Rh2DG676900

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2D
OG0015791
Physical Location & Seq
Reverse (-)
89755771 .. 89757885
2115 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2DG676900.1

Sequence Viewer

Length: 825 bp
ATGGTGATCCAGCTGAAGCAAGAGCTGGTCATGAACTCGTTCAAGACCATAGACGGTAGAGGTGCGAGTGTTCACATTGCCAATGGACCATGCATCACCATACATCATGTCACCAACATCGTCATCCATGGGATCAACATACACGACTGTAAGCAGGCCGGGAACGGAGACATTAGGGACTCCCCGAGCCACGCCGGGTGGTGGACGCAGTCCGACGGGGACGGCGTGTCGATTTTCGGCGGAAAGCACATTTGGGTTGACCATTGCTCGCTGTCAAATTGTCACGATGGACTCATCGATGCCATACATGGATCGACGGCCATCACGATTTCGAACAACTTCATGACGCATCATGACAAGGTTATGCTTTTAGGGCACAGTGATTCGTTTACAGAAGACAAGGGCATGCAGGTCACTGTTGCGTTTAATCACTTTGGAGAAGGGCTCGTGCAAAGAATGCCAAGGTGTAGACATGGATATTTTCATGTGGTGAACAATGACTATACACATTGGGAGATGTATGCAATAGGAGGGAGTGCTTCCCCAACCATCTTAAGTCAAGGCAATAGATTTCTTGCACCGGATAGAAGTTTCGATAAAGAGGTGACAAAACATGAGGATGCGCCGGAAAGTGAGTGGAAGAAGTGGAACTGGAGATCCGAGGGGGATTTGATGCTGAACGGCGCATTTTTCCGGCAATCGGGTGCCGGTGCATCGTCAAGCTATGCGAGGGCGTCGAGTCTCAGTGGAAGACCCTCTTCTCTTGTGGGTGCGATGACTGTCACTGCCGGTGCACTTAACTGCCGGAGGGGATCCCGCTGCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005576 GO:0008150 GO:0009605 GO:0009607 GO:0009624 GO:0043207 GO:0050896 GO:0051704 GO:0051707
KEGG Pathways
Metabolic & Signaling
ko00040 ko02024 map00040 map02024
Pfam Domains
Protein Families
Pec_lyase_C

Protein Analysis

274

Amino Acids

30.03

Weight (kDa)

6.8

Isoelectric Point (pI)

38.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 6 - 203 8.7e-24 Pectate lyase
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 (Group: OG0015791)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G27400 AT3G27400
fragaria_vesca FvH4_6g52190
malus_domestica MD09G1019900.v1.1
prunus_persica Prupe.3G296600_v2.0.a1
pyrus_communis pycom111g01650
rosa_chinensis RchiOBHm_Chr2g0173681
rosa_laevigata RLG00000022214
rosa_multiflora Rmu_sc0002538.1_g000007
rosa_rugosa Rorug02G0572300
rosa_samantha Rh2AG651200 Rh2BG661600 Rh2CG626600 Rh2DG676900
rosa_wichuraiana Rw2G053440

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 400
AccB1I GGYRCC 1 cut(s) 704
AccI GTMKAC 1 cut(s) 469
AciI CCGC 2 cut(s) 240, 817
AclWI GGATC 5 cut(s) 140, 319, 651, 807, 820
AcoI YGGCCR 1 cut(s) 318
AcuI CTGAAG 1 cut(s) 35
AcyI GRCGYC 1 cut(s) 734
AfiI CCNNNNNNNGG 2 cut(s) 201, 700
AflII CTTAAG 1 cut(s) 553
AgsI TTSAA 1 cut(s) 43
AhdI GACNNNNNGTC 1 cut(s) 226
AjuI GAANNNNNNNTTGG 2 cut(s) 235, 267
AloI GAACNNNNNNTCC 2 cut(s) 641, 673
AluBI AGCT 3 cut(s) 13, 25, 723
AluI AGCT 3 cut(s) 13, 25, 723
Alw21I GWGCWC 1 cut(s) 796
Alw26I GTCTC 2 cut(s) 162, 746
Alw44I GTGCAC 1 cut(s) 792
AlwI GGATC 5 cut(s) 140, 319, 651, 807, 820
Ama87I CYCGRG 1 cut(s) 184
AoxI GGCC 2 cut(s) 156, 318
ApaLI GTGCAC 1 cut(s) 792
ApeKI GCWGC 1 cut(s) 819
Asp700I GAANNNNTTC 2 cut(s) 38, 338
AspLEI GCGC 2 cut(s) 625, 686
AspS9I GGNCC 1 cut(s) 86
AsuC2I CCSGG 2 cut(s) 160, 196
AsuHPI GGTGA 5 cut(s) 16, 88, 103, 502, 616
AsuII TTCGAA 1 cut(s) 332
AvaI CYCGRG 1 cut(s) 184
AvaII GGWCC 1 cut(s) 86
BaeGI GKGCMC 2 cut(s) 378, 796
BamHI GGATCC 1 cut(s) 812
BanI GGYRCC 1 cut(s) 704
BanII GRGCYC 1 cut(s) 447
BauI CACGAG 1 cut(s) 446
BbsI GAAGAC 2 cut(s) 402, 757
Bbv12I GWGCWC 1 cut(s) 796
BbvI GCAGC 1 cut(s) 806
BccI CCATC 3 cut(s) 281, 329, 557
BceAI ACGGC 3 cut(s) 238, 333, 697
BcnI CCSGG 2 cut(s) 160, 196
BcoDI GTCTC 2 cut(s) 162, 746
BfrI CTTAAG 1 cut(s) 553
BfuAI ACCTGC 1 cut(s) 400
BisI GCNGC 1 cut(s) 820
BlsI GCNGC 1 cut(s) 821
Bme1390I CCNGG 2 cut(s) 160, 196
Bme18I GGWCC 1 cut(s) 86
BmeRI GACNNNNNGTC 1 cut(s) 226
BmeT110I CYCGRG 1 cut(s) 184
BmgT120I GGNCC 1 cut(s) 86
BmiI GGNNCC 2 cut(s) 706, 814
BmrFI CCNGG 2 cut(s) 160, 196
BmsI GCATC 6 cut(s) 102, 289, 358, 610, 663, 722
BpiI GAAGAC 2 cut(s) 402, 757
BplI GAGNNNNNCTC 2 cut(s) 429, 461
BpmI CTGGAG 1 cut(s) 673
Bpu14I TTCGAA 1 cut(s) 332
BpuMI CCSGG 2 cut(s) 160, 196
Bsa29I ATCGAT 1 cut(s) 297
BsaHI GRCGYC 1 cut(s) 734
BsaJI CCNNGG 3 cut(s) 127, 461, 660
BsaWI WCCGGW 1 cut(s) 580
Bsc4I CCNNNNNNNGG 2 cut(s) 201, 700
Bse118I RCCGGY 2 cut(s) 707, 788
Bse1I ACTGG 1 cut(s) 656
Bse3DI GCAATG 2 cut(s) 75, 262
BseCI ATCGAT 1 cut(s) 297
BseDI CCNNGG 3 cut(s) 127, 461, 660
BseGI GGATG 2 cut(s) 123, 625
BseLI CCNNNNNNNGG 2 cut(s) 201, 700
BseMI GCAATG 2 cut(s) 75, 262
BseMII CTCAG 1 cut(s) 757
BseNI ACTGG 1 cut(s) 656
BseSI GKGCMC 2 cut(s) 378, 796
BseXI GCAGC 1 cut(s) 806
BshFI GGCC 2 cut(s) 158, 320
BshNI GGYRCC 1 cut(s) 704
BshVI ATCGAT 1 cut(s) 297
BsiHKAI GWGCWC 1 cut(s) 796
BsiHKCI CYCGRG 1 cut(s) 184
BsiSI CCGG 8 cut(s) 159, 195, 581, 626, 694, 708, 789, 805
BslFI GGGAC 2 cut(s) 191, 233
BslI CCNNNNNNNGG 2 cut(s) 201, 700
BsmAI GTCTC 2 cut(s) 162, 746
BsmFI GGGAC 2 cut(s) 191, 233
BsmI GAATGC 1 cut(s) 462
BsnI GGCC 2 cut(s) 158, 320
BsoBI CYCGRG 1 cut(s) 184
Bsp119I TTCGAA 1 cut(s) 332
Bsp1286I GDGCHC 3 cut(s) 378, 447, 796
Bsp143I GATC 5 cut(s) 6, 132, 311, 656, 812
Bsp19I CCATGG 1 cut(s) 127
BspACI CCGC 2 cut(s) 240, 817
BspANI GGCC 2 cut(s) 158, 320
BspCNI CTCAG 1 cut(s) 756
BspDI ATCGAT 1 cut(s) 297
BspHI TCATGA 3 cut(s) 30, 342, 352
BspLI GGNNCC 2 cut(s) 706, 814
BspMI ACCTGC 1 cut(s) 400
BspPI GGATC 5 cut(s) 140, 319, 651, 807, 820
BspT104I TTCGAA 1 cut(s) 332
BspT107I GGYRCC 1 cut(s) 704
BspTI CTTAAG 1 cut(s) 553
BsrDI GCAATG 2 cut(s) 75, 262
BsrFI RCCGGY 2 cut(s) 707, 788
BsrI ACTGG 1 cut(s) 656
BssAI RCCGGY 2 cut(s) 707, 788
BssECI CCNNGG 3 cut(s) 127, 461, 660
BssMI GATC 5 cut(s) 6, 132, 311, 656, 812
BssNI GRCGYC 1 cut(s) 734
BssSI CACGAG 1 cut(s) 446
BssT1I CCWWGG 2 cut(s) 127, 461
Bst2BI CACGAG 1 cut(s) 446
Bst4CI ACNGT 5 cut(s) 56, 149, 380, 418, 781
Bst6I CTCTTC 1 cut(s) 763
BstACI GRCGYC 1 cut(s) 734
BstAFI CTTAAG 1 cut(s) 553
BstAPI GCANNNNNTGC 1 cut(s) 457
BstBI TTCGAA 1 cut(s) 332
BstC8I GCNNGC 3 cut(s) 156, 269, 407
BstDEI CTNAG 1 cut(s) 743
BstDSI CCRYGG 1 cut(s) 127
BstF5I GGATG 2 cut(s) 123, 625
BstHHI GCGC 2 cut(s) 625, 686
BstKTI GATC 5 cut(s) 9, 135, 314, 659, 815
BstMAI GTCTC 2 cut(s) 162, 746
BstMBI GATC 5 cut(s) 6, 132, 311, 656, 812
BstMWI GCNNNNNNNGC 2 cut(s) 373, 457
BstNSI RCATGY 1 cut(s) 409
BstSCI CCNGG 2 cut(s) 158, 194
BstSLI GKGCMC 2 cut(s) 378, 796
BstV1I GCAGC 1 cut(s) 806
BstV2I GAAGAC 2 cut(s) 402, 757
BstX2I RGATCY 2 cut(s) 656, 812
BstYI RGATCY 2 cut(s) 656, 812
Bsu15I ATCGAT 1 cut(s) 297
BsuRI GGCC 2 cut(s) 158, 320
BsuTUI ATCGAT 1 cut(s) 297
BtgI CCRYGG 1 cut(s) 127
BtgZI GCGATG 1 cut(s) 788
BtsCI GGATG 2 cut(s) 123, 625
BtsI GCAGTG 1 cut(s) 783
BtsIMutI CAGTG 4 cut(s) 385, 414, 751, 783
BveI ACCTGC 1 cut(s) 400
Cac8I GCNNGC 3 cut(s) 156, 269, 407
CciI TCATGA 3 cut(s) 30, 342, 352
CfoI GCGC 2 cut(s) 625, 686
Cfr10I RCCGGY 2 cut(s) 707, 788
Cfr13I GGNCC 1 cut(s) 86
ClaI ATCGAT 1 cut(s) 297
CseI GACGC 3 cut(s) 214, 355, 723
CviJI RGCY 7 cut(s) 13, 25, 158, 189, 320, 445, 723
CviKI_1 RGCY 7 cut(s) 13, 25, 158, 189, 320, 445, 723
DdeI CTNAG 1 cut(s) 743
DpnI GATC 5 cut(s) 8, 134, 313, 658, 814
DpnII GATC 5 cut(s) 6, 132, 311, 656, 812
DriI GACNNNNNGTC 1 cut(s) 226
EaeI YGGCCR 1 cut(s) 318
Eam1104I CTCTTC 1 cut(s) 763
Eam1105I GACNNNNNGTC 1 cut(s) 226
EarI CTCTTC 1 cut(s) 763
EciI GGCGGA 1 cut(s) 255
Eco130I CCWWGG 2 cut(s) 127, 461
Eco24I GRGCYC 1 cut(s) 447
Eco47I GGWCC 1 cut(s) 86
Eco57I CTGAAG 1 cut(s) 35
Eco88I CYCGRG 1 cut(s) 184
EcoT14I CCWWGG 2 cut(s) 127, 461
EcoT22I ATGCAT 1 cut(s) 95
EcoT38I GRGCYC 1 cut(s) 447
ErhI CCWWGG 2 cut(s) 127, 461
FalI AAGNNNNNCTT 2 cut(s) 742, 774
FaqI GGGAC 2 cut(s) 191, 233
FblI GTMKAC 1 cut(s) 469
Fnu4HI GCNGC 1 cut(s) 820
FokI GGATG 2 cut(s) 110, 632
FriOI GRGCYC 1 cut(s) 447
Fsp4HI GCNGC 1 cut(s) 820
GlaI GCGC 2 cut(s) 624, 685
GluI GCNGC 1 cut(s) 820
GsuI CTGGAG 1 cut(s) 673
HaeIII GGCC 2 cut(s) 158, 320
HapII CCGG 8 cut(s) 159, 195, 581, 626, 694, 708, 789, 805
HgaI GACGC 3 cut(s) 214, 355, 723
HhaI GCGC 2 cut(s) 625, 686
Hin1I GRCGYC 1 cut(s) 734
Hin6I GCGC 2 cut(s) 623, 684
HinP1I GCGC 2 cut(s) 623, 684
HincII GTYRAC 1 cut(s) 259
HindII GTYRAC 1 cut(s) 259
HinfI GANTC 4 cut(s) 179, 291, 383, 739
HpaII CCGG 8 cut(s) 159, 195, 581, 626, 694, 708, 789, 805
HphI GGTGA 5 cut(s) 16, 88, 103, 502, 616
Hpy166II GTNNAC 7 cut(s) 73, 204, 259, 390, 470, 493, 794
Hpy188I TCNGA 2 cut(s) 214, 661
Hpy188III TCNNGA 6 cut(s) 31, 43, 284, 325, 343, 353
Hpy8I GTNNAC 7 cut(s) 73, 204, 259, 390, 470, 493, 794
Hpy99I CGWCG 3 cut(s) 218, 319, 739
HpyAV CCTTC 1 cut(s) 434
HpyCH4III ACNGT 5 cut(s) 56, 149, 380, 418, 781
HpyCH4V TGCA 7 cut(s) 93, 409, 451, 524, 578, 713, 794
HpyF10VI GCNNNNNNNGC 2 cut(s) 373, 457
HpyF3I CTNAG 1 cut(s) 743
Hsp92I GRCGYC 1 cut(s) 734
HspAI GCGC 2 cut(s) 623, 684
Kzo9I GATC 5 cut(s) 6, 132, 311, 656, 812
Lsp1109I GCAGC 1 cut(s) 806
LweI GCATC 6 cut(s) 102, 289, 358, 610, 663, 722
MaeIII GTNAC 5 cut(s) 109, 281, 412, 604, 781
MalI GATC 5 cut(s) 8, 134, 313, 658, 814
MboI GATC 5 cut(s) 6, 132, 311, 656, 812
MboII GAAGA 4 cut(s) 407, 652, 750, 762
MflI RGATCY 2 cut(s) 656, 812
MhlI GDGCHC 3 cut(s) 378, 447, 796
MluCI AATT 1 cut(s) 277
MlyI GAGTC 3 cut(s) 173, 285, 748
MmeI TCCRAC 1 cut(s) 237
MnlI CCTC 8 cut(s) 53, 524, 595, 610, 655, 723, 766, 801
Mph1103I ATGCAT 1 cut(s) 95
MroXI GAANNNNTTC 2 cut(s) 38, 338
MseI TTAA 3 cut(s) 426, 554, 798
MslI CAYNNNNRTG 1 cut(s) 618
MspA1I CMGCKG 2 cut(s) 13, 819
MspCI CTTAAG 1 cut(s) 553
MspI CCGG 8 cut(s) 159, 195, 581, 626, 694, 708, 789, 805
MspR9I CCNGG 2 cut(s) 160, 196
Mva1269I GAATGC 1 cut(s) 462
MwoI GCNNNNNNNGC 2 cut(s) 373, 457
NciI CCSGG 2 cut(s) 160, 196
NcoI CCATGG 1 cut(s) 127
NdeII GATC 5 cut(s) 6, 132, 311, 656, 812
NlaIV GGNNCC 2 cut(s) 706, 814
NmuCI GTSAC 5 cut(s) 109, 281, 412, 604, 781
NsiI ATGCAT 1 cut(s) 95
NspI RCATGY 1 cut(s) 409
NspV TTCGAA 1 cut(s) 332
PaeI GCATGC 1 cut(s) 409
PagI TCATGA 3 cut(s) 30, 342, 352
PcsI WCGNNNNNNNCGW 2 cut(s) 222, 323
PctI GAATGC 1 cut(s) 462
PdmI GAANNNNTTC 2 cut(s) 38, 338
PfeI GAWTC 1 cut(s) 383
PflFI GACNNNGTC 1 cut(s) 208
PkrI GCNGC 1 cut(s) 821
PleI GAGTC 3 cut(s) 173, 285, 747
PpsI GAGTC 3 cut(s) 173, 285, 747
PspN4I GGNNCC 2 cut(s) 706, 814
PspPI GGNCC 1 cut(s) 86
PsuI RGATCY 2 cut(s) 656, 812
PsyI GACNNNGTC 1 cut(s) 208
PvuII CAGCTG 1 cut(s) 13
RseI CAYNNNNRTG 1 cut(s) 618
SaqAI TTAA 3 cut(s) 426, 554, 798
SatI GCNGC 1 cut(s) 820
Sau3AI GATC 5 cut(s) 6, 132, 311, 656, 812
Sau96I GGNCC 1 cut(s) 86
SchI GAGTC 3 cut(s) 173, 285, 748
ScrFI CCNGG 2 cut(s) 160, 196
SduI GDGCHC 3 cut(s) 378, 447, 796
SetI ASST 8 cut(s) 15, 27, 64, 363, 414, 467, 606, 725
SfaNI GCATC 6 cut(s) 102, 289, 358, 610, 663, 722
SfuI TTCGAA 1 cut(s) 332
SinI GGWCC 1 cut(s) 86
SmiMI CAYNNNNRTG 1 cut(s) 618
SmlI CTYRAG 1 cut(s) 553
SmoI CTYRAG 1 cut(s) 553
SphI GCATGC 1 cut(s) 409
Sse9I AATT 1 cut(s) 277
SsiI CCGC 2 cut(s) 240, 817
StyD4I CCNGG 2 cut(s) 158, 194
StyI CCWWGG 2 cut(s) 127, 461
TaaI ACNGT 5 cut(s) 56, 149, 380, 418, 781
TaqI TCGA 6 cut(s) 230, 297, 314, 332, 594, 737
TasI AATT 1 cut(s) 277
TfiI GAWTC 1 cut(s) 383
Tru1I TTAA 3 cut(s) 426, 554, 798
Tru9I TTAA 3 cut(s) 426, 554, 798
TscAI CASTG 4 cut(s) 385, 421, 751, 790
TseFI GTSAC 5 cut(s) 109, 281, 412, 604, 781
TseI GCWGC 1 cut(s) 819
Tsp45I GTSAC 5 cut(s) 109, 281, 412, 604, 781
TspDTI ATGAA 3 cut(s) 47, 331, 473
TspGWI ACGGA 1 cut(s) 180
TspRI CASTG 4 cut(s) 385, 421, 751, 790
Tth111I GACNNNGTC 1 cut(s) 208
Vha464I CTTAAG 1 cut(s) 553
VneI GTGCAC 1 cut(s) 792
VpaK11BI GGWCC 1 cut(s) 86
XceI RCATGY 1 cut(s) 409
XmiI GTMKAC 1 cut(s) 469
XmnI GAANNNNTTC 2 cut(s) 38, 338
Zsp2I ATGCAT 1 cut(s) 95
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.