Rroxscaffold_3G00241330

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0008415
Physical Location & Seq
Forward (+)
33599817 .. 33600980
1164 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00241330.1

Sequence Viewer

Length: 978 bp
ATGTGTTCGGTAGGATTTGCCGGGAAAATGAGCAACAACATAGGAAAAGATGTCATAAACTATGAAGTAACAGATCCCAGTGACAATGCATTAAATCCCCAACCAGGTACTTTGAGATATGGAGCTACTATGATCAAAGGCAAAAAATGGATCACATTCCAGAGGGACATGAAAATTAAACTCGAGAAACCATTGCTCGTTAGTAGCTTCACTGCAATTGATGGAAGAGGTGCTAATGTCCACATACAAGGTAACGCGTGCTTGAGAGTGTTCAAAGCAACCAATGTTATCATACATGGCCTTCGAATCCACCACTGCAAGTCGCAGCCACCGACCACGGTTATGGGTCCGAATGGAATAGTTTCACTAGGAGCGGTTGATGGAGACGCAATAAGGTTGGTTACTGCATCAAAAGTTTGGATAGACCACAATACACTATACGAGTGTGAGGATGGTCTTCTCGACGTCACTCGTGGATCAACCGACGTCACCGTCTCCAACAATTGGTTCAGAAACCAGGACAAGGTAATGCTTCTCGGCCATGATGATGGCTTCTTTCGGGACAAGAACATGAAGGTGACTGTAGTATACAATCATTTTGGACCACTCTGCAATCAGAGAATGCCAAGGATTCGCCATGGATATGCACATGTCGTAAACAACTTGTACAGGGAATGGACACAGTATGCAATTGGGGGAAGCATGAACCCTAGTGTTAAAAGCGAAGCCAATCTCTTCATTGCACCAAAACAAAACAAAGAGATCACTTGGAGGCAGGACAGTGTTAACAACTCCTGGAAATTTTACTCTAAAGGCGATATTTTTGAAAATGGGGCTTCCTTCATCCAAACAGGTCAAGGTGGAGCCCAGCCACACTATAACATGGAACAAAAATTCCGAGTTGCCAACGCCAAATCTGTCCGGTCATTGACAAGGTCATCAGGTGCTCTAACATGCACCAAACAATCTAGATGCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00040 ko02024 map00040 map02024
Pfam Domains
Protein Families
Pec_lyase_C

Protein Analysis

325

Amino Acids

36.26

Weight (kDa)

9.51

Isoelectric Point (pI)

30.21

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 67 - 263 1e-26 Pectate lyase
Beta_helix PF13229 85 - 200 9.2e-06 Right handed beta helix region
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 491
AatII GACGTC 2 cut(s) 468, 489
AccB7I CCANNNNNTGG 1 cut(s) 504
AccBSI CCGCTC 1 cut(s) 374
AccI GTMKAC 1 cut(s) 588
AccII CGCG 1 cut(s) 257
AciI CCGC 1 cut(s) 374
AclWI GGATC 3 cut(s) 68, 158, 484
AcoI YGGCCR 1 cut(s) 538
AcsI RAATTY 2 cut(s) 800, 893
AcyI GRCGYC 2 cut(s) 465, 486
AfaI GTAC 2 cut(s) 109, 668
AfiI CCNNNNNNNGG 3 cut(s) 104, 504, 523
AflIII ACRYGT 2 cut(s) 255, 649
AgsI TTSAA 2 cut(s) 274, 827
AjnI CCWGG 3 cut(s) 103, 516, 794
AjuI GAANNNNNNNTTGG 2 cut(s) 491, 523
AloI GAACNNNNNNTCC 2 cut(s) 879, 911
AluBI AGCT 2 cut(s) 125, 207
AluI AGCT 2 cut(s) 125, 207
Alw21I GWGCWC 1 cut(s) 949
Alw26I GTCTC 2 cut(s) 378, 499
AlwI GGATC 3 cut(s) 68, 158, 484
Ama87I CYCGRG 1 cut(s) 182
AoxI GGCC 2 cut(s) 298, 538
ApeKI GCWGC 1 cut(s) 325
ApoI RAATTY 2 cut(s) 800, 893
Asp700I GAANNNNTTC 1 cut(s) 361
AspS9I GGNCC 2 cut(s) 347, 602
AsuC2I CCSGG 1 cut(s) 22
AsuHPI GGTGA 2 cut(s) 481, 589
AsuII TTCGAA 1 cut(s) 304
AvaI CYCGRG 1 cut(s) 182
AvaII GGWCC 2 cut(s) 347, 602
BanII GRGCYC 1 cut(s) 868
BauI CACGAG 1 cut(s) 471
BbsI GAAGAC 1 cut(s) 449
Bbv12I GWGCWC 1 cut(s) 949
BbvI GCAGC 1 cut(s) 337
BccI CCATC 4 cut(s) 215, 374, 446, 542
BciT130I CCWGG 3 cut(s) 105, 518, 796
BclI TGATCA 1 cut(s) 132
BcnI CCSGG 1 cut(s) 22
BcoDI GTCTC 2 cut(s) 378, 499
BfaI CTAG 3 cut(s) 368, 711, 969
BfmI CTRYAG 1 cut(s) 582
BisI GCNGC 1 cut(s) 326
BlsI GCNGC 1 cut(s) 327
Bme1390I CCNGG 4 cut(s) 22, 105, 518, 796
Bme18I GGWCC 2 cut(s) 347, 602
BmeT110I CYCGRG 1 cut(s) 182
BmgT120I GGNCC 2 cut(s) 347, 602
BmiI GGNNCC 2 cut(s) 348, 865
BmrFI CCNGG 4 cut(s) 22, 105, 518, 796
BmrI ACTGGG 1 cut(s) 72
BmsI GCATC 2 cut(s) 416, 962
BmuI ACTGGG 1 cut(s) 72
BpiI GAAGAC 1 cut(s) 449
Bpu14I TTCGAA 1 cut(s) 304
BpuEI CTTGAG 1 cut(s) 283
BpuMI CCSGG 1 cut(s) 22
BsaHI GRCGYC 2 cut(s) 465, 486
BsaJI CCNNGG 3 cut(s) 336, 626, 637
BsaWI WCCGGW 1 cut(s) 921
Bsc4I CCNNNNNNNGG 3 cut(s) 104, 504, 523
Bse1I ACTGG 1 cut(s) 78
Bse3DI GCAATG 2 cut(s) 191, 738
BseBI CCWGG 3 cut(s) 105, 518, 796
BseDI CCNNGG 3 cut(s) 336, 626, 637
BseGI GGATG 2 cut(s) 457, 843
BseLI CCNNNNNNNGG 3 cut(s) 104, 504, 523
BseMI GCAATG 2 cut(s) 191, 738
BseNI ACTGG 1 cut(s) 78
BseXI GCAGC 1 cut(s) 337
BseYI CCCAGC 1 cut(s) 867
Bsh1236I CGCG 1 cut(s) 257
BshFI GGCC 2 cut(s) 300, 540
BsiHKAI GWGCWC 1 cut(s) 949
BsiHKCI CYCGRG 1 cut(s) 182
BsiSI CCGG 2 cut(s) 21, 922
BslFI GGGAC 2 cut(s) 179, 575
BslI CCNNNNNNNGG 3 cut(s) 104, 504, 523
BsmAI GTCTC 2 cut(s) 378, 499
BsmBI CGTCTC 2 cut(s) 378, 499
BsmFI GGGAC 2 cut(s) 179, 575
BsmI GAATGC 1 cut(s) 627
BsnI GGCC 2 cut(s) 300, 540
BsoBI CYCGRG 1 cut(s) 182
Bsp119I TTCGAA 1 cut(s) 304
Bsp1286I GDGCHC 2 cut(s) 868, 949
Bsp1407I TGTACA 1 cut(s) 666
Bsp143I GATC 5 cut(s) 73, 132, 150, 476, 762
Bsp19I CCATGG 1 cut(s) 637
BspACI CCGC 1 cut(s) 374
BspANI GGCC 2 cut(s) 300, 540
BspFNI CGCG 1 cut(s) 257
BspLI GGNNCC 2 cut(s) 348, 865
BspPI GGATC 3 cut(s) 68, 158, 484
BspT104I TTCGAA 1 cut(s) 304
BsrBI CCGCTC 1 cut(s) 374
BsrDI GCAATG 2 cut(s) 191, 738
BsrGI TGTACA 1 cut(s) 666
BsrI ACTGG 1 cut(s) 78
BssECI CCNNGG 3 cut(s) 336, 626, 637
BssMI GATC 5 cut(s) 73, 132, 150, 476, 762
BssNAI GTATAC 1 cut(s) 589
BssNI GRCGYC 2 cut(s) 465, 486
BssSI CACGAG 1 cut(s) 471
BssT1I CCWWGG 2 cut(s) 626, 637
Bst1107I GTATAC 1 cut(s) 589
Bst2BI CACGAG 1 cut(s) 471
Bst2UI CCWGG 3 cut(s) 105, 518, 796
Bst4CI ACNGT 5 cut(s) 340, 493, 583, 684, 782
Bst6I CTCTTC 2 cut(s) 220, 740
BstACI GRCGYC 2 cut(s) 465, 486
BstAUI TGTACA 1 cut(s) 666
BstBI TTCGAA 1 cut(s) 304
BstC8I GCNNGC 1 cut(s) 259
BstDSI CCRYGG 2 cut(s) 336, 637
BstF5I GGATG 2 cut(s) 457, 843
BstFNI CGCG 1 cut(s) 257
BstKTI GATC 5 cut(s) 76, 135, 153, 479, 765
BstMAI GTCTC 2 cut(s) 378, 499
BstMBI GATC 5 cut(s) 73, 132, 150, 476, 762
BstNI CCWGG 3 cut(s) 105, 518, 796
BstNSI RCATGY 2 cut(s) 653, 957
BstSCI CCNGG 4 cut(s) 20, 103, 516, 794
BstSFI CTRYAG 1 cut(s) 582
BstUI CGCG 1 cut(s) 257
BstV1I GCAGC 1 cut(s) 337
BstV2I GAAGAC 1 cut(s) 449
BstX2I RGATCY 1 cut(s) 73
BstXI CCANNNNNNTGG 2 cut(s) 343, 548
BstYI RGATCY 1 cut(s) 73
BstZ17I GTATAC 1 cut(s) 589
BsuRI GGCC 2 cut(s) 300, 540
BtgI CCRYGG 2 cut(s) 336, 637
BtsCI GGATG 2 cut(s) 457, 843
BtsI GCAGTG 2 cut(s) 210, 313
BtsIMutI CAGTG 4 cut(s) 85, 210, 313, 787
Cac8I GCNNGC 1 cut(s) 259
Cfr13I GGNCC 2 cut(s) 347, 602
CseI GACGC 1 cut(s) 395
CsiI ACCWGGT 1 cut(s) 103
Csp6I GTAC 2 cut(s) 108, 667
CviAII CATG 9 cut(s) 169, 296, 542, 571, 638, 650, 703, 883, 954
CviQI GTAC 2 cut(s) 108, 667
DpnI GATC 5 cut(s) 75, 134, 152, 478, 764
DpnII GATC 5 cut(s) 73, 132, 150, 476, 762
DrdI GACNNNNNNGTC 1 cut(s) 491
DseDI GACNNNNNNGTC 1 cut(s) 491
EaeI YGGCCR 1 cut(s) 538
Eam1104I CTCTTC 2 cut(s) 220, 740
EarI CTCTTC 2 cut(s) 220, 740
Eco130I CCWWGG 2 cut(s) 626, 637
Eco24I GRGCYC 1 cut(s) 868
Eco47I GGWCC 2 cut(s) 347, 602
Eco88I CYCGRG 1 cut(s) 182
EcoRII CCWGG 3 cut(s) 103, 516, 794
EcoT14I CCWWGG 2 cut(s) 626, 637
EcoT22I ATGCAT 1 cut(s) 91
EcoT38I GRGCYC 1 cut(s) 868
ErhI CCWWGG 2 cut(s) 626, 637
Esp3I CGTCTC 2 cut(s) 378, 499
FaeI CATG 9 cut(s) 172, 299, 545, 574, 641, 653, 706, 886, 957
FaqI GGGAC 2 cut(s) 179, 575
FatI CATG 9 cut(s) 168, 295, 541, 570, 637, 649, 702, 882, 953
FbaI TGATCA 1 cut(s) 132
FblI GTMKAC 1 cut(s) 588
Fnu4HI GCNGC 1 cut(s) 326
FokI GGATG 2 cut(s) 464, 830
FriOI GRGCYC 1 cut(s) 868
Fsp4HI GCNGC 1 cut(s) 326
FspBI CTAG 3 cut(s) 368, 711, 969
GluI GCNGC 1 cut(s) 326
GsaI CCCAGC 1 cut(s) 871
HaeIII GGCC 2 cut(s) 300, 540
HapII CCGG 2 cut(s) 21, 922
HgaI GACGC 1 cut(s) 395
Hin1I GRCGYC 2 cut(s) 465, 486
Hin1II CATG 9 cut(s) 172, 299, 545, 574, 641, 653, 706, 886, 957
HincII GTYRAC 1 cut(s) 787
HindII GTYRAC 1 cut(s) 787
HinfI GANTC 2 cut(s) 306, 631
HpaI GTTAAC 1 cut(s) 787
HpaII CCGG 2 cut(s) 21, 922
HphI GGTGA 2 cut(s) 481, 589
Hpy166II GTNNAC 4 cut(s) 241, 589, 658, 787
Hpy188I TCNGA 4 cut(s) 351, 512, 618, 899
Hpy188III TCNNGA 5 cut(s) 160, 184, 461, 560, 969
Hpy8I GTNNAC 4 cut(s) 241, 589, 658, 787
Hpy99I CGWCG 2 cut(s) 467, 488
HpyAV CCTTC 3 cut(s) 311, 568, 850
HpyCH4III ACNGT 5 cut(s) 340, 493, 583, 684, 782
HpyCH4IV ACGT 2 cut(s) 465, 486
HpyCH4V TGCA 9 cut(s) 89, 215, 318, 407, 612, 647, 689, 743, 957
HpySE526I ACGT 2 cut(s) 465, 486
Hsp92I GRCGYC 2 cut(s) 465, 486
Hsp92II CATG 9 cut(s) 172, 299, 545, 574, 641, 653, 706, 886, 957
Ksp22I TGATCA 1 cut(s) 132
KspAI GTTAAC 1 cut(s) 787
Kzo9I GATC 5 cut(s) 73, 132, 150, 476, 762
LmnI GCTCC 3 cut(s) 122, 371, 863
Lsp1109I GCAGC 1 cut(s) 337
LweI GCATC 2 cut(s) 416, 962
MabI ACCWGGT 1 cut(s) 103
MaeI CTAG 3 cut(s) 368, 711, 969
MaeII ACGT 2 cut(s) 465, 486
MaeIII GTNAC 7 cut(s) 67, 80, 251, 400, 466, 487, 577
MalI GATC 5 cut(s) 75, 134, 152, 478, 764
MbiI CCGCTC 1 cut(s) 374
MboI GATC 5 cut(s) 73, 132, 150, 476, 762
MboII GAAGA 3 cut(s) 237, 449, 727
MfeI CAATTG 3 cut(s) 216, 502, 690
MflI RGATCY 1 cut(s) 73
MhlI GDGCHC 2 cut(s) 868, 949
MluCI AATT 6 cut(s) 174, 216, 502, 690, 800, 893
MluI ACGCGT 1 cut(s) 255
MmeI TCCRAC 1 cut(s) 522
MnlI CCTC 4 cut(s) 156, 221, 442, 765
Mph1103I ATGCAT 1 cut(s) 91
MroXI GAANNNNTTC 1 cut(s) 361
MseI TTAA 4 cut(s) 92, 177, 717, 786
MslI CAYNNNNRTG 4 cut(s) 341, 546, 575, 642
MspI CCGG 2 cut(s) 21, 922
MspR9I CCNGG 4 cut(s) 22, 105, 518, 796
MunI CAATTG 3 cut(s) 216, 502, 690
Mva1269I GAATGC 1 cut(s) 627
MvaI CCWGG 3 cut(s) 105, 518, 796
MvnI CGCG 1 cut(s) 257
NciI CCSGG 1 cut(s) 22
NcoI CCATGG 1 cut(s) 637
NdeII GATC 5 cut(s) 73, 132, 150, 476, 762
NlaIII CATG 9 cut(s) 172, 299, 545, 574, 641, 653, 706, 886, 957
NlaIV GGNNCC 2 cut(s) 348, 865
NmeAIII GCCGAG 1 cut(s) 516
NmuCI GTSAC 4 cut(s) 80, 466, 487, 577
NsiI ATGCAT 1 cut(s) 91
NspI RCATGY 2 cut(s) 653, 957
NspV TTCGAA 1 cut(s) 304
PaeR7I CTCGAG 1 cut(s) 182
PciI ACATGT 1 cut(s) 649
PcsI WCGNNNNNNNCGW 1 cut(s) 329
PctI GAATGC 1 cut(s) 627
PdmI GAANNNNTTC 1 cut(s) 361
PfeI GAWTC 2 cut(s) 306, 631
PflFI GACNNNGTC 1 cut(s) 934
PflMI CCANNNNNTGG 1 cut(s) 504
PfoI TCCNGGA 1 cut(s) 794
PkrI GCNGC 1 cut(s) 327
PscI ACATGT 1 cut(s) 649
Psp6I CCWGG 3 cut(s) 103, 516, 794
PspFI CCCAGC 1 cut(s) 867
PspGI CCWGG 3 cut(s) 103, 516, 794
PspN4I GGNNCC 2 cut(s) 348, 865
PspPI GGNCC 2 cut(s) 347, 602
PsuI RGATCY 1 cut(s) 73
PsyI GACNNNGTC 1 cut(s) 934
RsaI GTAC 2 cut(s) 109, 668
RsaNI GTAC 2 cut(s) 108, 667
RseI CAYNNNNRTG 4 cut(s) 341, 546, 575, 642
SaqAI TTAA 4 cut(s) 92, 177, 717, 786
SatI GCNGC 1 cut(s) 326
Sau3AI GATC 5 cut(s) 73, 132, 150, 476, 762
Sau96I GGNCC 2 cut(s) 347, 602
ScrFI CCNGG 4 cut(s) 22, 105, 518, 796
SduI GDGCHC 2 cut(s) 868, 949
SexAI ACCWGGT 1 cut(s) 103
SfaNI GCATC 2 cut(s) 416, 962
SfcI CTRYAG 1 cut(s) 582
Sfr274I CTCGAG 1 cut(s) 182
SfuI TTCGAA 1 cut(s) 304
SinI GGWCC 2 cut(s) 347, 602
SlaI CTCGAG 1 cut(s) 182
SmiMI CAYNNNNRTG 4 cut(s) 341, 546, 575, 642
SmlI CTYRAG 2 cut(s) 182, 262
SmoI CTYRAG 2 cut(s) 182, 262
Sse9I AATT 6 cut(s) 174, 216, 502, 690, 800, 893
SsiI CCGC 1 cut(s) 374
SspMI CTAG 3 cut(s) 368, 711, 969
StyD4I CCNGG 4 cut(s) 20, 103, 516, 794
StyI CCWWGG 2 cut(s) 626, 637
TaaI ACNGT 5 cut(s) 340, 493, 583, 684, 782
TaiI ACGT 2 cut(s) 468, 489
TaqI TCGA 3 cut(s) 183, 304, 462
TasI AATT 6 cut(s) 174, 216, 502, 690, 800, 893
TatI WGTACW 1 cut(s) 666
TfiI GAWTC 2 cut(s) 306, 631
Tru1I TTAA 4 cut(s) 92, 177, 717, 786
Tru9I TTAA 4 cut(s) 92, 177, 717, 786
TscAI CASTG 4 cut(s) 85, 217, 320, 787
TseFI GTSAC 4 cut(s) 80, 466, 487, 577
TseI GCWGC 1 cut(s) 325
Tsp45I GTSAC 4 cut(s) 80, 466, 487, 577
TspDTI ATGAA 6 cut(s) 78, 185, 587, 719, 727, 832
TspRI CASTG 4 cut(s) 85, 217, 320, 787
Tth111I GACNNNGTC 1 cut(s) 934
Van91I CCANNNNNTGG 1 cut(s) 504
VpaK11BI GGWCC 2 cut(s) 347, 602
XapI RAATTY 2 cut(s) 800, 893
XbaI TCTAGA 1 cut(s) 968
XceI RCATGY 2 cut(s) 653, 957
XhoI CTCGAG 1 cut(s) 182
XmiI GTMKAC 1 cut(s) 588
XmnI GAANNNNTTC 1 cut(s) 361
XspI CTAG 3 cut(s) 368, 711, 969
ZraI GACGTC 2 cut(s) 466, 487
Zsp2I ATGCAT 1 cut(s) 91
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.