Rmu_sc0004701.1_g000004

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0004701.1
N/A
Physical Location & Seq
Reverse (-)
14797 .. 16736
1940 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 684 bp
atgggacctttattgcttttctgtgttcttcttgttctctctttgagttcttcatgttatagtagcagcttccaagagaactcattacttcatagttatattggtgatgctcatcgtgaagcaactggtttttatggttccggggcagctcatccttcgtacatgagcatccttgagaatctcaagttctctgaccggatcaatctccgaactcggctcttcagcacatcatcttccgttaaaaaggttagcgtcgatgattttggcgccaaagggaatggtgctgctgatgacacacaggcattccaaaaggcatggaagacagcttgtagttccagtggggcagtagttcttctggtgccaaagaagaactatcttgttaagccaatcacattttcagggccatgcaaatctcagcttacaatgcagatatatggaaccatagaagcatctggtgacaggtcagtctacagcaaagatctcaatcactggatcatgtttgacaacgttcgaaatctgttagttcagggtcctggaaccatcaatggcaacggtcaaatctgttcctacgccacctctggccatggaaccggtcgcacatggactgcctcgtcccatctagtcgctgctcgagttccaccatcatccataaccagggccggtcctgaagttgtggaggcctag
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

227

Amino Acids

24.32

Weight (kDa)

8.97

Isoelectric Point (pI)

26.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 83 - 129 1.1e-06 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 110 - 193 9.3e-14 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes

No orthologs found for this gene in the current database.

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 2 cut(s) 464, 610
AccB1I GGYRCC 2 cut(s) 266, 358
AccI GTMKAC 1 cut(s) 468
AclI AACGTT 1 cut(s) 507
AclWI GGATC 2 cut(s) 206, 500
AcoI YGGCCR 1 cut(s) 580
AcuI CTGAAG 1 cut(s) 205
AcyI GRCGYC 1 cut(s) 267
AfaI GTAC 1 cut(s) 161
AfiI CCNNNNNNNGG 1 cut(s) 654
AgeI ACCGGT 1 cut(s) 590
AjnI CCWGG 2 cut(s) 532, 653
AjuI GAANNNNNNNTTGG 2 cut(s) 379, 411
AluBI AGCT 4 cut(s) 69, 149, 326, 418
AluI AGCT 4 cut(s) 69, 149, 326, 418
AlwI GGATC 2 cut(s) 206, 500
Ama87I CYCGRG 1 cut(s) 630
AoxI GGCC 4 cut(s) 401, 580, 657, 678
ApeKI GCWGC 4 cut(s) 66, 146, 284, 626
AsiGI ACCGGT 1 cut(s) 590
AspLEI GCGC 1 cut(s) 269
AspS9I GGNCC 5 cut(s) 5, 401, 530, 657, 662
AsuC2I CCSGG 1 cut(s) 142
AsuHPI GGTGA 2 cut(s) 116, 467
AsuII TTCGAA 1 cut(s) 511
AvaI CYCGRG 1 cut(s) 630
AvaII GGWCC 3 cut(s) 5, 530, 662
BalI TGGCCA 1 cut(s) 582
BanI GGYRCC 2 cut(s) 266, 358
BbsI GAAGAC 1 cut(s) 326
BbvI GCAGC 4 cut(s) 78, 158, 271, 613
BccI CCATC 3 cut(s) 548, 624, 649
BciT130I CCWGG 2 cut(s) 534, 655
BcnI CCSGG 1 cut(s) 142
BfaI CTAG 2 cut(s) 620, 682
BfmI CTRYAG 1 cut(s) 469
BfoI RGCGCY 1 cut(s) 270
BglII AGATCT 1 cut(s) 478
BisI GCNGC 4 cut(s) 67, 147, 285, 627
BlsI GCNGC 4 cut(s) 68, 148, 286, 628
Bme1390I CCNGG 3 cut(s) 142, 534, 655
Bme18I GGWCC 3 cut(s) 5, 530, 662
BmeT110I CYCGRG 1 cut(s) 630
BmgT120I GGNCC 5 cut(s) 5, 401, 530, 657, 662
BmiI GGNNCC 8 cut(s) 6, 139, 268, 360, 439, 531, 538, 589
BmrFI CCNGG 3 cut(s) 142, 534, 655
BmsI GCATC 3 cut(s) 97, 177, 458
BpiI GAAGAC 1 cut(s) 326
Bpu14I TTCGAA 1 cut(s) 511
BpuEI CTTGAG 2 cut(s) 167, 194
BpuMI CCSGG 1 cut(s) 142
BsaBI GATNNNNATC 2 cut(s) 111, 483
BsaHI GRCGYC 1 cut(s) 267
BsaJI CCNNGG 3 cut(s) 141, 583, 654
BsaWI WCCGGW 2 cut(s) 195, 590
Bsc4I CCNNNNNNNGG 1 cut(s) 654
Bse118I RCCGGY 2 cut(s) 590, 659
Bse1I ACTGG 3 cut(s) 130, 336, 494
Bse8I GATNNNNATC 2 cut(s) 111, 483
BseBI CCWGG 2 cut(s) 534, 655
BseDI CCNNGG 3 cut(s) 141, 583, 654
BseGI GGATG 3 cut(s) 151, 168, 644
BseJI GATNNNNATC 2 cut(s) 111, 483
BseLI CCNNNNNNNGG 1 cut(s) 654
BseMII CTCAG 1 cut(s) 428
BseNI ACTGG 3 cut(s) 130, 336, 494
BseXI GCAGC 4 cut(s) 78, 158, 271, 613
Bsh1285I CGRYCG 1 cut(s) 595
BshFI GGCC 4 cut(s) 403, 582, 659, 680
BshNI GGYRCC 2 cut(s) 266, 358
BshTI ACCGGT 1 cut(s) 590
BsiEI CGRYCG 1 cut(s) 595
BsiHKCI CYCGRG 1 cut(s) 630
BsiSI CCGG 4 cut(s) 141, 196, 591, 660
BslFI GGGAC 2 cut(s) 18, 598
BslI CCNNNNNNNGG 1 cut(s) 654
BsmFI GGGAC 2 cut(s) 18, 598
BsmI GAATGC 1 cut(s) 302
BsnI GGCC 4 cut(s) 403, 582, 659, 680
BsoBI CYCGRG 1 cut(s) 630
Bsp119I TTCGAA 1 cut(s) 511
Bsp143I GATC 3 cut(s) 198, 478, 492
Bsp19I CCATGG 1 cut(s) 583
BspANI GGCC 4 cut(s) 403, 582, 659, 680
BspCNI CTCAG 1 cut(s) 427
BspLI GGNNCC 8 cut(s) 6, 139, 268, 360, 439, 531, 538, 589
BspPI GGATC 2 cut(s) 206, 500
BspQI GCTCTTC 1 cut(s) 224
BspT104I TTCGAA 1 cut(s) 511
BspT107I GGYRCC 2 cut(s) 266, 358
BsrFI RCCGGY 2 cut(s) 590, 659
BsrI ACTGG 3 cut(s) 130, 336, 494
BssAI RCCGGY 2 cut(s) 590, 659
BssECI CCNNGG 3 cut(s) 141, 583, 654
BssMI GATC 3 cut(s) 198, 478, 492
BssNI GRCGYC 1 cut(s) 267
BssT1I CCWWGG 1 cut(s) 583
Bst2UI CCWGG 2 cut(s) 534, 655
Bst4CI ACNGT 1 cut(s) 554
Bst6I CTCTTC 1 cut(s) 224
BstACI GRCGYC 1 cut(s) 267
BstBI TTCGAA 1 cut(s) 511
BstDEI CTNAG 1 cut(s) 414
BstDSI CCRYGG 1 cut(s) 583
BstF5I GGATG 3 cut(s) 151, 168, 644
BstH2I RGCGCY 1 cut(s) 270
BstHHI GCGC 1 cut(s) 269
BstKTI GATC 3 cut(s) 201, 481, 495
BstMBI GATC 3 cut(s) 198, 478, 492
BstMCI CGRYCG 1 cut(s) 595
BstMWI GCNNNNNNNGC 1 cut(s) 424
BstNI CCWGG 2 cut(s) 534, 655
BstSCI CCNGG 3 cut(s) 140, 532, 653
BstSFI CTRYAG 1 cut(s) 469
BstV1I GCAGC 4 cut(s) 78, 158, 271, 613
BstV2I GAAGAC 1 cut(s) 326
BstX2I RGATCY 1 cut(s) 478
BstYI RGATCY 1 cut(s) 478
BsuRI GGCC 4 cut(s) 403, 582, 659, 680
BtgI CCRYGG 1 cut(s) 583
BtsCI GGATG 3 cut(s) 151, 168, 644
BtsIMutI CAGTG 2 cut(s) 343, 487
CfoI GCGC 1 cut(s) 269
Cfr10I RCCGGY 2 cut(s) 590, 659
Cfr13I GGNCC 5 cut(s) 5, 401, 530, 657, 662
CseI GACGC 1 cut(s) 241
Csp6I GTAC 1 cut(s) 160
CspAI ACCGGT 1 cut(s) 590
CviAII CATG 7 cut(s) 54, 163, 315, 405, 496, 584, 600
CviQI GTAC 1 cut(s) 160
DdeI CTNAG 1 cut(s) 414
DinI GGCGCC 1 cut(s) 268
DpnI GATC 3 cut(s) 200, 480, 494
DpnII GATC 3 cut(s) 198, 478, 492
DrdI GACNNNNNNGTC 2 cut(s) 464, 610
DseDI GACNNNNNNGTC 2 cut(s) 464, 610
EaeI YGGCCR 1 cut(s) 580
Eam1104I CTCTTC 1 cut(s) 224
EarI CTCTTC 1 cut(s) 224
Eco130I CCWWGG 1 cut(s) 583
Eco147I AGGCCT 1 cut(s) 680
Eco47I GGWCC 3 cut(s) 5, 530, 662
Eco57I CTGAAG 1 cut(s) 205
Eco88I CYCGRG 1 cut(s) 630
EcoO109I RGGNCCY 2 cut(s) 5, 530
EcoRII CCWGG 2 cut(s) 532, 653
EcoT14I CCWWGG 1 cut(s) 583
EgeI GGCGCC 1 cut(s) 268
EheI GGCGCC 1 cut(s) 268
ErhI CCWWGG 1 cut(s) 583
FaeI CATG 7 cut(s) 57, 166, 318, 408, 499, 587, 603
FaqI GGGAC 2 cut(s) 18, 598
FatI CATG 7 cut(s) 53, 162, 314, 404, 495, 583, 599
FblI GTMKAC 1 cut(s) 468
Fnu4HI GCNGC 4 cut(s) 67, 147, 285, 627
FokI GGATG 3 cut(s) 138, 155, 631
Fsp4HI GCNGC 4 cut(s) 67, 147, 285, 627
FspBI CTAG 2 cut(s) 620, 682
GlaI GCGC 1 cut(s) 268
GluI GCNGC 4 cut(s) 67, 147, 285, 627
HaeII RGCGCY 1 cut(s) 270
HaeIII GGCC 4 cut(s) 403, 582, 659, 680
HapII CCGG 4 cut(s) 141, 196, 591, 660
HgaI GACGC 1 cut(s) 241
HhaI GCGC 1 cut(s) 269
Hin1I GRCGYC 1 cut(s) 267
Hin1II CATG 7 cut(s) 57, 166, 318, 408, 499, 587, 603
Hin6I GCGC 1 cut(s) 267
HinP1I GCGC 1 cut(s) 267
HinfI GANTC 1 cut(s) 178
HpaII CCGG 4 cut(s) 141, 196, 591, 660
HphI GGTGA 2 cut(s) 116, 467
Hpy166II GTNNAC 1 cut(s) 469
Hpy188I TCNGA 2 cut(s) 193, 209
Hpy188III TCNNGA 2 cut(s) 116, 665
Hpy8I GTNNAC 1 cut(s) 469
Hpy99I CGWCG 1 cut(s) 257
HpyAV CCTTC 1 cut(s) 165
HpyCH4III ACNGT 1 cut(s) 554
HpyCH4IV ACGT 1 cut(s) 507
HpyCH4V TGCA 2 cut(s) 408, 427
HpyF10VI GCNNNNNNNGC 1 cut(s) 424
HpyF3I CTNAG 1 cut(s) 414
HpySE526I ACGT 1 cut(s) 507
Hsp92I GRCGYC 1 cut(s) 267
Hsp92II CATG 7 cut(s) 57, 166, 318, 408, 499, 587, 603
HspAI GCGC 1 cut(s) 267
KasI GGCGCC 1 cut(s) 266
Kzo9I GATC 3 cut(s) 198, 478, 492
LguI GCTCTTC 1 cut(s) 224
Lsp1109I GCAGC 4 cut(s) 78, 158, 271, 613
LweI GCATC 3 cut(s) 97, 177, 458
MaeI CTAG 2 cut(s) 620, 682
MaeII ACGT 1 cut(s) 507
MaeIII GTNAC 1 cut(s) 455
MalI GATC 3 cut(s) 200, 480, 494
MboI GATC 3 cut(s) 198, 478, 492
MboII GAAGA 7 cut(s) 20, 42, 211, 225, 331, 344, 379
MflI RGATCY 1 cut(s) 478
MlsI TGGCCA 1 cut(s) 582
MluNI TGGCCA 1 cut(s) 582
Mly113I GGCGCC 1 cut(s) 267
MnlI CCTC 3 cut(s) 586, 619, 670
Mox20I TGGCCA 1 cut(s) 582
MscI TGGCCA 1 cut(s) 582
MseI TTAA 2 cut(s) 240, 381
Msp20I TGGCCA 1 cut(s) 582
MspI CCGG 4 cut(s) 141, 196, 591, 660
MspR9I CCNGG 3 cut(s) 142, 534, 655
Mva1269I GAATGC 1 cut(s) 302
MvaI CCWGG 2 cut(s) 534, 655
MwoI GCNNNNNNNGC 1 cut(s) 424
NarI GGCGCC 1 cut(s) 267
NciI CCSGG 1 cut(s) 142
NcoI CCATGG 1 cut(s) 583
NdeII GATC 3 cut(s) 198, 478, 492
NlaIII CATG 7 cut(s) 57, 166, 318, 408, 499, 587, 603
NlaIV GGNNCC 8 cut(s) 6, 139, 268, 360, 439, 531, 538, 589
NmeAIII GCCGAG 1 cut(s) 193
NmuCI GTSAC 1 cut(s) 455
NspV TTCGAA 1 cut(s) 511
PaeR7I CTCGAG 1 cut(s) 630
PceI AGGCCT 1 cut(s) 680
PciSI GCTCTTC 1 cut(s) 224
PctI GAATGC 1 cut(s) 302
PfeI GAWTC 1 cut(s) 178
PfoI TCCNGGA 1 cut(s) 532
PinAI ACCGGT 1 cut(s) 590
PkrI GCNGC 4 cut(s) 68, 148, 286, 628
PluTI GGCGCC 1 cut(s) 270
PpuMI RGGWCCY 2 cut(s) 5, 530
Psp1406I AACGTT 1 cut(s) 507
Psp5II RGGWCCY 2 cut(s) 5, 530
Psp6I CCWGG 2 cut(s) 532, 653
PspGI CCWGG 2 cut(s) 532, 653
PspN4I GGNNCC 8 cut(s) 6, 139, 268, 360, 439, 531, 538, 589
PspPI GGNCC 5 cut(s) 5, 401, 530, 657, 662
PspPPI RGGWCCY 2 cut(s) 5, 530
PspXI VCTCGAGB 1 cut(s) 630
PsuI RGATCY 1 cut(s) 478
RsaI GTAC 1 cut(s) 161
RsaNI GTAC 1 cut(s) 160
SapI GCTCTTC 1 cut(s) 224
SaqAI TTAA 2 cut(s) 240, 381
SatI GCNGC 4 cut(s) 67, 147, 285, 627
Sau3AI GATC 3 cut(s) 198, 478, 492
Sau96I GGNCC 5 cut(s) 5, 401, 530, 657, 662
ScrFI CCNGG 3 cut(s) 142, 534, 655
SetI ASST 9 cut(s) 10, 71, 151, 249, 328, 420, 464, 510, 578
SfaNI GCATC 3 cut(s) 97, 177, 458
SfcI CTRYAG 1 cut(s) 469
SfoI GGCGCC 1 cut(s) 268
Sfr274I CTCGAG 1 cut(s) 630
SfuI TTCGAA 1 cut(s) 511
SinI GGWCC 3 cut(s) 5, 530, 662
SlaI CTCGAG 1 cut(s) 630
SmlI CTYRAG 3 cut(s) 173, 182, 630
SmoI CTYRAG 3 cut(s) 173, 182, 630
SseBI AGGCCT 1 cut(s) 680
SspDI GGCGCC 1 cut(s) 266
SspMI CTAG 2 cut(s) 620, 682
StuI AGGCCT 1 cut(s) 680
StyD4I CCNGG 3 cut(s) 140, 532, 653
StyI CCWWGG 1 cut(s) 583
TaaI ACNGT 1 cut(s) 554
TaiI ACGT 1 cut(s) 510
TaqI TCGA 3 cut(s) 255, 511, 631
TfiI GAWTC 1 cut(s) 178
Tru1I TTAA 2 cut(s) 240, 381
Tru9I TTAA 2 cut(s) 240, 381
TscAI CASTG 2 cut(s) 343, 494
TseFI GTSAC 1 cut(s) 455
TseI GCWGC 4 cut(s) 66, 146, 284, 626
Tsp45I GTSAC 1 cut(s) 455
TspDTI ATGAA 2 cut(s) 42, 80
TspGWI ACGGA 1 cut(s) 226
TspRI CASTG 2 cut(s) 343, 494
VpaK11BI GGWCC 3 cut(s) 5, 530, 662
XhoI CTCGAG 1 cut(s) 630
XmiI GTMKAC 1 cut(s) 468
XspI CTAG 2 cut(s) 620, 682
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.