Rh4DG271300

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0008992
Physical Location & Seq
Forward (+)
49169517 .. 49176025
6509 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG271300.1

Sequence Viewer

Length: 1104 bp
ATGGAGCACCGTACTATAATAATCCTCTGGATTACAGTCAGCCTTATTTTACTCCAGAATCCAAGCACTGTACAAGGAAGATATCACTACCATAAAAAGACCAATAAAAGGTCACAATCCCCTACTCCTTCTCCTGAACCCCCTGAATCTCCAGAGCCGGTAGCTCCTTCAACCCCTGTGGCTCCTTCTACACCAAGCACTAGTCCTCCGAATGTTCCGTCGGACCCTTACCCGGATGACCCGGGAAACAACTCCAACACTACGGATTGTACATTCAACGTCATGTCGTTCGGGGCCGTCGGAGACGGCGATGCTGATGACACCAAGGCGTTCAGGGACGCTTGGAAAGCGGCATGTGCAGTTGAATCCGCTGTTATTTTGGCTCCGGCTGATTACTGCTTCAAGATCACTTCCACCATTTTTTCAGGTCCTTGCAAGCCTGGACTAGTATTCCAAGTCGATGGGATTTTGATGGCACCAGACGGGCCAGAGGCTTGGCCTAAACCAGACAGCCATAAGCAATGGCTTGTGTTTTATCGACTTGACCAAATGACTTTGACTGGAAGTGGAACCATCGAAGGCAATGGCCAAAAATGGTGGGAACTGCCTTGCAAGCCTCACAGGGGTCCCAATGGATCCACAGCATCAGGACCATGTGATAGCCCTGCTATGATTCGATTCTTCATGAGCACCAATTTGGTGGTGAGAGGGTTAACTATCCAAAACAGTCCAATGTTCCACATGAAATTCGATGGCTGCGAAGGAGTGCAGATTGAAAAGCTGTCGATTTCTTCCCCGAAACTTAGCCCTAACACAGATGGAATCCACATAGAGAACACAACATCTGTTGGAATATATGACTCAAAGATAAGCAACGGGGATGACTGCATTTCAATAGGACCAGGATGTGCCAACGTTGATATAATGGGGGTCACTTGCGGGCCAAGTCACGGAATTAGGTACAATATTCCCTTCTTAATAAATTGTGTTCTCGGCTGCTACAACTACCAATATTTGAGTACGTCCAAACCTTCATTTGCATCCAAGTCACTTTTTTCTCATCCTCCAAAAGGGAATCCATCTGTAACAGTTGGAAGGGATTAG

Protein Analysis

367

Amino Acids

39.6

Weight (kDa)

5.98

Isoelectric Point (pI)

49.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 126 - 319 3.8e-41 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 475
AciI CCGC 3 cut(s) 350, 369, 939
AclI AACGTT 1 cut(s) 915
AclWI GGATC 2 cut(s) 630, 643
AcoI YGGCCR 1 cut(s) 586
AcsI RAATTY 1 cut(s) 746
AfaI GTAC 5 cut(s) 13, 72, 271, 962, 1021
AfiI CCNNNNNNNGG 5 cut(s) 108, 232, 623, 950, 1070
AgsI TTSAA 6 cut(s) 171, 277, 365, 403, 776, 894
AhlI ACTAGT 2 cut(s) 200, 445
AjnI CCWGG 2 cut(s) 439, 901
AluBI AGCT 2 cut(s) 164, 781
AluI AGCT 2 cut(s) 164, 781
Alw21I GWGCWC 2 cut(s) 9, 692
Alw26I GTCTC 1 cut(s) 297
AlwI GGATC 2 cut(s) 630, 643
Ama87I CYCGRG 1 cut(s) 241
AoxI GGCC 5 cut(s) 294, 485, 497, 586, 941
ApeKI GCWGC 2 cut(s) 756, 996
ApoI RAATTY 1 cut(s) 746
ArsI GACNNNNNNTTYG 2 cut(s) 203, 235
AspS9I GGNCC 8 cut(s) 223, 294, 428, 485, 626, 650, 899, 941
AsuC2I CCSGG 3 cut(s) 233, 242, 243
AsuHPI GGTGA 1 cut(s) 715
AvaI CYCGRG 1 cut(s) 241
AvaII GGWCC 5 cut(s) 223, 428, 626, 650, 899
BalI TGGCCA 1 cut(s) 588
BamHI GGATCC 1 cut(s) 635
BanI GGYRCC 1 cut(s) 475
Bbv12I GWGCWC 2 cut(s) 9, 692
BbvI GCAGC 2 cut(s) 743, 983
BccI CCATC 6 cut(s) 455, 466, 581, 746, 812, 1087
BceAI ACGGC 2 cut(s) 281, 322
BciT130I CCWGG 2 cut(s) 441, 903
BcnI CCSGG 3 cut(s) 233, 242, 243
BcoDI GTCTC 1 cut(s) 297
BcuI ACTAGT 2 cut(s) 200, 445
BfaI CTAG 2 cut(s) 201, 446
BisI GCNGC 3 cut(s) 351, 757, 997
BlsI GCNGC 3 cut(s) 352, 758, 998
Bme1390I CCNGG 5 cut(s) 233, 242, 243, 441, 903
Bme18I GGWCC 5 cut(s) 223, 428, 626, 650, 899
BmeT110I CYCGRG 1 cut(s) 241
BmgT120I GGNCC 8 cut(s) 223, 294, 428, 485, 626, 650, 899, 941
BmiI GGNNCC 9 cut(s) 183, 225, 295, 384, 477, 571, 627, 628, 637
BmrFI CCNGG 5 cut(s) 233, 242, 243, 441, 903
BmsI GCATC 3 cut(s) 301, 653, 1049
BpmI CTGGAG 2 cut(s) 38, 135
BpuMI CCSGG 3 cut(s) 233, 242, 243
BsaJI CCNNGG 2 cut(s) 241, 324
BsaXI ACNNNNNCTCC 4 cut(s) 115, 145, 190, 220
Bsc4I CCNNNNNNNGG 5 cut(s) 108, 232, 623, 950, 1070
Bse118I RCCGGY 1 cut(s) 157
Bse1I ACTGG 1 cut(s) 565
Bse3DI GCAATG 2 cut(s) 527, 589
BseBI CCWGG 2 cut(s) 441, 903
BseDI CCNNGG 2 cut(s) 241, 324
BseGI GGATG 5 cut(s) 241, 886, 911, 1040, 1060
BseLI CCNNNNNNNGG 5 cut(s) 108, 232, 623, 950, 1070
BseMI GCAATG 2 cut(s) 527, 589
BseNI ACTGG 1 cut(s) 565
BseXI GCAGC 2 cut(s) 743, 983
BsgI GTGCAG 2 cut(s) 378, 788
BshFI GGCC 5 cut(s) 296, 487, 499, 588, 943
BshNI GGYRCC 1 cut(s) 475
BsiHKAI GWGCWC 2 cut(s) 9, 692
BsiHKCI CYCGRG 1 cut(s) 241
BsiSI CCGG 4 cut(s) 158, 233, 242, 386
BslFI GGGAC 2 cut(s) 350, 612
BslI CCNNNNNNNGG 5 cut(s) 108, 232, 623, 950, 1070
BsmAI GTCTC 1 cut(s) 297
BsmBI CGTCTC 1 cut(s) 297
BsmFI GGGAC 2 cut(s) 350, 612
BsnI GGCC 5 cut(s) 296, 487, 499, 588, 943
BsoBI CYCGRG 1 cut(s) 241
Bsp1286I GDGCHC 2 cut(s) 9, 692
Bsp1407I TGTACA 2 cut(s) 70, 269
Bsp143I GATC 2 cut(s) 405, 635
BspACI CCGC 3 cut(s) 350, 369, 939
BspANI GGCC 5 cut(s) 296, 487, 499, 588, 943
BspHI TCATGA 1 cut(s) 684
BspLI GGNNCC 9 cut(s) 183, 225, 295, 384, 477, 571, 627, 628, 637
BspPI GGATC 2 cut(s) 630, 643
BspT107I GGYRCC 1 cut(s) 475
BsrDI GCAATG 2 cut(s) 527, 589
BsrFI RCCGGY 1 cut(s) 157
BsrGI TGTACA 2 cut(s) 70, 269
BsrI ACTGG 1 cut(s) 565
BssAI RCCGGY 1 cut(s) 157
BssECI CCNNGG 2 cut(s) 241, 324
BssMI GATC 2 cut(s) 405, 635
BssT1I CCWWGG 1 cut(s) 324
Bst2UI CCWGG 2 cut(s) 441, 903
Bst4CI ACNGT 5 cut(s) 11, 37, 70, 728, 1090
BstAUI TGTACA 2 cut(s) 70, 269
BstC8I GCNNGC 3 cut(s) 437, 614, 941
BstDEI CTNAG 1 cut(s) 803
BstENI CCTNNNNNAGG 1 cut(s) 1068
BstF5I GGATG 5 cut(s) 241, 886, 911, 1040, 1060
BstKTI GATC 2 cut(s) 408, 638
BstMAI GTCTC 1 cut(s) 297
BstMBI GATC 2 cut(s) 405, 635
BstMWI GCNNNNNNNGC 3 cut(s) 347, 356, 613
BstNI CCWGG 2 cut(s) 441, 903
BstNSI RCATGY 1 cut(s) 357
BstSCI CCNGG 5 cut(s) 231, 240, 241, 439, 901
BstV1I GCAGC 2 cut(s) 743, 983
BstX2I RGATCY 1 cut(s) 635
BstXI CCANNNNNNTGG 3 cut(s) 461, 495, 700
BstYI RGATCY 1 cut(s) 635
BsuRI GGCC 5 cut(s) 296, 487, 499, 588, 943
BtgZI GCGATG 1 cut(s) 324
BtsCI GGATG 5 cut(s) 241, 886, 911, 1040, 1060
BtsIMutI CAGTG 1 cut(s) 66
Cac8I GCNNGC 3 cut(s) 437, 614, 941
CciI TCATGA 1 cut(s) 684
Cfr10I RCCGGY 1 cut(s) 157
Cfr13I GGNCC 8 cut(s) 223, 294, 428, 485, 626, 650, 899, 941
Cfr9I CCCGGG 1 cut(s) 241
CseI GACGC 1 cut(s) 347
Csp6I GTAC 5 cut(s) 12, 71, 270, 961, 1020
CspCI CAANNNNNGTGG 4 cut(s) 159, 194, 578, 613
CviAII CATG 5 cut(s) 283, 354, 654, 685, 742
CviQI GTAC 5 cut(s) 12, 71, 270, 961, 1020
DdeI CTNAG 1 cut(s) 803
DpnI GATC 2 cut(s) 407, 637
DpnII GATC 2 cut(s) 405, 635
EaeI YGGCCR 1 cut(s) 586
Eco130I CCWWGG 1 cut(s) 324
Eco32I GATATC 1 cut(s) 83
Eco47I GGWCC 5 cut(s) 223, 428, 626, 650, 899
Eco88I CYCGRG 1 cut(s) 241
EcoNI CCTNNNNNAGG 1 cut(s) 1068
EcoO109I RGGNCCY 2 cut(s) 428, 626
EcoRII CCWGG 2 cut(s) 439, 901
EcoRV GATATC 1 cut(s) 83
EcoT14I CCWWGG 1 cut(s) 324
ErhI CCWWGG 1 cut(s) 324
Esp3I CGTCTC 1 cut(s) 297
FaeI CATG 5 cut(s) 286, 357, 657, 688, 745
FaqI GGGAC 2 cut(s) 350, 612
FatI CATG 5 cut(s) 282, 353, 653, 684, 741
FauI CCCGC 1 cut(s) 932
Fnu4HI GCNGC 3 cut(s) 351, 757, 997
FokI GGATG 5 cut(s) 248, 893, 918, 1027, 1047
Fsp4HI GCNGC 3 cut(s) 351, 757, 997
FspBI CTAG 2 cut(s) 201, 446
GluI GCNGC 3 cut(s) 351, 757, 997
GsuI CTGGAG 2 cut(s) 38, 135
HaeIII GGCC 5 cut(s) 296, 487, 499, 588, 943
HapII CCGG 4 cut(s) 158, 233, 242, 386
HgaI GACGC 1 cut(s) 347
Hin1II CATG 5 cut(s) 286, 357, 657, 688, 745
HincII GTYRAC 1 cut(s) 714
HindII GTYRAC 1 cut(s) 714
HinfI GANTC 8 cut(s) 58, 146, 365, 673, 678, 822, 860, 1075
HpaI GTTAAC 1 cut(s) 714
HpaII CCGG 4 cut(s) 158, 233, 242, 386
HphI GGTGA 1 cut(s) 715
Hpy166II GTNNAC 1 cut(s) 714
Hpy188I TCNGA 3 cut(s) 210, 223, 302
Hpy188III TCNNGA 7 cut(s) 28, 55, 134, 152, 403, 648, 685
Hpy8I GTNNAC 1 cut(s) 714
Hpy99I CGWCG 2 cut(s) 223, 302
HpyAV CCTTC 8 cut(s) 138, 177, 195, 572, 755, 982, 1041, 1089
HpyCH4III ACNGT 5 cut(s) 11, 37, 70, 728, 1090
HpyCH4IV ACGT 3 cut(s) 279, 915, 1022
HpyCH4V TGCA 6 cut(s) 359, 435, 612, 769, 888, 1040
HpyF10VI GCNNNNNNNGC 3 cut(s) 347, 356, 613
HpyF3I CTNAG 1 cut(s) 803
HpySE526I ACGT 3 cut(s) 279, 915, 1022
Hsp92II CATG 5 cut(s) 286, 357, 657, 688, 745
KflI GGGWCCC 1 cut(s) 626
KspAI GTTAAC 1 cut(s) 714
Kzo9I GATC 2 cut(s) 405, 635
LmnI GCTCC 4 cut(s) 4, 169, 187, 388
Lsp1109I GCAGC 2 cut(s) 743, 983
LweI GCATC 3 cut(s) 301, 653, 1049
MaeI CTAG 2 cut(s) 201, 446
MaeII ACGT 3 cut(s) 279, 915, 1022
MaeIII GTNAC 5 cut(s) 111, 931, 947, 1047, 1084
MalI GATC 2 cut(s) 407, 637
MboI GATC 2 cut(s) 405, 635
MboII GAAGA 3 cut(s) 90, 673, 783
MflI RGATCY 1 cut(s) 635
MhlI GDGCHC 2 cut(s) 9, 692
MlsI TGGCCA 1 cut(s) 588
MluCI AATT 4 cut(s) 694, 746, 954, 982
MluNI TGGCCA 1 cut(s) 588
MlyI GAGTC 1 cut(s) 854
MmeI TCCRAC 5 cut(s) 201, 279, 280, 829, 1072
MnlI CCTC 6 cut(s) 35, 216, 484, 627, 701, 1074
Mox20I TGGCCA 1 cut(s) 588
MscI TGGCCA 1 cut(s) 588
MseI TTAA 2 cut(s) 713, 977
Msp20I TGGCCA 1 cut(s) 588
MspA1I CMGCKG 1 cut(s) 371
MspI CCGG 4 cut(s) 158, 233, 242, 386
MspR9I CCNGG 5 cut(s) 233, 242, 243, 441, 903
MvaI CCWGG 2 cut(s) 441, 903
MwoI GCNNNNNNNGC 3 cut(s) 347, 356, 613
NciI CCSGG 3 cut(s) 233, 242, 243
NdeII GATC 2 cut(s) 405, 635
NlaIII CATG 5 cut(s) 286, 357, 657, 688, 745
NlaIV GGNNCC 9 cut(s) 183, 225, 295, 384, 477, 571, 627, 628, 637
NmeAIII GCCGAG 1 cut(s) 972
NmuCI GTSAC 4 cut(s) 111, 931, 947, 1047
NspI RCATGY 1 cut(s) 357
PagI TCATGA 1 cut(s) 684
PcsI WCGNNNNNNNCGW 2 cut(s) 306, 756
PfeI GAWTC 7 cut(s) 58, 146, 365, 673, 678, 822, 1075
PkrI GCNGC 3 cut(s) 352, 758, 998
PleI GAGTC 1 cut(s) 854
PpsI GAGTC 1 cut(s) 854
PpuMI RGGWCCY 2 cut(s) 428, 626
Psp1406I AACGTT 1 cut(s) 915
Psp5II RGGWCCY 2 cut(s) 428, 626
Psp6I CCWGG 2 cut(s) 439, 901
PspGI CCWGG 2 cut(s) 439, 901
PspN4I GGNNCC 9 cut(s) 183, 225, 295, 384, 477, 571, 627, 628, 637
PspPI GGNCC 8 cut(s) 223, 294, 428, 485, 626, 650, 899, 941
PspPPI RGGWCCY 2 cut(s) 428, 626
PsuI RGATCY 1 cut(s) 635
RsaI GTAC 5 cut(s) 13, 72, 271, 962, 1021
RsaNI GTAC 5 cut(s) 12, 71, 270, 961, 1020
SaqAI TTAA 2 cut(s) 713, 977
SatI GCNGC 3 cut(s) 351, 757, 997
Sau3AI GATC 2 cut(s) 405, 635
Sau96I GGNCC 8 cut(s) 223, 294, 428, 485, 626, 650, 899, 941
SchI GAGTC 1 cut(s) 854
ScrFI CCNGG 5 cut(s) 233, 242, 243, 441, 903
SduI GDGCHC 2 cut(s) 9, 692
SetI ASST 9 cut(s) 113, 166, 282, 430, 783, 918, 962, 1025, 1033
SfaNI GCATC 3 cut(s) 301, 653, 1049
SinI GGWCC 5 cut(s) 223, 428, 626, 650, 899
SmaI CCCGGG 1 cut(s) 243
SpeI ACTAGT 2 cut(s) 200, 445
Sse9I AATT 4 cut(s) 694, 746, 954, 982
SsiI CCGC 3 cut(s) 350, 369, 939
SspI AATATT 2 cut(s) 967, 1013
SspMI CTAG 2 cut(s) 201, 446
StyD4I CCNGG 5 cut(s) 231, 240, 241, 439, 901
StyI CCWWGG 1 cut(s) 324
TaaI ACNGT 5 cut(s) 11, 37, 70, 728, 1090
TaiI ACGT 3 cut(s) 282, 918, 1025
TaqI TCGA 6 cut(s) 459, 538, 576, 676, 750, 785
TasI AATT 4 cut(s) 694, 746, 954, 982
TatI WGTACW 2 cut(s) 70, 269
TauI GCSGC 1 cut(s) 353
TfiI GAWTC 7 cut(s) 58, 146, 365, 673, 678, 822, 1075
Tru1I TTAA 2 cut(s) 713, 977
Tru9I TTAA 2 cut(s) 713, 977
TscAI CASTG 1 cut(s) 73
TseFI GTSAC 4 cut(s) 111, 931, 947, 1047
TseI GCWGC 2 cut(s) 756, 996
Tsp45I GTSAC 4 cut(s) 111, 931, 947, 1047
TspDTI ATGAA 3 cut(s) 673, 758, 1023
TspGWI ACGGA 3 cut(s) 207, 278, 966
TspMI CCCGGG 1 cut(s) 241
TspRI CASTG 1 cut(s) 73
VpaK11BI GGWCC 5 cut(s) 223, 428, 626, 650, 899
XagI CCTNNNNNAGG 1 cut(s) 1068
XapI RAATTY 1 cut(s) 746
XceI RCATGY 1 cut(s) 357
XmaI CCCGGG 1 cut(s) 241
XspI CTAG 2 cut(s) 201, 446
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.