Rh2BG485700

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2B
OG0009066
Physical Location & Seq
Forward (+)
68579894 .. 68598360
18467 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2BG485700.1

Sequence Viewer

Length: 1032 bp
ATGATATCCTTGTTCGGGTTATCGAATGCAGCCGCAACTTATAATGTGATGAAATATGGTGCAAAAGCAGATGGGAAAACAGACTCAACCCAAGCATTTGTCAAGACATGGGCAGCAGCATGCAGCTCTGCTCAGACAGCCACCATGTACGTCCCCAAAGGAAGTTTCTTGCTGAAAGCTGCAGTGTTCAGAGGCCCTTGCAAGAGTAGAATTATCGTTCAGATATACGGAACCCTGATTGCCCCTACTGATTATTGGGCTTTGGGAAACTCCGGTCACTGGATCTTGTTCATTAAGGTCAATAGACTTGAAGTTTTCGGTGGTAGACTCGACGCCAAGGGAGCTGGCTTTTGGGCTTGCAGGAAATCCGGAAAGAGCTGCCCTGTTGGAGCTAGGTCGATAACGTTCAATTGGGCAAATGACGTTGTGATAAGTGGTTTATCATCCGTCAACAGTCAGTTAACTCATCTTGTGATCAACAGCTGCAACAATGTGGCTGTCCGAAACGTTACGCTGTATGCTCCGGATGACAGCCCCAACACTGACGGCATTCATGTGCAGGGCTCAACTGGGGTTACTATCACTGGTGCAACCTTGATGACCGGAGACGATTGTGTATCAATTGGTCCTGGAACCAAAAACCTGTACATGAGTAACATCAGGTGCGGCCCAGGACATGGCGTAAGCATTGGTAGTCTAGGCAGGGCAGTGAACGAAGCTGGGGTCCAAAATGTGACGTTGACGAATGCAGTTTTCACCGGATCGGACAATGGAGTACGAATAAAGTCATGGGCGAGGCCCAGCACTGGGTTTGTGACCAACATTCTCTTCCAGAACATCATGATGAGGAACGTTGAGAACCCCATCATCATCAATCAGAACTATTGCCCACATAACCAAGGTTGCCCTAACCAGCTATTTTGTTGCGCCGAAGGAGAACAACGAGTGGTGGTGCTTCTGGAGGTGCAGTCGGGACTATGCCTCTGGAGGTCTTGGAAGAGGAAGCAGATAGGGAAGAATATGTTCGGGTAG
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

343

Amino Acids

36.83

Weight (kDa)

9.37

Isoelectric Point (pI)

27.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 15 - 77 1.3e-08 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 41 - 300 5.5e-74 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)
AanI TTATAA 1 cut(s) 42
AccB7I CCANNNNNTGG 1 cut(s) 677
AccI GTMKAC 1 cut(s) 325
AccIII TCCGGA 2 cut(s) 368, 523
AciI CCGC 2 cut(s) 33, 666
AclI AACGTT 3 cut(s) 404, 507, 852
AclWI GGATC 2 cut(s) 290, 769
AcyI GRCGYC 1 cut(s) 333
AfaI GTAC 3 cut(s) 149, 647, 777
AfiI CCNNNNNNNGG 5 cut(s) 15, 279, 677, 806, 807
AgsI TTSAA 2 cut(s) 311, 409
AjnI CCWGG 2 cut(s) 628, 670
AjuI GAANNNNNNNTTGG 4 cut(s) 149, 181, 812, 844
AluBI AGCT 8 cut(s) 126, 179, 344, 378, 392, 483, 719, 916
AluI AGCT 8 cut(s) 126, 179, 344, 378, 392, 483, 719, 916
Alw26I GTCTC 1 cut(s) 600
AlwI GGATC 2 cut(s) 290, 769
Aor13HI TCCGGA 2 cut(s) 368, 523
AoxI GGCC 3 cut(s) 193, 667, 797
ApeKI GCWGC 7 cut(s) 29, 113, 116, 123, 179, 378, 483
ArsI GACNNNNNNTTYG 2 cut(s) 708, 740
Asp700I GAANNNNTTC 1 cut(s) 1022
AspLEI GCGC 1 cut(s) 929
AspS9I GGNCC 5 cut(s) 194, 626, 668, 724, 798
AsuHPI GGTGA 1 cut(s) 748
AvaII GGWCC 2 cut(s) 626, 724
BanII GRGCYC 1 cut(s) 566
BbvI GCAGC 7 cut(s) 41, 125, 128, 135, 166, 365, 470
BccI CCATC 2 cut(s) 65, 872
BceAI ACGGC 1 cut(s) 562
BciT130I CCWGG 2 cut(s) 630, 672
BclI TGATCA 1 cut(s) 474
BcoDI GTCTC 1 cut(s) 600
BfaI CTAG 2 cut(s) 393, 698
BfmI CTRYAG 1 cut(s) 180
BisI GCNGC 9 cut(s) 30, 33, 114, 117, 124, 180, 379, 484, 667
BlsI GCNGC 9 cut(s) 31, 34, 115, 118, 125, 181, 380, 485, 668
Bme1390I CCNGG 2 cut(s) 630, 672
Bme18I GGWCC 2 cut(s) 626, 724
BmgT120I GGNCC 5 cut(s) 194, 626, 668, 724, 798
BmiI GGNNCC 3 cut(s) 232, 634, 725
BmrFI CCNGG 2 cut(s) 630, 672
BmrI ACTGGG 2 cut(s) 579, 816
BmuI ACTGGG 2 cut(s) 579, 816
BpmI CTGGAG 2 cut(s) 980, 1006
BsaHI GRCGYC 1 cut(s) 333
BsaJI CCNNGG 3 cut(s) 336, 670, 898
BsaWI WCCGGW 5 cut(s) 272, 368, 523, 602, 758
BsaXI ACNNNNNCTCC 2 cut(s) 953, 983
Bsc4I CCNNNNNNNGG 5 cut(s) 15, 279, 677, 806, 807
Bse1I ACTGG 4 cut(s) 284, 574, 589, 811
BseAI TCCGGA 2 cut(s) 368, 523
BseBI CCWGG 2 cut(s) 630, 672
BseDI CCNNGG 3 cut(s) 336, 670, 898
BseGI GGATG 2 cut(s) 443, 532
BseLI CCNNNNNNNGG 5 cut(s) 15, 279, 677, 806, 807
BseMII CTCAG 1 cut(s) 146
BseNI ACTGG 4 cut(s) 284, 574, 589, 811
BseXI GCAGC 7 cut(s) 41, 125, 128, 135, 166, 365, 470
BseYI CCCAGC 2 cut(s) 719, 800
BsgI GTGCAG 2 cut(s) 578, 986
BshFI GGCC 3 cut(s) 195, 669, 799
BsiSI CCGG 5 cut(s) 273, 369, 524, 603, 759
BslFI GGGAC 2 cut(s) 137, 987
BslI CCNNNNNNNGG 5 cut(s) 15, 279, 677, 806, 807
BsmAI GTCTC 1 cut(s) 600
BsmBI CGTCTC 1 cut(s) 600
BsmFI GGGAC 2 cut(s) 137, 987
BsmI GAATGC 3 cut(s) 31, 549, 751
BsnI GGCC 3 cut(s) 195, 669, 799
Bsp1286I GDGCHC 1 cut(s) 566
Bsp13I TCCGGA 2 cut(s) 368, 523
Bsp1407I TGTACA 1 cut(s) 645
Bsp143I GATC 3 cut(s) 282, 474, 761
BspACI CCGC 2 cut(s) 33, 666
BspANI GGCC 3 cut(s) 195, 669, 799
BspCNI CTCAG 1 cut(s) 145
BspEI TCCGGA 2 cut(s) 368, 523
BspHI TCATGA 1 cut(s) 840
BspLI GGNNCC 3 cut(s) 232, 634, 725
BspMAI CTGCAG 1 cut(s) 184
BspPI GGATC 2 cut(s) 290, 769
BsrGI TGTACA 1 cut(s) 645
BsrI ACTGG 4 cut(s) 284, 574, 589, 811
BssECI CCNNGG 3 cut(s) 336, 670, 898
BssMI GATC 3 cut(s) 282, 474, 761
BssNI GRCGYC 1 cut(s) 333
BssT1I CCWWGG 2 cut(s) 336, 898
Bst2UI CCWGG 2 cut(s) 630, 672
Bst4CI ACNGT 1 cut(s) 455
Bst6I CTCTTC 2 cut(s) 833, 992
BstACI GRCGYC 1 cut(s) 333
BstAUI TGTACA 1 cut(s) 645
BstC8I GCNNGC 3 cut(s) 121, 346, 358
BstDEI CTNAG 1 cut(s) 132
BstF5I GGATG 2 cut(s) 443, 532
BstHHI GCGC 1 cut(s) 929
BstKTI GATC 3 cut(s) 285, 477, 764
BstMAI GTCTC 1 cut(s) 600
BstMBI GATC 3 cut(s) 282, 474, 761
BstMWI GCNNNNNNNGC 2 cut(s) 137, 341
BstNI CCWGG 2 cut(s) 630, 672
BstNSI RCATGY 1 cut(s) 123
BstSCI CCNGG 2 cut(s) 628, 670
BstSFI CTRYAG 1 cut(s) 180
BstV1I GCAGC 7 cut(s) 41, 125, 128, 135, 166, 365, 470
BstX2I RGATCY 1 cut(s) 282
BstYI RGATCY 1 cut(s) 282
BsuRI GGCC 3 cut(s) 195, 669, 799
BtsCI GGATG 2 cut(s) 443, 532
BtsI GCAGTG 2 cut(s) 189, 714
BtsIMutI CAGTG 6 cut(s) 189, 277, 540, 582, 714, 804
Cac8I GCNNGC 3 cut(s) 121, 346, 358
CciI TCATGA 1 cut(s) 840
CfoI GCGC 1 cut(s) 929
Cfr13I GGNCC 5 cut(s) 194, 626, 668, 724, 798
CseI GACGC 1 cut(s) 341
Csp6I GTAC 3 cut(s) 148, 646, 776
CviAII CATG 8 cut(s) 108, 120, 145, 554, 649, 677, 789, 841
CviQI GTAC 3 cut(s) 148, 646, 776
DdeI CTNAG 1 cut(s) 132
DpnI GATC 3 cut(s) 284, 476, 763
DpnII GATC 3 cut(s) 282, 474, 761
Eam1104I CTCTTC 2 cut(s) 833, 992
EarI CTCTTC 2 cut(s) 833, 992
Eco130I CCWWGG 2 cut(s) 336, 898
Eco24I GRGCYC 1 cut(s) 566
Eco32I GATATC 1 cut(s) 6
Eco47I GGWCC 2 cut(s) 626, 724
EcoO109I RGGNCCY 1 cut(s) 194
EcoRII CCWGG 2 cut(s) 628, 670
EcoRV GATATC 1 cut(s) 6
EcoT14I CCWWGG 2 cut(s) 336, 898
EcoT38I GRGCYC 1 cut(s) 566
ErhI CCWWGG 2 cut(s) 336, 898
Esp3I CGTCTC 1 cut(s) 600
FaeI CATG 8 cut(s) 111, 123, 148, 557, 652, 680, 792, 844
FaqI GGGAC 2 cut(s) 137, 987
FatI CATG 8 cut(s) 107, 119, 144, 553, 648, 676, 788, 840
FbaI TGATCA 1 cut(s) 474
FblI GTMKAC 1 cut(s) 325
Fnu4HI GCNGC 9 cut(s) 30, 33, 114, 117, 124, 180, 379, 484, 667
FokI GGATG 2 cut(s) 430, 539
FriOI GRGCYC 1 cut(s) 566
Fsp4HI GCNGC 9 cut(s) 30, 33, 114, 117, 124, 180, 379, 484, 667
FspBI CTAG 2 cut(s) 393, 698
GlaI GCGC 1 cut(s) 928
GluI GCNGC 9 cut(s) 30, 33, 114, 117, 124, 180, 379, 484, 667
GsaI CCCAGC 2 cut(s) 723, 804
GsuI CTGGAG 2 cut(s) 980, 1006
HaeIII GGCC 3 cut(s) 195, 669, 799
HapII CCGG 5 cut(s) 273, 369, 524, 603, 759
HgaI GACGC 1 cut(s) 341
HhaI GCGC 1 cut(s) 929
Hin1I GRCGYC 1 cut(s) 333
Hin1II CATG 8 cut(s) 111, 123, 148, 557, 652, 680, 792, 844
Hin6I GCGC 1 cut(s) 927
HinP1I GCGC 1 cut(s) 927
HincII GTYRAC 3 cut(s) 451, 462, 741
HindII GTYRAC 3 cut(s) 451, 462, 741
HinfI GANTC 2 cut(s) 83, 327
HpaI GTTAAC 1 cut(s) 462
HpaII CCGG 5 cut(s) 273, 369, 524, 603, 759
HphI GGTGA 1 cut(s) 748
Hpy166II GTNNAC 5 cut(s) 326, 451, 462, 712, 741
Hpy188I TCNGA 6 cut(s) 135, 191, 222, 503, 766, 879
Hpy188III TCNNGA 8 cut(s) 103, 369, 524, 832, 841, 959, 972, 985
Hpy8I GTNNAC 5 cut(s) 326, 451, 462, 712, 741
Hpy99I CGWCG 1 cut(s) 335
HpyAV CCTTC 1 cut(s) 926
HpyCH4III ACNGT 1 cut(s) 455
HpyCH4IV ACGT 6 cut(s) 150, 404, 423, 507, 737, 852
HpyF10VI GCNNNNNNNGC 2 cut(s) 137, 341
HpyF3I CTNAG 1 cut(s) 132
HpySE526I ACGT 6 cut(s) 150, 404, 423, 507, 737, 852
Hsp92I GRCGYC 1 cut(s) 333
Hsp92II CATG 8 cut(s) 111, 123, 148, 557, 652, 680, 792, 844
HspAI GCGC 1 cut(s) 927
Kpn2I TCCGGA 2 cut(s) 368, 523
Ksp22I TGATCA 1 cut(s) 474
KspAI GTTAAC 1 cut(s) 462
Kzo9I GATC 3 cut(s) 282, 474, 761
LmnI GCTCC 3 cut(s) 341, 389, 526
Lsp1109I GCAGC 7 cut(s) 41, 125, 128, 135, 166, 365, 470
MaeI CTAG 2 cut(s) 393, 698
MaeII ACGT 6 cut(s) 150, 404, 423, 507, 737, 852
MaeIII GTNAC 6 cut(s) 275, 508, 574, 653, 733, 814
MalI GATC 3 cut(s) 284, 476, 763
MboI GATC 3 cut(s) 282, 474, 761
MboII GAAGA 3 cut(s) 820, 1009, 1027
MfeI CAATTG 2 cut(s) 409, 621
MflI RGATCY 1 cut(s) 282
MhlI GDGCHC 1 cut(s) 566
MluCI AATT 3 cut(s) 210, 409, 621
MlyI GAGTC 2 cut(s) 77, 321
MmeI TCCRAC 1 cut(s) 367
MnlI CCTC 7 cut(s) 185, 789, 840, 955, 981, 992, 993
MroI TCCGGA 2 cut(s) 368, 523
MroXI GAANNNNTTC 1 cut(s) 1022
MseI TTAA 2 cut(s) 294, 461
MslI CAYNNNNRTG 2 cut(s) 554, 842
MspA1I CMGCKG 1 cut(s) 483
MspI CCGG 5 cut(s) 273, 369, 524, 603, 759
MspR9I CCNGG 2 cut(s) 630, 672
MunI CAATTG 2 cut(s) 409, 621
Mva1269I GAATGC 3 cut(s) 31, 549, 751
MvaI CCWGG 2 cut(s) 630, 672
MwoI GCNNNNNNNGC 2 cut(s) 137, 341
NdeII GATC 3 cut(s) 282, 474, 761
NlaIII CATG 8 cut(s) 111, 123, 148, 557, 652, 680, 792, 844
NlaIV GGNNCC 3 cut(s) 232, 634, 725
NmuCI GTSAC 3 cut(s) 275, 733, 814
NspI RCATGY 1 cut(s) 123
PaeI GCATGC 1 cut(s) 123
PagI TCATGA 1 cut(s) 840
PctI GAATGC 3 cut(s) 31, 549, 751
PdmI GAANNNNTTC 1 cut(s) 1022
PflMI CCANNNNNTGG 1 cut(s) 677
PfoI TCCNGGA 1 cut(s) 628
PkrI GCNGC 9 cut(s) 31, 34, 115, 118, 125, 181, 380, 485, 668
PleI GAGTC 2 cut(s) 77, 321
PpsI GAGTC 2 cut(s) 77, 321
PsiI TTATAA 1 cut(s) 42
Psp1406I AACGTT 3 cut(s) 404, 507, 852
Psp6I CCWGG 2 cut(s) 628, 670
PspFI CCCAGC 2 cut(s) 719, 800
PspGI CCWGG 2 cut(s) 628, 670
PspN4I GGNNCC 3 cut(s) 232, 634, 725
PspPI GGNCC 5 cut(s) 194, 626, 668, 724, 798
PstI CTGCAG 1 cut(s) 184
PsuI RGATCY 1 cut(s) 282
PvuII CAGCTG 1 cut(s) 483
RsaI GTAC 3 cut(s) 149, 647, 777
RsaNI GTAC 3 cut(s) 148, 646, 776
RseI CAYNNNNRTG 2 cut(s) 554, 842
SaqAI TTAA 2 cut(s) 294, 461
SatI GCNGC 9 cut(s) 30, 33, 114, 117, 124, 180, 379, 484, 667
Sau3AI GATC 3 cut(s) 282, 474, 761
Sau96I GGNCC 5 cut(s) 194, 626, 668, 724, 798
SchI GAGTC 2 cut(s) 77, 321
ScrFI CCNGG 2 cut(s) 630, 672
SduI GDGCHC 1 cut(s) 566
SfcI CTRYAG 1 cut(s) 180
SinI GGWCC 2 cut(s) 626, 724
SmiMI CAYNNNNRTG 2 cut(s) 554, 842
SphI GCATGC 1 cut(s) 123
Sse9I AATT 3 cut(s) 210, 409, 621
SsiI CCGC 2 cut(s) 33, 666
SspMI CTAG 2 cut(s) 393, 698
StyD4I CCNGG 2 cut(s) 628, 670
StyI CCWWGG 2 cut(s) 336, 898
TaaI ACNGT 1 cut(s) 455
TaiI ACGT 6 cut(s) 153, 407, 426, 510, 740, 855
TaqI TCGA 3 cut(s) 23, 330, 398
TasI AATT 3 cut(s) 210, 409, 621
TatI WGTACW 1 cut(s) 645
TauI GCSGC 2 cut(s) 35, 669
Tru1I TTAA 2 cut(s) 294, 461
Tru9I TTAA 2 cut(s) 294, 461
TscAI CASTG 6 cut(s) 189, 284, 547, 589, 714, 811
TseFI GTSAC 3 cut(s) 275, 733, 814
TseI GCWGC 7 cut(s) 29, 113, 116, 123, 179, 378, 483
Tsp45I GTSAC 3 cut(s) 275, 733, 814
TspDTI ATGAA 3 cut(s) 65, 280, 542
TspGWI ACGGA 2 cut(s) 243, 436
TspRI CASTG 6 cut(s) 189, 284, 547, 589, 714, 811
Van91I CCANNNNNTGG 1 cut(s) 677
VpaK11BI GGWCC 2 cut(s) 626, 724
XceI RCATGY 1 cut(s) 123
XmiI GTMKAC 1 cut(s) 325
XmnI GAANNNNTTC 1 cut(s) 1022
XspI CTAG 2 cut(s) 393, 698
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.