGACCATGTTTCGCAAGTAACAGTGAACGGAGCTAAGATTTCAGGAACCACGAATGGAATCAGGATCAAAACATGGCAAGGAGGCTCAGGAATGGCAAGCAACATTGCTTTTCAAAACATAGAAATGAATGATGTGACCAACCCCATAATCATAGACCAAAACTACTGTGACACCAGTGACGAAGGACAATGCAAACAACAGAGCAAGGCAGTGAAGGTACAAAATGTGTTGTACCAAAACATCAGAGGGACAAGCACTTCAAAAGATGCCATAACATTTGATTGCAGCAAGAGCATTCCATGTCAGGGAATTGTGCTGCAAAATGTTCAACTCGACAAAGGAGCAGAATGCAGCAATGTTAATCTGGCTTACAAAGGAAATGTCTCCCCTCGATGTGCTTAA
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

450

Amino Acids

48.42

Weight (kDa)

8.25

Isoelectric Point (pI)

30.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 86 - 132 3.7e-06 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 113 - 438 4.3e-103 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
AciI CCGC 1 cut(s) 612
AclI AACGTT 1 cut(s) 516
AclWI GGATC 5 cut(s) 215, 509, 861, 874, 1022
AcoI YGGCCR 1 cut(s) 907
AcuI CTGAAG 3 cut(s) 214, 695, 969
AcyI GRCGYC 1 cut(s) 276
AfaI GTAC 3 cut(s) 170, 1170, 1184
AfiI CCNNNNNNNGG 2 cut(s) 911, 1256
AgsI TTSAA 5 cut(s) 731, 855, 1064, 1212, 1280
AhlI ACTAGT 2 cut(s) 355, 764
AjiI CACGTC 1 cut(s) 703
AjnI CCWGG 2 cut(s) 541, 904
AjuI GAANNNNNNNTTGG 2 cut(s) 388, 420
AluBI AGCT 7 cut(s) 78, 158, 335, 427, 734, 930, 983
AluI AGCT 7 cut(s) 78, 158, 335, 427, 734, 930, 983
Alw21I GWGCWC 1 cut(s) 722
Alw26I GTCTC 2 cut(s) 755, 1339
Alw44I GTGCAC 1 cut(s) 718
AlwI GGATC 5 cut(s) 215, 509, 861, 874, 1022
AlwNI CAGNNNCTG 1 cut(s) 752
AoxI GGCC 2 cut(s) 410, 907
ApaLI GTGCAC 1 cut(s) 718
ApeKI GCWGC 6 cut(s) 75, 155, 293, 1236, 1267, 1302
ArsI GACNNNNNNTTYG 2 cut(s) 1317, 1349
AspLEI GCGC 2 cut(s) 278, 757
AspS9I GGNCC 4 cut(s) 14, 410, 539, 902
AsuC2I CCSGG 1 cut(s) 151
AsuHPI GGTGA 3 cut(s) 476, 676, 851
AsuII TTCGAA 2 cut(s) 520, 711
AvaII GGWCC 3 cut(s) 14, 539, 902
BaeGI GKGCMC 2 cut(s) 355, 722
BalI TGGCCA 1 cut(s) 909
BamHI GGATCC 1 cut(s) 866
BanI GGYRCC 2 cut(s) 275, 367
BbsI GAAGAC 2 cut(s) 335, 957
Bbv12I GWGCWC 1 cut(s) 722
BbvI GCAGC 6 cut(s) 87, 167, 280, 1248, 1254, 1314
BccI CCATC 1 cut(s) 557
BceAI ACGGC 1 cut(s) 645
BciT130I CCWGG 2 cut(s) 543, 906
BcnI CCSGG 1 cut(s) 151
BcoDI GTCTC 2 cut(s) 755, 1339
BcuI ACTAGT 2 cut(s) 355, 764
BfaI CTAG 2 cut(s) 356, 765
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, 1237, 1268, 1303
BlsI GCNGC 6 cut(s) 77, 157, 295, 1238, 1269, 1304
Bme1390I CCNGG 3 cut(s) 151, 543, 906
Bme18I GGWCC 3 cut(s) 14, 539, 902
BmgBI CACGTC 1 cut(s) 703
BmgT120I GGNCC 4 cut(s) 14, 410, 539, 902
BmiI GGNNCC 9 cut(s) 15, 148, 277, 369, 448, 540, 547, 868, 997
BmrFI CCNGG 3 cut(s) 151, 543, 906
BmsI GCATC 4 cut(s) 106, 186, 467, 1207
BpiI GAAGAC 2 cut(s) 335, 957
BpmI CTGGAG 1 cut(s) 871
Bpu10I CCTNAGC 1 cut(s) 1036
Bpu14I TTCGAA 2 cut(s) 520, 711
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 2 cut(s) 150, 910
BsaWI WCCGGW 1 cut(s) 204
Bsc4I CCNNNNNNNGG 2 cut(s) 911, 1256
Bse1I ACTGG 5 cut(s) 139, 345, 503, 888, 1125
Bse3DI GCAATG 2 cut(s) 1053, 1312
Bse8I GATNNNNATC 2 cut(s) 120, 492
BseBI CCWGG 2 cut(s) 543, 906
BseDI CCNNGG 2 cut(s) 150, 910
BseGI GGATG 2 cut(s) 160, 177
BseJI GATNNNNATC 2 cut(s) 120, 492
BseLI CCNNNNNNNGG 2 cut(s) 911, 1256
BseMI GCAATG 2 cut(s) 1053, 1312
BseMII CTCAG 2 cut(s) 437, 1050
BseNI ACTGG 5 cut(s) 139, 345, 503, 888, 1125
BseSI GKGCMC 2 cut(s) 355, 722
BseXI GCAGC 6 cut(s) 87, 167, 280, 1248, 1254, 1314
BshFI GGCC 2 cut(s) 412, 909
BshNI GGYRCC 2 cut(s) 275, 367
BsiHKAI GWGCWC 1 cut(s) 722
BsiSI CCGG 3 cut(s) 150, 205, 758
BslFI GGGAC 4 cut(s) 27, 628, 753, 1213
BslI CCNNNNNNNGG 2 cut(s) 911, 1256
BsmAI GTCTC 2 cut(s) 755, 1339
BsmFI GGGAC 4 cut(s) 27, 628, 753, 1213
BsmI GAATGC 3 cut(s) 311, 1245, 1304
BsnI GGCC 2 cut(s) 412, 909
Bsp119I TTCGAA 2 cut(s) 520, 711
Bsp1286I GDGCHC 2 cut(s) 355, 722
Bsp143I GATC 5 cut(s) 207, 487, 501, 866, 1014
Bsp19I CCATGG 1 cut(s) 910
BspACI CCGC 1 cut(s) 612
BspANI GGCC 2 cut(s) 412, 909
BspCNI CTCAG 2 cut(s) 436, 1049
BspLI GGNNCC 9 cut(s) 15, 148, 277, 369, 448, 540, 547, 868, 997
BspPI GGATC 5 cut(s) 215, 509, 861, 874, 1022
BspQI GCTCTTC 1 cut(s) 233
BspT104I TTCGAA 2 cut(s) 520, 711
BspT107I GGYRCC 2 cut(s) 275, 367
BsrDI GCAATG 2 cut(s) 1053, 1312
BsrI ACTGG 5 cut(s) 139, 345, 503, 888, 1125
BssECI CCNNGG 2 cut(s) 150, 910
BssMI GATC 5 cut(s) 207, 487, 501, 866, 1014
BssNI GRCGYC 1 cut(s) 276
BssT1I CCWWGG 1 cut(s) 910
Bst2UI CCWGG 2 cut(s) 543, 906
Bst4CI ACNGT 5 cut(s) 563, 748, 782, 973, 1118
Bst6I CTCTTC 2 cut(s) 233, 708
BstACI GRCGYC 1 cut(s) 276
BstBI TTCGAA 2 cut(s) 520, 711
BstC8I GCNNGC 3 cut(s) 621, 882, 1048
BstDEI CTNAG 3 cut(s) 423, 984, 1036
BstDSI CCRYGG 1 cut(s) 910
BstF5I GGATG 2 cut(s) 160, 177
BstH2I RGCGCY 1 cut(s) 279
BstHHI GCGC 2 cut(s) 278, 757
BstKTI GATC 5 cut(s) 210, 490, 504, 869, 1017
BstMAI GTCTC 2 cut(s) 755, 1339
BstMBI GATC 5 cut(s) 207, 487, 501, 866, 1014
BstMWI GCNNNNNNNGC 3 cut(s) 433, 629, 1242
BstNI CCWGG 2 cut(s) 543, 906
BstSCI CCNGG 3 cut(s) 149, 541, 904
BstSFI CTRYAG 1 cut(s) 478
BstSLI GKGCMC 2 cut(s) 355, 722
BstV1I GCAGC 6 cut(s) 87, 167, 280, 1248, 1254, 1314
BstV2I GAAGAC 2 cut(s) 335, 957
BstX2I RGATCY 2 cut(s) 487, 866
BstYI RGATCY 2 cut(s) 487, 866
BsuRI GGCC 2 cut(s) 412, 909
BtgI CCRYGG 1 cut(s) 910
BtrI CACGTC 1 cut(s) 703
BtsCI GGATG 2 cut(s) 160, 177
BtsI GCAGTG 1 cut(s) 1167
BtsIMutI CAGTG 6 cut(s) 352, 496, 774, 978, 1132, 1167
Cac8I GCNNGC 3 cut(s) 621, 882, 1048
CaiI CAGNNNCTG 1 cut(s) 752
CfoI GCGC 2 cut(s) 278, 757
Cfr13I GGNCC 4 cut(s) 14, 410, 539, 902
CseI GACGC 3 cut(s) 250, 625, 695
Csp6I GTAC 3 cut(s) 169, 1169, 1183
CspCI CAANNNNNGTGG 2 cut(s) 554, 589
CviQI GTAC 3 cut(s) 169, 1169, 1183
DdeI CTNAG 3 cut(s) 423, 984, 1036
DinI GGCGCC 1 cut(s) 277
DpnI GATC 5 cut(s) 209, 489, 503, 868, 1016
DpnII GATC 5 cut(s) 207, 487, 501, 866, 1014
DrdI GACNNNNNNGTC 1 cut(s) 473
DseDI GACNNNNNNGTC 1 cut(s) 473
EaeI YGGCCR 1 cut(s) 907
Eam1104I CTCTTC 2 cut(s) 233, 708
EarI CTCTTC 2 cut(s) 233, 708
Eco130I CCWWGG 1 cut(s) 910
Eco47I GGWCC 3 cut(s) 14, 539, 902
Eco57I CTGAAG 3 cut(s) 214, 695, 969
EcoO109I RGGNCCY 2 cut(s) 14, 539
EcoRII CCWGG 2 cut(s) 541, 904
EcoT14I CCWWGG 1 cut(s) 910
EgeI GGCGCC 1 cut(s) 277
EheI GGCGCC 1 cut(s) 277
ErhI CCWWGG 1 cut(s) 910
FaqI GGGAC 4 cut(s) 27, 628, 753, 1213
FauI CCCGC 1 cut(s) 605
FblI GTMKAC 1 cut(s) 477
Fnu4HI GCNGC 6 cut(s) 76, 156, 294, 1237, 1268, 1303
FokI GGATG 2 cut(s) 147, 164
Fsp4HI GCNGC 6 cut(s) 76, 156, 294, 1237, 1268, 1303
FspBI CTAG 2 cut(s) 356, 765
GlaI GCGC 2 cut(s) 277, 756
GluI GCNGC 6 cut(s) 76, 156, 294, 1237, 1268, 1303
GsuI CTGGAG 1 cut(s) 871
HaeII RGCGCY 1 cut(s) 279
HaeIII GGCC 2 cut(s) 412, 909
HapII CCGG 3 cut(s) 150, 205, 758
HgaI GACGC 3 cut(s) 250, 625, 695
HhaI GCGC 2 cut(s) 278, 757
Hin1I GRCGYC 1 cut(s) 276
Hin6I GCGC 2 cut(s) 276, 755
HinP1I GCGC 2 cut(s) 276, 755
HindIII AAGCTT 1 cut(s) 732
HinfI GANTC 4 cut(s) 187, 670, 915, 1008
HpaII CCGG 3 cut(s) 150, 205, 758
HphI GGTGA 3 cut(s) 476, 676, 851
Hpy166II GTNNAC 4 cut(s) 478, 720, 902, 976
Hpy188I TCNGA 6 cut(s) 202, 218, 675, 833, 949, 1196
Hpy188III TCNNGA 5 cut(s) 125, 817, 993, 1012, 1038
Hpy8I GTNNAC 4 cut(s) 478, 720, 902, 976
Hpy99I CGWCG 1 cut(s) 266
HpyAV CCTTC 4 cut(s) 174, 649, 1127, 1159
HpyCH4III ACNGT 5 cut(s) 563, 748, 782, 973, 1118
HpyCH4IV ACGT 2 cut(s) 516, 702
HpyF10VI GCNNNNNNNGC 3 cut(s) 433, 629, 1242
HpyF3I CTNAG 3 cut(s) 423, 984, 1036
HpySE526I ACGT 2 cut(s) 516, 702
Hsp92I GRCGYC 1 cut(s) 276
HspAI GCGC 2 cut(s) 276, 755
KasI GGCGCC 1 cut(s) 275
Kzo9I GATC 5 cut(s) 207, 487, 501, 866, 1014
LguI GCTCTTC 1 cut(s) 233
LmnI GCTCC 2 cut(s) 980, 1292
Lsp1109I GCAGC 6 cut(s) 87, 167, 280, 1248, 1254, 1314
LweI GCATC 4 cut(s) 106, 186, 467, 1207
MaeI CTAG 2 cut(s) 356, 765
MaeII ACGT 2 cut(s) 516, 702
MaeIII GTNAC 7 cut(s) 464, 634, 748, 967, 1084, 1118, 1127
MalI GATC 5 cut(s) 209, 489, 503, 868, 1016
MboI GATC 5 cut(s) 207, 487, 501, 866, 1014
MfeI CAATTG 1 cut(s) 855
MflI RGATCY 2 cut(s) 487, 866
MhlI GDGCHC 2 cut(s) 355, 722
MlsI TGGCCA 1 cut(s) 909
MluCI AATT 2 cut(s) 855, 1260
MluNI TGGCCA 1 cut(s) 909
Mly113I GGCGCC 1 cut(s) 276
MnlI CCTC 5 cut(s) 895, 935, 1025, 1190, 1350
Mox20I TGGCCA 1 cut(s) 909
MscI TGGCCA 1 cut(s) 909
MseI TTAA 4 cut(s) 249, 390, 1311, 1351
MslI CAYNNNNRTG 2 cut(s) 105, 1073
Msp20I TGGCCA 1 cut(s) 909
MspI CCGG 3 cut(s) 150, 205, 758
MspR9I CCNGG 3 cut(s) 151, 543, 906
MunI CAATTG 1 cut(s) 855
Mva1269I GAATGC 3 cut(s) 311, 1245, 1304
MvaI CCWGG 2 cut(s) 543, 906
MwoI GCNNNNNNNGC 3 cut(s) 433, 629, 1242
NarI GGCGCC 1 cut(s) 276
NciI CCSGG 1 cut(s) 151
NcoI CCATGG 1 cut(s) 910
NdeII GATC 5 cut(s) 207, 487, 501, 866, 1014
NlaIV GGNNCC 9 cut(s) 15, 148, 277, 369, 448, 540, 547, 868, 997
NmeAIII GCCGAG 1 cut(s) 202
NmuCI GTSAC 5 cut(s) 464, 634, 1084, 1118, 1127
NspV TTCGAA 2 cut(s) 520, 711
PciSI GCTCTTC 1 cut(s) 233
PcsI WCGNNNNNNNCGW 1 cut(s) 708
PctI GAATGC 3 cut(s) 311, 1245, 1304
PfeI GAWTC 4 cut(s) 187, 670, 915, 1008
PfoI TCCNGGA 1 cut(s) 541
PkrI GCNGC 6 cut(s) 77, 157, 295, 1238, 1269, 1304
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, 904
PspGI CCWGG 2 cut(s) 541, 904
PspN4I GGNNCC 9 cut(s) 15, 148, 277, 369, 448, 540, 547, 868, 997
PspPI GGNCC 4 cut(s) 14, 410, 539, 902
PspPPI RGGWCCY 2 cut(s) 14, 539
PstNI CAGNNNCTG 1 cut(s) 752
PsuI RGATCY 2 cut(s) 487, 866
RsaI GTAC 3 cut(s) 170, 1170, 1184
RsaNI GTAC 3 cut(s) 169, 1169, 1183
RseI CAYNNNNRTG 2 cut(s) 105, 1073
SapI GCTCTTC 1 cut(s) 233
SaqAI TTAA 4 cut(s) 249, 390, 1311, 1351
SatI GCNGC 6 cut(s) 76, 156, 294, 1237, 1268, 1303
Sau3AI GATC 5 cut(s) 207, 487, 501, 866, 1014
Sau96I GGNCC 4 cut(s) 14, 410, 539, 902
ScrFI CCNGG 3 cut(s) 151, 543, 906
SduI GDGCHC 2 cut(s) 355, 722
SfaNI GCATC 4 cut(s) 106, 186, 467, 1207
SfcI CTRYAG 1 cut(s) 478
SfoI GGCGCC 1 cut(s) 277
SfuI TTCGAA 2 cut(s) 520, 711
SinI GGWCC 3 cut(s) 14, 539, 902
SmiMI CAYNNNNRTG 2 cut(s) 105, 1073
SmlI CTYRAG 2 cut(s) 182, 191
SmoI CTYRAG 2 cut(s) 182, 191
SpeI ACTAGT 2 cut(s) 355, 764
Sse9I AATT 2 cut(s) 855, 1260
SsiI CCGC 1 cut(s) 612
SspDI GGCGCC 1 cut(s) 275
SspMI CTAG 2 cut(s) 356, 765
StyD4I CCNGG 3 cut(s) 149, 541, 904
StyI CCWWGG 1 cut(s) 910
TaaI ACNGT 5 cut(s) 563, 748, 782, 973, 1118
TaiI ACGT 2 cut(s) 519, 705
TaqI TCGA 6 cut(s) 264, 520, 711, 818, 1284, 1342
TasI AATT 2 cut(s) 855, 1260
TfiI GAWTC 4 cut(s) 187, 670, 915, 1008
Tru1I TTAA 4 cut(s) 249, 390, 1311, 1351
Tru9I TTAA 4 cut(s) 249, 390, 1311, 1351
TscAI CASTG 6 cut(s) 352, 503, 781, 978, 1132, 1167
TseFI GTSAC 5 cut(s) 464, 634, 1084, 1118, 1127
TseI GCWGC 6 cut(s) 75, 155, 293, 1236, 1267, 1302
Tsp45I GTSAC 5 cut(s) 464, 634, 1084, 1118, 1127
TspDTI ATGAA 4 cut(s) 51, 89, 776, 1091
TspGWI ACGGA 2 cut(s) 235, 993
TspRI CASTG 6 cut(s) 352, 503, 781, 978, 1132, 1167
VneI GTGCAC 1 cut(s) 718
VpaK11BI GGWCC 3 cut(s) 14, 539, 902
XmiI GTMKAC 1 cut(s) 477
XspI CTAG 2 cut(s) 356, 765
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.