RchiOBHm_Chr2g0116891

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0001539
Physical Location & Seq
Reverse (-)
29156434 .. 29157609
1176 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ48990

Sequence Viewer

Length: 996 bp
ATGATTCAGCTTACAAGGTGTTTTGCCACGGTTGTATTCCTTATTCTTACAATAATACACCAATCGTCTGCTGCTGACGAGACTACAATAACTTCTTACAATGTCCTGAGCTTTGGAGCTAAGCGTAATGGTGTAAAGGATTCCACCCAAGCTTTTCTTGATGCTTGGGCTGCTGCCTGTGGAGCCTCCGCGGATTCATCTGAGATATATATACCGAAGGGGAGGTATTTGCTTGGCGCTATTGCCTTTAAAGGTGACTGCAAAAGCTCACATGTCACTTTTCGGATTGATGGAACACTAGTGGCTTCGCCTGATTACCGAGTACTAGGCCAAGCTAACAACTGGTTCAGTTTTGAAGGAGTTACTGGGCTAAACATTGTCGGAGGAGCACTTGATGCTAAGGGCTCCGCCTTGTGGGCTTGCAAATTAAGTACGGAAACCACCAGCTGTCCTAATGGAGCCACGACTTTGAGTTTTACAAACTCAAAAGACATTAGAGTTGAAGGACTAATGTCATTGAACAGCCAAATGTTTCACATTGTGATAAATGGCTGCCAGGATGTACTCATTCAAGGCGTCAAAATTATTGCTGCTGGCAATAGCCCTAACACCGACGGCATTCATGTCCAATTTTCCAAAAATGTTGCAATCTTCGACACCTCCATCAAAACTGGGGACGACTGTGTCTCTATTGGCCCTGGGACCAAGGACTTGTGGATGGAACGCATATCATGCGGACCTGGCCACGGCACTAGCATAGGGAGCCTGGCCAAAGACTTGGAAGAGGAAGGAGTACAAAACGTAACAGTTAAAAATGCAATTTTTAAGGGTACAACAAATGGGCTGAGGATCAAATCTTGGGCAAGACCTAGCACCGGGTTTGTCCGAGGTGTTCGATTCCTTGATGTCGTAATGCTTAATGTCCAAAATCCCATCGTAATTGACCAGAATTACTGCCCACACAACCTCAACTGTCCTGGTCAGGTAAGAAAGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005576 GO:0005618 GO:0005623 GO:0030312 GO:0044464 GO:0071944
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

331

Amino Acids

35.44

Weight (kDa)

8.01

Isoelectric Point (pI)

23.34

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 33 - 78 4.5e-06 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 65 - 322 1.9e-70 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) 683
AccII CGCG 1 cut(s) 191
AciI CCGC 4 cut(s) 189, 191, 408, 735
AclWI GGATC 1 cut(s) 857
AcoI YGGCCR 2 cut(s) 742, 768
AcyI GRCGYC 1 cut(s) 576
AdeI CACNNNGTG 1 cut(s) 541
AfaI GTAC 5 cut(s) 324, 433, 564, 795, 832
AfiI CCNNNNNNNGG 3 cut(s) 414, 746, 875
AflIII ACRYGT 1 cut(s) 271
AgsI TTSAA 4 cut(s) 356, 503, 520, 572
AhlI ACTAGT 1 cut(s) 298
AjnI CCWGG 5 cut(s) 555, 697, 739, 765, 976
AluBI AGCT 7 cut(s) 10, 111, 119, 152, 267, 335, 447
AluI AGCT 7 cut(s) 10, 111, 119, 152, 267, 335, 447
Alw21I GWGCWC 1 cut(s) 391
Alw26I GTCTC 2 cut(s) 74, 691
AlwI GGATC 1 cut(s) 857
AoxI GGCC 4 cut(s) 328, 694, 742, 768
ApeKI GCWGC 5 cut(s) 71, 170, 173, 552, 590
AspLEI GCGC 1 cut(s) 239
AspS9I GGNCC 3 cut(s) 695, 702, 737
AsuC2I CCSGG 1 cut(s) 877
AsuHPI GGTGA 1 cut(s) 266
AvaII GGWCC 2 cut(s) 702, 737
BalI TGGCCA 2 cut(s) 744, 770
BanII GRGCYC 1 cut(s) 407
Bbv12I GWGCWC 1 cut(s) 391
BbvCI CCTCAGC 1 cut(s) 845
BbvI GCAGC 5 cut(s) 58, 157, 160, 539, 577
BccI CCATC 4 cut(s) 284, 671, 712, 941
BceAI ACGGC 2 cut(s) 631, 763
BciT130I CCWGG 5 cut(s) 557, 699, 741, 767, 978
BcnI CCSGG 1 cut(s) 877
BcoDI GTCTC 2 cut(s) 74, 691
BcuI ACTAGT 1 cut(s) 298
BfaI CTAG 4 cut(s) 299, 326, 753, 870
BfoI RGCGCY 1 cut(s) 240
BglI GCCNNNNNGGC 1 cut(s) 416
BisI GCNGC 5 cut(s) 72, 171, 174, 553, 591
BlpI GCTNAGC 1 cut(s) 120
BlsI GCNGC 5 cut(s) 73, 172, 175, 554, 592
BmcAI AGTACT 1 cut(s) 324
Bme1390I CCNGG 6 cut(s) 557, 699, 741, 767, 877, 978
Bme18I GGWCC 2 cut(s) 702, 737
BmgT120I GGNCC 3 cut(s) 695, 702, 737
BmiI GGNNCC 5 cut(s) 184, 406, 460, 703, 764
BmrFI CCNGG 6 cut(s) 557, 699, 741, 767, 877, 978
BmrI ACTGGG 2 cut(s) 375, 681
BmsI GCATC 2 cut(s) 151, 385
BmuI ACTGGG 2 cut(s) 375, 681
BoxI GACNNNNGTC 1 cut(s) 511
Bpu10I CCTNAGC 3 cut(s) 107, 399, 845
Bpu1102I GCTNAGC 1 cut(s) 120
BpuMI CCSGG 1 cut(s) 877
BsaHI GRCGYC 1 cut(s) 576
BsaJI CCNNGG 7 cut(s) 27, 189, 697, 698, 705, 745, 886
Bsc4I CCNNNNNNNGG 3 cut(s) 414, 746, 875
Bse1I ACTGG 3 cut(s) 347, 370, 676
BseBI CCWGG 5 cut(s) 557, 699, 741, 767, 978
BseDI CCNNGG 7 cut(s) 27, 189, 697, 698, 705, 745, 886
BseGI GGATG 2 cut(s) 565, 723
BseLI CCNNNNNNNGG 3 cut(s) 414, 746, 875
BseMII CTCAG 3 cut(s) 98, 192, 836
BseNI ACTGG 3 cut(s) 347, 370, 676
BseRI GAGGAG 1 cut(s) 399
BseXI GCAGC 5 cut(s) 58, 157, 160, 539, 577
Bsh1236I CGCG 1 cut(s) 191
BshFI GGCC 4 cut(s) 330, 696, 744, 770
BsiHKAI GWGCWC 1 cut(s) 391
BsiSI CCGG 1 cut(s) 876
BslFI GGGAC 2 cut(s) 689, 715
BslI CCNNNNNNNGG 3 cut(s) 414, 746, 875
BsmAI GTCTC 2 cut(s) 74, 691
BsmFI GGGAC 2 cut(s) 689, 715
BsmI GAATGC 1 cut(s) 618
BsnI GGCC 4 cut(s) 330, 696, 744, 770
Bsp1286I GDGCHC 2 cut(s) 391, 407
Bsp143I GATC 1 cut(s) 849
Bsp1720I GCTNAGC 1 cut(s) 120
BspACI CCGC 4 cut(s) 189, 191, 408, 735
BspANI GGCC 4 cut(s) 330, 696, 744, 770
BspCNI CTCAG 3 cut(s) 99, 193, 837
BspFNI CGCG 1 cut(s) 191
BspLI GGNNCC 5 cut(s) 184, 406, 460, 703, 764
BspPI GGATC 1 cut(s) 857
BsrI ACTGG 3 cut(s) 347, 370, 676
BssECI CCNNGG 7 cut(s) 27, 189, 697, 698, 705, 745, 886
BssMI GATC 1 cut(s) 849
BssNI GRCGYC 1 cut(s) 576
BssT1I CCWWGG 1 cut(s) 705
Bst2UI CCWGG 5 cut(s) 557, 699, 741, 767, 978
Bst4CI ACNGT 4 cut(s) 31, 683, 808, 974
Bst6I CTCTTC 1 cut(s) 777
BstACI GRCGYC 1 cut(s) 576
BstAPI GCANNNNNTGC 2 cut(s) 395, 732
BstC8I GCNNGC 2 cut(s) 421, 595
BstDEI CTNAG 5 cut(s) 107, 120, 201, 399, 845
BstDSI CCRYGG 3 cut(s) 27, 189, 745
BstF5I GGATG 2 cut(s) 565, 723
BstFNI CGCG 1 cut(s) 191
BstH2I RGCGCY 1 cut(s) 240
BstHHI GCGC 1 cut(s) 239
BstKTI GATC 1 cut(s) 852
BstMAI GTCTC 2 cut(s) 74, 691
BstMBI GATC 1 cut(s) 849
BstMWI GCNNNNNNNGC 7 cut(s) 170, 182, 395, 416, 732, 741, 762
BstNI CCWGG 5 cut(s) 557, 699, 741, 767, 978
BstNSI RCATGY 1 cut(s) 275
BstPAI GACNNNNGTC 1 cut(s) 511
BstSCI CCNGG 6 cut(s) 555, 697, 739, 765, 875, 976
BstUI CGCG 1 cut(s) 191
BstV1I GCAGC 5 cut(s) 58, 157, 160, 539, 577
BstXI CCANNNNNNTGG 1 cut(s) 778
BsuRI GGCC 4 cut(s) 330, 696, 744, 770
BtgI CCRYGG 3 cut(s) 27, 189, 745
BtsCI GGATG 2 cut(s) 565, 723
Cac8I GCNNGC 2 cut(s) 421, 595
CfoI GCGC 1 cut(s) 239
Cfr13I GGNCC 3 cut(s) 695, 702, 737
Cfr42I CCGCGG 1 cut(s) 192
CseI GACGC 1 cut(s) 565
Csp6I GTAC 5 cut(s) 323, 432, 563, 794, 831
CviAII CATG 3 cut(s) 272, 623, 732
CviQI GTAC 5 cut(s) 323, 432, 563, 794, 831
DdeI CTNAG 5 cut(s) 107, 120, 201, 399, 845
DpnI GATC 1 cut(s) 851
DpnII GATC 1 cut(s) 849
DraI TTTAAA 1 cut(s) 250
DraIII CACNNNGTG 1 cut(s) 541
DrdI GACNNNNNNGTC 1 cut(s) 683
DseDI GACNNNNNNGTC 1 cut(s) 683
EaeI YGGCCR 2 cut(s) 742, 768
Eam1104I CTCTTC 1 cut(s) 777
EarI CTCTTC 1 cut(s) 777
EciI GGCGGA 1 cut(s) 397
Eco130I CCWWGG 1 cut(s) 705
Eco24I GRGCYC 1 cut(s) 407
Eco47I GGWCC 2 cut(s) 702, 737
EcoRII CCWGG 5 cut(s) 555, 697, 739, 765, 976
EcoT14I CCWWGG 1 cut(s) 705
EcoT38I GRGCYC 1 cut(s) 407
ErhI CCWWGG 1 cut(s) 705
FaeI CATG 3 cut(s) 275, 626, 735
FaiI YATR 8 cut(s) 208, 210, 212, 273, 624, 728, 733, 758
FalI AAGNNNNNCTT 2 cut(s) 141, 173
FaqI GGGAC 2 cut(s) 689, 715
FatI CATG 3 cut(s) 271, 622, 731
Fnu4HI GCNGC 5 cut(s) 72, 171, 174, 553, 591
FokI GGATG 2 cut(s) 572, 730
FriOI GRGCYC 1 cut(s) 407
Fsp4HI GCNGC 5 cut(s) 72, 171, 174, 553, 591
FspBI CTAG 4 cut(s) 299, 326, 753, 870
GlaI GCGC 1 cut(s) 238
GluI GCNGC 5 cut(s) 72, 171, 174, 553, 591
HaeII RGCGCY 1 cut(s) 240
HaeIII GGCC 4 cut(s) 330, 696, 744, 770
HapII CCGG 1 cut(s) 876
HgaI GACGC 1 cut(s) 565
HhaI GCGC 1 cut(s) 239
Hin1I GRCGYC 1 cut(s) 576
Hin1II CATG 3 cut(s) 275, 626, 735
Hin6I GCGC 1 cut(s) 237
HinP1I GCGC 1 cut(s) 237
HindIII AAGCTT 1 cut(s) 150
HinfI GANTC 4 cut(s) 4, 140, 194, 897
HpaII CCGG 1 cut(s) 876
HphI GGTGA 1 cut(s) 266
Hpy188I TCNGA 4 cut(s) 202, 285, 383, 887
Hpy188III TCNNGA 2 cut(s) 106, 158
Hpy99I CGWCG 1 cut(s) 617
HpyAV CCTTC 4 cut(s) 211, 350, 497, 782
HpyCH4III ACNGT 4 cut(s) 31, 683, 808, 974
HpyCH4IV ACGT 1 cut(s) 801
HpyCH4V TGCA 4 cut(s) 261, 423, 647, 818
HpyF10VI GCNNNNNNNGC 7 cut(s) 170, 182, 395, 416, 732, 741, 762
HpyF3I CTNAG 5 cut(s) 107, 120, 201, 399, 845
HpySE526I ACGT 1 cut(s) 801
Hsp92I GRCGYC 1 cut(s) 576
Hsp92II CATG 3 cut(s) 275, 626, 735
HspAI GCGC 1 cut(s) 237
KspI CCGCGG 1 cut(s) 192
Kzo9I GATC 1 cut(s) 849
LmnI GCTCC 6 cut(s) 116, 182, 386, 410, 458, 762
Lsp1109I GCAGC 5 cut(s) 58, 157, 160, 539, 577
LweI GCATC 2 cut(s) 151, 385
MaeI CTAG 4 cut(s) 299, 326, 753, 870
MaeII ACGT 1 cut(s) 801
MaeIII GTNAC 4 cut(s) 254, 274, 361, 802
MalI GATC 1 cut(s) 851
MboI GATC 1 cut(s) 849
MboII GAAGA 2 cut(s) 643, 794
MhlI GDGCHC 2 cut(s) 391, 407
MlsI TGGCCA 2 cut(s) 744, 770
MluCI AATT 6 cut(s) 425, 582, 629, 819, 939, 949
MluNI TGGCCA 2 cut(s) 744, 770
MmeI TCCRAC 1 cut(s) 361
MnlI CCTC 8 cut(s) 196, 216, 377, 670, 778, 840, 881, 977
Mox20I TGGCCA 2 cut(s) 744, 770
MscI TGGCCA 2 cut(s) 744, 770
MseI TTAA 5 cut(s) 249, 428, 810, 825, 918
Msp20I TGGCCA 2 cut(s) 744, 770
MspA1I CMGCKG 2 cut(s) 191, 447
MspI CCGG 1 cut(s) 876
MspR9I CCNGG 6 cut(s) 557, 699, 741, 767, 877, 978
Mva1269I GAATGC 1 cut(s) 618
MvaI CCWGG 5 cut(s) 557, 699, 741, 767, 978
MvnI CGCG 1 cut(s) 191
MwoI GCNNNNNNNGC 7 cut(s) 170, 182, 395, 416, 732, 741, 762
NciI CCSGG 1 cut(s) 877
NdeII GATC 1 cut(s) 849
NlaIII CATG 3 cut(s) 275, 626, 735
NlaIV GGNNCC 5 cut(s) 184, 406, 460, 703, 764
NmuCI GTSAC 2 cut(s) 254, 274
NspI RCATGY 1 cut(s) 275
PasI CCCWGGG 1 cut(s) 698
PciI ACATGT 1 cut(s) 271
PctI GAATGC 1 cut(s) 618
PfeI GAWTC 4 cut(s) 4, 140, 194, 897
PflFI GACNNNGTC 1 cut(s) 683
PkrI GCNGC 5 cut(s) 73, 172, 175, 554, 592
PscI ACATGT 1 cut(s) 271
PshAI GACNNNNGTC 1 cut(s) 511
Psp6I CCWGG 5 cut(s) 555, 697, 739, 765, 976
PspGI CCWGG 5 cut(s) 555, 697, 739, 765, 976
PspN4I GGNNCC 5 cut(s) 184, 406, 460, 703, 764
PspPI GGNCC 3 cut(s) 695, 702, 737
PsyI GACNNNGTC 1 cut(s) 683
PvuII CAGCTG 1 cut(s) 447
RsaI GTAC 5 cut(s) 324, 433, 564, 795, 832
RsaNI GTAC 5 cut(s) 323, 432, 563, 794, 831
SacII CCGCGG 1 cut(s) 192
SaqAI TTAA 5 cut(s) 249, 428, 810, 825, 918
SatI GCNGC 5 cut(s) 72, 171, 174, 553, 591
Sau3AI GATC 1 cut(s) 849
Sau96I GGNCC 3 cut(s) 695, 702, 737
ScaI AGTACT 1 cut(s) 324
ScrFI CCNGG 6 cut(s) 557, 699, 741, 767, 877, 978
SduI GDGCHC 2 cut(s) 391, 407
SfaNI GCATC 2 cut(s) 151, 385
Sfr303I CCGCGG 1 cut(s) 192
SgrBI CCGCGG 1 cut(s) 192
SinI GGWCC 2 cut(s) 702, 737
SpeI ACTAGT 1 cut(s) 298
Sse9I AATT 6 cut(s) 425, 582, 629, 819, 939, 949
SsiI CCGC 4 cut(s) 189, 191, 408, 735
SspMI CTAG 4 cut(s) 299, 326, 753, 870
StyD4I CCNGG 6 cut(s) 555, 697, 739, 765, 875, 976
StyI CCWWGG 1 cut(s) 705
TaaI ACNGT 4 cut(s) 31, 683, 808, 974
TaiI ACGT 1 cut(s) 804
TaqI TCGA 2 cut(s) 654, 895
TasI AATT 6 cut(s) 425, 582, 629, 819, 939, 949
TatI WGTACW 3 cut(s) 322, 562, 793
TfiI GAWTC 4 cut(s) 4, 140, 194, 897
Tru1I TTAA 5 cut(s) 249, 428, 810, 825, 918
Tru9I TTAA 5 cut(s) 249, 428, 810, 825, 918
TseFI GTSAC 2 cut(s) 254, 274
TseI GCWGC 5 cut(s) 71, 170, 173, 552, 590
Tsp45I GTSAC 2 cut(s) 254, 274
TspDTI ATGAA 2 cut(s) 186, 611
TspGWI ACGGA 1 cut(s) 449
Tth111I GACNNNGTC 1 cut(s) 683
VpaK11BI GGWCC 2 cut(s) 702, 737
XceI RCATGY 1 cut(s) 275
XspI CTAG 4 cut(s) 299, 326, 753, 870
ZrmI AGTACT 1 cut(s) 324
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.