Rh4BG274500

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0008992
Physical Location & Seq
Forward (+)
44881000 .. 44886990
5991 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG274500.1

Sequence Viewer

Length: 1098 bp
ATGGAGCACCGTACTATAATAATCCTCTGGATTACAGTCAGCCTTATTTTACTCCAGAATCCAAGCAATGTACAAGGAAGATATCACTACCATAAAAAGACCAGTAAAAGGTCACAATCCCCTACTCCTTCTCCTGAATCCCCTGAATCTCCAGAGCCGGTAGCTCCTTCAACCCCTGTGGCTCCTTCTACACCAAGCACTAGTCCTCCGAATGTTCCGTCGGACCCTTACCCGGACGACCCAGGAAACAACTCCAACACTACGGATAGTACATTCAACGTCATGTCGTTCGGGGCCGTCGGAGACGGCGATGCTGATGACACCATGGCGTTCAGGGACGCTTGGAAAGCGGCATGTGCAGTTGAATCCGCTGTTATTTTGGCTCCGGCTGATTACTGCTTCAAGATCACTTCCACCATTTTTTCAGGTCCTTGCAAGCCTGGACTAGTATTCCAAGTCGATGGGATTTTGATGGCACCAGACGGGCCAAAGGCTTGGCCAAAAGCAGACAGCAATAAGCAATGGCTTGTGTTTTATCGACTTGACCAAATGACTTTCACTGGAAGTGGAACCATCGAAGGCAATGGTCAAAAATGGTGGGAACTGCCTTGCAAGCCCCACAGGGGTCCCAATGGATCCACAGCATCAGGACCATGTGATAGCCCTGCTATGATTCGATTCTTCATGAGCACCAATTTGGTGGTGAGCGGGTTAACTATCCAAAACAGTCCAATGTTCCACATGAAATTCGATGGCTGCGAAGGAGTGCAGATTGAAAAGCTGTCGATTTCTTCCCCGAGACTTAGCCCTAACACAGATGGAATCCACATAGAGAACACAAAATCTGTTGGAATATATGACTCAAAGATAAGCAACGGGGATGACTGCATTTCAATAGGAACAGGATGTGCCAACGTTGATATAATGGGGGTCACTTGCGGGCCAAGTCACGGAATTAGGTACAATATTCCCTTCTTAATAAATTGTGTTCTTGGCTGCTACACCTACCAATTGAGTCCAAACCTTCATTTGCATCCAAGTCACTTTTTTTCTCATCCTCCAAAAGGGTATCCAACTTTAACAGTTGGAAGGGATTAG

Protein Analysis

365

Amino Acids

39.48

Weight (kDa)

5.98

Isoelectric Point (pI)

51.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 126 - 319 4.3e-41 Glycosyl hydrolases family 28
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 475
AccBSI CCGCTC 1 cut(s) 708
AciI CCGC 4 cut(s) 350, 369, 708, 939
AclI AACGTT 1 cut(s) 915
AclWI GGATC 2 cut(s) 630, 643
AcoI YGGCCR 1 cut(s) 497
AcsI RAATTY 1 cut(s) 746
AfaI GTAC 4 cut(s) 13, 72, 271, 962
AfiI CCNNNNNNNGG 5 cut(s) 108, 232, 623, 950, 1064
AgsI TTSAA 6 cut(s) 171, 277, 365, 403, 776, 894
AhlI ACTAGT 2 cut(s) 200, 445
AjnI CCWGG 2 cut(s) 241, 439
AluBI AGCT 2 cut(s) 164, 781
AluI AGCT 2 cut(s) 164, 781
Alw21I GWGCWC 2 cut(s) 9, 692
Alw26I GTCTC 2 cut(s) 297, 793
AlwI GGATC 2 cut(s) 630, 643
Ama87I CYCGRG 1 cut(s) 796
AoxI GGCC 4 cut(s) 294, 485, 497, 941
ApeKI GCWGC 2 cut(s) 756, 996
ApoI RAATTY 1 cut(s) 746
ArsI GACNNNNNNTTYG 2 cut(s) 203, 235
AspS9I GGNCC 7 cut(s) 223, 294, 428, 485, 626, 650, 941
AsuC2I CCSGG 1 cut(s) 233
AsuHPI GGTGA 1 cut(s) 715
AvaI CYCGRG 1 cut(s) 796
AvaII GGWCC 4 cut(s) 223, 428, 626, 650
BalI TGGCCA 1 cut(s) 499
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 5 cut(s) 455, 466, 581, 746, 812
BceAI ACGGC 2 cut(s) 281, 322
BciT130I CCWGG 2 cut(s) 243, 441
BciVI GTATCC 1 cut(s) 1080
BcnI CCSGG 1 cut(s) 233
BcoDI GTCTC 2 cut(s) 297, 793
BcuI ACTAGT 2 cut(s) 200, 445
BfaI CTAG 2 cut(s) 201, 446
BfuI GTATCC 1 cut(s) 1080
BisI GCNGC 3 cut(s) 351, 757, 997
BlsI GCNGC 3 cut(s) 352, 758, 998
Bme1390I CCNGG 3 cut(s) 233, 243, 441
Bme18I GGWCC 4 cut(s) 223, 428, 626, 650
BmeT110I CYCGRG 1 cut(s) 796
BmgT120I GGNCC 7 cut(s) 223, 294, 428, 485, 626, 650, 941
BmiI GGNNCC 9 cut(s) 183, 225, 295, 384, 477, 571, 627, 628, 637
BmrFI CCNGG 3 cut(s) 233, 243, 441
BmsI GCATC 3 cut(s) 301, 653, 1042
BpmI CTGGAG 2 cut(s) 38, 135
BpuMI CCSGG 1 cut(s) 233
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, 1064
Bse118I RCCGGY 1 cut(s) 157
Bse1I ACTGG 2 cut(s) 102, 565
Bse3DI GCAATG 3 cut(s) 73, 527, 589
BseBI CCWGG 2 cut(s) 243, 441
BseDI CCNNGG 2 cut(s) 241, 324
BseGI GGATG 4 cut(s) 886, 911, 1033, 1054
BseLI CCNNNNNNNGG 5 cut(s) 108, 232, 623, 950, 1064
BseMI GCAATG 3 cut(s) 73, 527, 589
BseNI ACTGG 2 cut(s) 102, 565
BseXI GCAGC 2 cut(s) 743, 983
BsgI GTGCAG 2 cut(s) 378, 788
BshFI GGCC 4 cut(s) 296, 487, 499, 943
BshNI GGYRCC 1 cut(s) 475
BsiHKAI GWGCWC 2 cut(s) 9, 692
BsiHKCI CYCGRG 1 cut(s) 796
BsiSI CCGG 3 cut(s) 158, 233, 386
BslFI GGGAC 2 cut(s) 350, 612
BslI CCNNNNNNNGG 5 cut(s) 108, 232, 623, 950, 1064
BsmAI GTCTC 2 cut(s) 297, 793
BsmBI CGTCTC 1 cut(s) 297
BsmFI GGGAC 2 cut(s) 350, 612
BsnI GGCC 4 cut(s) 296, 487, 499, 943
BsoBI CYCGRG 1 cut(s) 796
Bsp1286I GDGCHC 2 cut(s) 9, 692
Bsp1407I TGTACA 1 cut(s) 70
Bsp143I GATC 2 cut(s) 405, 635
Bsp19I CCATGG 1 cut(s) 324
BspACI CCGC 4 cut(s) 350, 369, 708, 939
BspANI GGCC 4 cut(s) 296, 487, 499, 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
BsrBI CCGCTC 1 cut(s) 708
BsrDI GCAATG 3 cut(s) 73, 527, 589
BsrFI RCCGGY 1 cut(s) 157
BsrGI TGTACA 1 cut(s) 70
BsrI ACTGG 2 cut(s) 102, 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) 243, 441
Bst4CI ACNGT 4 cut(s) 11, 37, 728, 1084
BstAUI TGTACA 1 cut(s) 70
BstC8I GCNNGC 3 cut(s) 437, 614, 941
BstDEI CTNAG 1 cut(s) 803
BstDSI CCRYGG 1 cut(s) 324
BstENI CCTNNNNNAGG 1 cut(s) 1062
BstF5I GGATG 4 cut(s) 886, 911, 1033, 1054
BstKTI GATC 2 cut(s) 408, 638
BstMAI GTCTC 2 cut(s) 297, 793
BstMBI GATC 2 cut(s) 405, 635
BstMWI GCNNNNNNNGC 3 cut(s) 347, 356, 613
BstNI CCWGG 2 cut(s) 243, 441
BstNSI RCATGY 1 cut(s) 357
BstSCI CCNGG 3 cut(s) 231, 241, 439
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
BsuI GTATCC 1 cut(s) 1080
BsuRI GGCC 4 cut(s) 296, 487, 499, 943
BtgI CCRYGG 1 cut(s) 324
BtgZI GCGATG 1 cut(s) 324
BtsCI GGATG 4 cut(s) 886, 911, 1033, 1054
BtsIMutI CAGTG 1 cut(s) 558
Cac8I GCNNGC 3 cut(s) 437, 614, 941
CciI TCATGA 1 cut(s) 684
Cfr10I RCCGGY 1 cut(s) 157
Cfr13I GGNCC 7 cut(s) 223, 294, 428, 485, 626, 650, 941
CseI GACGC 1 cut(s) 347
Csp6I GTAC 4 cut(s) 12, 71, 270, 961
CspCI CAANNNNNGTGG 4 cut(s) 159, 194, 578, 613
CviAII CATG 6 cut(s) 283, 325, 354, 654, 685, 742
CviQI GTAC 4 cut(s) 12, 71, 270, 961
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) 497
Eco130I CCWWGG 1 cut(s) 324
Eco32I GATATC 1 cut(s) 83
Eco47I GGWCC 4 cut(s) 223, 428, 626, 650
Eco88I CYCGRG 1 cut(s) 796
EcoNI CCTNNNNNAGG 1 cut(s) 1062
EcoO109I RGGNCCY 2 cut(s) 428, 626
EcoRII CCWGG 2 cut(s) 241, 439
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 6 cut(s) 286, 328, 357, 657, 688, 745
FaqI GGGAC 2 cut(s) 350, 612
FatI CATG 6 cut(s) 282, 324, 353, 653, 684, 741
FauI CCCGC 2 cut(s) 701, 932
Fnu4HI GCNGC 3 cut(s) 351, 757, 997
FokI GGATG 4 cut(s) 893, 918, 1020, 1041
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 4 cut(s) 296, 487, 499, 943
HapII CCGG 3 cut(s) 158, 233, 386
HgaI GACGC 1 cut(s) 347
Hin1II CATG 6 cut(s) 286, 328, 357, 657, 688, 745
HincII GTYRAC 1 cut(s) 714
HindII GTYRAC 1 cut(s) 714
HinfI GANTC 9 cut(s) 58, 137, 146, 365, 673, 678, 822, 860, 1015
HpaI GTTAAC 1 cut(s) 714
HpaII CCGG 3 cut(s) 158, 233, 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, 1034, 1083
HpyCH4III ACNGT 4 cut(s) 11, 37, 728, 1084
HpyCH4IV ACGT 2 cut(s) 279, 915
HpyCH4V TGCA 6 cut(s) 359, 435, 612, 769, 888, 1033
HpyF10VI GCNNNNNNNGC 3 cut(s) 347, 356, 613
HpyF3I CTNAG 1 cut(s) 803
HpySE526I ACGT 2 cut(s) 279, 915
Hsp92II CATG 6 cut(s) 286, 328, 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, 1042
MaeI CTAG 2 cut(s) 201, 446
MaeII ACGT 2 cut(s) 279, 915
MaeIII GTNAC 4 cut(s) 111, 931, 947, 1040
MalI GATC 2 cut(s) 407, 637
MbiI CCGCTC 1 cut(s) 708
MboI GATC 2 cut(s) 405, 635
MboII GAAGA 3 cut(s) 90, 673, 783
MfeI CAATTG 1 cut(s) 1010
MflI RGATCY 1 cut(s) 635
MhlI GDGCHC 2 cut(s) 9, 692
MlsI TGGCCA 1 cut(s) 499
MluCI AATT 5 cut(s) 694, 746, 954, 982, 1010
MluNI TGGCCA 1 cut(s) 499
MlyI GAGTC 2 cut(s) 854, 1024
MmeI TCCRAC 6 cut(s) 201, 279, 280, 829, 1066, 1097
MnlI CCTC 3 cut(s) 35, 216, 1068
Mox20I TGGCCA 1 cut(s) 499
MscI TGGCCA 1 cut(s) 499
MseI TTAA 3 cut(s) 713, 977, 1079
Msp20I TGGCCA 1 cut(s) 499
MspA1I CMGCKG 1 cut(s) 371
MspI CCGG 3 cut(s) 158, 233, 386
MspR9I CCNGG 3 cut(s) 233, 243, 441
MunI CAATTG 1 cut(s) 1010
MvaI CCWGG 2 cut(s) 243, 441
MwoI GCNNNNNNNGC 3 cut(s) 347, 356, 613
NciI CCSGG 1 cut(s) 233
NcoI CCATGG 1 cut(s) 324
NdeII GATC 2 cut(s) 405, 635
NlaIII CATG 6 cut(s) 286, 328, 357, 657, 688, 745
NlaIV GGNNCC 9 cut(s) 183, 225, 295, 384, 477, 571, 627, 628, 637
NmuCI GTSAC 4 cut(s) 111, 931, 947, 1040
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, 137, 146, 365, 673, 678, 822
PkrI GCNGC 3 cut(s) 352, 758, 998
PleI GAGTC 2 cut(s) 854, 1023
PpsI GAGTC 2 cut(s) 854, 1023
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) 241, 439
PspGI CCWGG 2 cut(s) 241, 439
PspN4I GGNNCC 9 cut(s) 183, 225, 295, 384, 477, 571, 627, 628, 637
PspPI GGNCC 7 cut(s) 223, 294, 428, 485, 626, 650, 941
PspPPI RGGWCCY 2 cut(s) 428, 626
PsuI RGATCY 1 cut(s) 635
RsaI GTAC 4 cut(s) 13, 72, 271, 962
RsaNI GTAC 4 cut(s) 12, 71, 270, 961
SaqAI TTAA 3 cut(s) 713, 977, 1079
SatI GCNGC 3 cut(s) 351, 757, 997
Sau3AI GATC 2 cut(s) 405, 635
Sau96I GGNCC 7 cut(s) 223, 294, 428, 485, 626, 650, 941
SchI GAGTC 2 cut(s) 854, 1024
ScrFI CCNGG 3 cut(s) 233, 243, 441
SduI GDGCHC 2 cut(s) 9, 692
SetI ASST 9 cut(s) 113, 166, 282, 430, 783, 918, 962, 1007, 1026
SfaNI GCATC 3 cut(s) 301, 653, 1042
SinI GGWCC 4 cut(s) 223, 428, 626, 650
SpeI ACTAGT 2 cut(s) 200, 445
Sse9I AATT 5 cut(s) 694, 746, 954, 982, 1010
SsiI CCGC 4 cut(s) 350, 369, 708, 939
SspI AATATT 1 cut(s) 967
SspMI CTAG 2 cut(s) 201, 446
StyD4I CCNGG 3 cut(s) 231, 241, 439
StyI CCWWGG 1 cut(s) 324
TaaI ACNGT 4 cut(s) 11, 37, 728, 1084
TaiI ACGT 2 cut(s) 282, 918
TaqI TCGA 6 cut(s) 459, 538, 576, 676, 750, 785
TasI AATT 5 cut(s) 694, 746, 954, 982, 1010
TatI WGTACW 2 cut(s) 70, 269
TauI GCSGC 1 cut(s) 353
TfiI GAWTC 7 cut(s) 58, 137, 146, 365, 673, 678, 822
Tru1I TTAA 3 cut(s) 713, 977, 1079
Tru9I TTAA 3 cut(s) 713, 977, 1079
TscAI CASTG 1 cut(s) 565
TseFI GTSAC 4 cut(s) 111, 931, 947, 1040
TseI GCWGC 2 cut(s) 756, 996
Tsp45I GTSAC 4 cut(s) 111, 931, 947, 1040
TspDTI ATGAA 3 cut(s) 673, 758, 1016
TspGWI ACGGA 3 cut(s) 207, 278, 966
TspRI CASTG 1 cut(s) 565
VpaK11BI GGWCC 4 cut(s) 223, 428, 626, 650
XagI CCTNNNNNAGG 1 cut(s) 1062
XapI RAATTY 1 cut(s) 746
XceI RCATGY 1 cut(s) 357
XspI CTAG 2 cut(s) 201, 446
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.