Rorug04G0256800

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0013798
Physical Location & Seq
Forward (+)
42921746 .. 42922601
856 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0256800.1

Sequence Viewer

Length: 810 bp
ATGGCGTCTCTCTCAACGACAAGGAATGAGGTTTTTTCTTCTTTGGCAAAGATAAGGAACAAGGTTAGAAAGCGTAGGTCAAGAAAGGAAGGTCATAACGTTTCGGCCATGAAGTCACTTCCCAACGATCTTTTGTTGGAAGTGATTGCTAAGGTTGCTTCGAATTCTTTCGATGATCTTTGCCGCATTAGGCAAACTTGCAAGGAGTTTAAAGAGGCGGGGCAAGAGGACTATATTTTTCAACATGTATCGATCGAAAAGTTTCCACTCTTTCCTTTGAGAAAAAGGAAACGATTTTCTGAATTAATGAGACGTTGCCAAAAGTGTGGCAATGCAGAGGCTCTGTATAGACAAGGAGTGCTTGATCTTTTTAGCTTGAGGAAGCGATATGAATTCGAATCGGGATTCGAGTGTTTGGAGAAAGCTGCAGCAAAAGGTCACATAGAAGCAACGTATCTTTATGGGGTATTCTTAACTTGTGTAGGAGGTGAGGCGAAGCAACAAGGTCTACAATCCTTGTGTAGTCTCAATGGTAAAAATTTAAGTGAATCAAGAGAAAGGTTTATGACTTACATTCAAAGTATGTGGGTGAATAATGTCCTAGTACGTAAAATACTTGCCTACAATGATCGTGTTAAAGCATGCAGCCAATGCGGAAATTTGCAGAATAATTTCGTAACCAAACGAGGCTGGGACGATGTTTACGACGAAGGTGATAACTTAAATGGGTGTGGTTCATGCAAGATGAATAGAGAAGTTAATATTTTTTGTGATAGATTACGTAGCTCTACATATGTCAATTCATTGTGA
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

269

Amino Acids

30.93

Weight (kDa)

9.36

Isoelectric Point (pI)

54.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_27 PF23310 87 - 192 1.4e-27 Plant tetratrico peptide repeats
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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Orthologous Genes (Group: OG0013798)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G67750
fragaria_vesca FvH4_4g25110
malus_domestica MD13G1106200.v1.1 MD16G1106400.v1.1
prunus_persica Prupe.1G239900_v2.0.a1 Prupe.1G239900_v2.0.a1
pyrus_communis pycom13g09220 pycom16g09060
rosa_chinensis RchiOBHm_Chr4g0432291
rosa_laevigata RLG00000006855
rosa_multiflora Rmu_sc0001084.1_g000044
rosa_roxburghii Rroxscaffold_5G00373750
rosa_rugosa Rorug04G0256800
rosa_samantha Rh4BG320700 Rh4CG335900 Rh4DG316200
rosa_wichuraiana Rw4G027220

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 508
AciI CCGC 3 cut(s) 184, 218, 654
AclI AACGTT 1 cut(s) 99
AcoI YGGCCR 1 cut(s) 105
AcsI RAATTY 4 cut(s) 163, 392, 538, 658
AcyI GRCGYC 1 cut(s) 5
AfaI GTAC 1 cut(s) 606
AflIII ACRYGT 1 cut(s) 244
AgsI TTSAA 2 cut(s) 242, 578
AluBI AGCT 3 cut(s) 375, 425, 786
AluI AGCT 3 cut(s) 375, 425, 786
Alw26I GTCTC 3 cut(s) 12, 304, 530
AoxI GGCC 1 cut(s) 105
ApeKI GCWGC 3 cut(s) 425, 428, 645
ApoI RAATTY 4 cut(s) 163, 392, 538, 658
AseI ATTAAT 1 cut(s) 305
Asp700I GAANNNNTTC 3 cut(s) 167, 261, 671
AsuHPI GGTGA 3 cut(s) 500, 601, 725
AsuII TTCGAA 2 cut(s) 161, 396
BbvI GCAGC 3 cut(s) 412, 440, 657
BcoDI GTCTC 3 cut(s) 12, 304, 530
BfaI CTAG 1 cut(s) 602
BfmI CTRYAG 1 cut(s) 426
BisI GCNGC 4 cut(s) 184, 426, 429, 646
BlsI GCNGC 4 cut(s) 185, 427, 430, 647
Bpu10I CCTNAGC 1 cut(s) 150
Bpu14I TTCGAA 2 cut(s) 161, 396
BpuEI CTTGAG 1 cut(s) 397
Bsa29I ATCGAT 1 cut(s) 251
BsaAI YACGTR 2 cut(s) 608, 782
BsaHI GRCGYC 1 cut(s) 5
Bse3DI GCAATG 1 cut(s) 337
BseCI ATCGAT 1 cut(s) 251
BseMI GCAATG 1 cut(s) 337
BseXI GCAGC 3 cut(s) 412, 440, 657
BseYI CCCAGC 1 cut(s) 690
Bsh1285I CGRYCG 1 cut(s) 255
BshFI GGCC 1 cut(s) 107
BshVI ATCGAT 1 cut(s) 251
BsiEI CGRYCG 1 cut(s) 255
BslFI GGGAC 1 cut(s) 707
BsmAI GTCTC 3 cut(s) 12, 304, 530
BsmBI CGTCTC 2 cut(s) 12, 304
BsmFI GGGAC 1 cut(s) 707
BsnI GGCC 1 cut(s) 107
Bsp119I TTCGAA 2 cut(s) 161, 396
Bsp143I GATC 5 cut(s) 127, 175, 252, 364, 628
BspACI CCGC 3 cut(s) 184, 218, 654
BspANI GGCC 1 cut(s) 107
BspDI ATCGAT 1 cut(s) 251
BspMAI CTGCAG 1 cut(s) 430
BspT104I TTCGAA 2 cut(s) 161, 396
BsrDI GCAATG 1 cut(s) 337
BssMI GATC 5 cut(s) 127, 175, 252, 364, 628
BssNI GRCGYC 1 cut(s) 5
BstACI GRCGYC 1 cut(s) 5
BstAPI GCANNNNNTGC 1 cut(s) 651
BstBAI YACGTR 2 cut(s) 608, 782
BstBI TTCGAA 2 cut(s) 161, 396
BstC8I GCNNGC 1 cut(s) 643
BstDEI CTNAG 1 cut(s) 150
BstKTI GATC 5 cut(s) 130, 178, 255, 367, 631
BstMAI GTCTC 3 cut(s) 12, 304, 530
BstMBI GATC 5 cut(s) 127, 175, 252, 364, 628
BstMCI CGRYCG 1 cut(s) 255
BstMWI GCNNNNNNNGC 2 cut(s) 155, 651
BstNSI RCATGY 2 cut(s) 248, 645
BstSFI CTRYAG 1 cut(s) 426
BstSNI TACGTA 2 cut(s) 608, 782
BstV1I GCAGC 3 cut(s) 412, 440, 657
BstXI CCANNNNNNTGG 1 cut(s) 326
Bsu15I ATCGAT 1 cut(s) 251
BsuRI GGCC 1 cut(s) 107
BsuTUI ATCGAT 1 cut(s) 251
Cac8I GCNNGC 1 cut(s) 643
ClaI ATCGAT 1 cut(s) 251
Csp6I GTAC 1 cut(s) 605
CspCI CAANNNNNGTGG 2 cut(s) 566, 601
CviAII CATG 4 cut(s) 109, 245, 642, 738
CviJI RGCY 7 cut(s) 107, 341, 375, 425, 648, 690, 786
CviKI_1 RGCY 7 cut(s) 107, 341, 375, 425, 648, 690, 786
CviQI GTAC 1 cut(s) 605
DdeI CTNAG 1 cut(s) 150
DpnI GATC 5 cut(s) 129, 177, 254, 366, 630
DpnII GATC 5 cut(s) 127, 175, 252, 364, 628
DraI TTTAAA 1 cut(s) 211
EaeI YGGCCR 1 cut(s) 105
Eco105I TACGTA 2 cut(s) 608, 782
EcoRI GAATTC 2 cut(s) 163, 392
Esp3I CGTCTC 2 cut(s) 12, 304
FaeI CATG 4 cut(s) 112, 248, 645, 741
FalI AAGNNNNNCTT 2 cut(s) 345, 377
FaqI GGGAC 1 cut(s) 707
FatI CATG 4 cut(s) 108, 244, 641, 737
FauI CCCGC 1 cut(s) 211
FauNDI CATATG 1 cut(s) 793
FblI GTMKAC 1 cut(s) 508
Fnu4HI GCNGC 4 cut(s) 184, 426, 429, 646
Fsp4HI GCNGC 4 cut(s) 184, 426, 429, 646
FspBI CTAG 1 cut(s) 602
GluI GCNGC 4 cut(s) 184, 426, 429, 646
GsaI CCCAGC 1 cut(s) 694
HaeIII GGCC 1 cut(s) 107
Hin1I GRCGYC 1 cut(s) 5
Hin1II CATG 4 cut(s) 112, 248, 645, 741
HinfI GANTC 3 cut(s) 398, 405, 548
HphI GGTGA 3 cut(s) 500, 601, 725
Hpy166II GTNNAC 2 cut(s) 509, 703
Hpy188I TCNGA 1 cut(s) 301
Hpy188III TCNNGA 3 cut(s) 81, 402, 552
Hpy8I GTNNAC 2 cut(s) 509, 703
Hpy99I CGWCG 1 cut(s) 710
HpyAV CCTTC 2 cut(s) 83, 704
HpyCH4IV ACGT 5 cut(s) 99, 313, 452, 607, 781
HpyCH4V TGCA 6 cut(s) 201, 335, 428, 645, 664, 741
HpyF10VI GCNNNNNNNGC 2 cut(s) 155, 651
HpyF3I CTNAG 1 cut(s) 150
HpySE526I ACGT 5 cut(s) 99, 313, 452, 607, 781
Hsp92I GRCGYC 1 cut(s) 5
Hsp92II CATG 4 cut(s) 112, 248, 645, 741
Kzo9I GATC 5 cut(s) 127, 175, 252, 364, 628
LpnPI CCDG 1 cut(s) 676
Lsp1109I GCAGC 3 cut(s) 412, 440, 657
MaeI CTAG 1 cut(s) 602
MaeII ACGT 5 cut(s) 99, 313, 452, 607, 781
MaeIII GTNAC 3 cut(s) 114, 437, 676
MalI GATC 5 cut(s) 129, 177, 254, 366, 630
MboI GATC 5 cut(s) 127, 175, 252, 364, 628
MboII GAAGA 1 cut(s) 30
MluCI AATT 7 cut(s) 163, 302, 392, 538, 658, 670, 799
MmeI TCCRAC 1 cut(s) 117
MnlI CCTC 8 cut(s) 22, 208, 220, 331, 372, 479, 484, 680
MroXI GAANNNNTTC 3 cut(s) 167, 261, 671
MseI TTAA 7 cut(s) 210, 305, 473, 542, 636, 722, 759
MwoI GCNNNNNNNGC 2 cut(s) 155, 651
NdeI CATATG 1 cut(s) 793
NdeII GATC 5 cut(s) 127, 175, 252, 364, 628
NlaIII CATG 4 cut(s) 112, 248, 645, 741
NmuCI GTSAC 2 cut(s) 114, 437
NspI RCATGY 2 cut(s) 248, 645
NspV TTCGAA 2 cut(s) 161, 396
PaeI GCATGC 1 cut(s) 645
PciI ACATGT 1 cut(s) 244
PcsI WCGNNNNNNNCGW 1 cut(s) 702
PdmI GAANNNNTTC 3 cut(s) 167, 261, 671
PfeI GAWTC 3 cut(s) 398, 405, 548
PkrI GCNGC 4 cut(s) 185, 427, 430, 647
Ple19I CGATCG 1 cut(s) 255
Ppu21I YACGTR 2 cut(s) 608, 782
PscI ACATGT 1 cut(s) 244
PshBI ATTAAT 1 cut(s) 305
Psp1406I AACGTT 1 cut(s) 99
PspFI CCCAGC 1 cut(s) 690
PstI CTGCAG 1 cut(s) 430
PvuI CGATCG 1 cut(s) 255
RsaI GTAC 1 cut(s) 606
RsaNI GTAC 1 cut(s) 605
SaqAI TTAA 7 cut(s) 210, 305, 473, 542, 636, 722, 759
SatI GCNGC 4 cut(s) 184, 426, 429, 646
Sau3AI GATC 5 cut(s) 127, 175, 252, 364, 628
SfcI CTRYAG 1 cut(s) 426
SfuI TTCGAA 2 cut(s) 161, 396
SmlI CTYRAG 1 cut(s) 376
SmoI CTYRAG 1 cut(s) 376
SnaBI TACGTA 2 cut(s) 608, 782
SphI GCATGC 1 cut(s) 645
Sse9I AATT 7 cut(s) 163, 302, 392, 538, 658, 670, 799
SsiI CCGC 3 cut(s) 184, 218, 654
SspI AATATT 1 cut(s) 763
SspMI CTAG 1 cut(s) 602
TaiI ACGT 5 cut(s) 102, 316, 455, 610, 784
TaqI TCGA 6 cut(s) 161, 171, 251, 255, 396, 408
TasI AATT 7 cut(s) 163, 302, 392, 538, 658, 670, 799
TauI GCSGC 1 cut(s) 186
TfiI GAWTC 3 cut(s) 398, 405, 548
Tru1I TTAA 7 cut(s) 210, 305, 473, 542, 636, 722, 759
Tru9I TTAA 7 cut(s) 210, 305, 473, 542, 636, 722, 759
TseFI GTSAC 2 cut(s) 114, 437
TseI GCWGC 3 cut(s) 425, 428, 645
Tsp45I GTSAC 2 cut(s) 114, 437
TspDTI ATGAA 5 cut(s) 125, 405, 726, 761, 792
VspI ATTAAT 1 cut(s) 305
XapI RAATTY 4 cut(s) 163, 392, 538, 658
XceI RCATGY 2 cut(s) 248, 645
XmiI GTMKAC 1 cut(s) 508
XmnI GAANNNNTTC 3 cut(s) 167, 261, 671
XspI CTAG 1 cut(s) 602
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.