RLG00000012655

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0008200
Physical Location & Seq
Reverse (-)
20946194 .. 20950637
4444 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000012655

Sequence Viewer

Length: 963 bp
ATGCGGTTCTATATGACTCCACTGCTGCTTCTTTTGGCCTTGCTCGTAAGCGTAGTGGCTTCAATAGAGAATGACAAGCCTGTACAGTCAAGGTCTGTGGGACTAGAGGAGCCAAAAAGCTCCATTAACTCGTCAATGACAGAAAGGTCCAACGATGACTGGAATGAGCACGCAGTAGATAATCCGGAGGAGATCGCGTCCTTGGTTGATACGACCATTCGTAACAGTACTGCGAGAAGAAACTTGGGATTTTTCTCATGTGCAACAGGGAATCCCATTGATGACTGCTGGAGATGTGACCCACAATGGCAGCGCCACCGCAAGAGGCTAGCCAATTGCGGCATTGGGTTTGGGCGCAATGCCGTCGGCGGCCGTGATGGAAGGTACTACGTCGTAAATGACCCAGGTCATGATGACCCGGTGAACCCCCGGCTGGGTACCCTCCGTCACGCTGTCATCCAGGACAGGCCTTTGTGGATTGTGTTCAAGCGTGACATGGTGATCACATTGAAGCAGGAGCTTATAATGAACAGCTTCAAGACCATTGACGCTCGTGGAGTCAATGTCCACATTGCTTATGGAGGTTGCATTACTATTCAATACGTTACTAATGTGATCATCCATGGTCTACATATCCATGACTGCAAGCCTACTGGCAATGCCATGGTCCGCAGCTCACCGAGTCATTACGGGTGGAGGACCATGGCTGATGGGGATGGTATATCCATATTCGGAGCCAGCCACATTTGGGTCGACCACAACTCGCTCTCGAATTGCGCCGATGGCCTCATTGATGCTATCATGGGTTCTACTGCCATTACCATTTCTAACAACTACTTCACTCACCATAATGAGGTTATGCTGTTGGGGCACAGTGATTCCTACACAAGGGACAAGCAAATGCAAGTGACCATTGCCTACAATCATTTTGGGGAGGGACTCATCCAAAGAATGCCAAGGTAA
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

321

Amino Acids

35.86

Weight (kDa)

6.72

Isoelectric Point (pI)

41.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 177 - 319 3.3e-10 Pectate lyase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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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) 524
AasI GACNNNNNNGTC 1 cut(s) 145
Acc65I GGTACC 1 cut(s) 437
AccB1I GGYRCC 1 cut(s) 437
AccI GTMKAC 2 cut(s) 628, 753
AccII CGCG 1 cut(s) 197
AccIII TCCGGA 1 cut(s) 184
AciI CCGC 5 cut(s) 4, 319, 339, 369, 670
AcoI YGGCCR 1 cut(s) 370
AfaI GTAC 4 cut(s) 84, 229, 386, 439
AfiI CCNNNNNNNGG 5 cut(s) 433, 434, 748, 853, 888
AgsI TTSAA 5 cut(s) 63, 487, 511, 538, 599
AjnI CCWGG 2 cut(s) 403, 459
AluBI AGCT 4 cut(s) 120, 520, 534, 675
AluI AGCT 4 cut(s) 120, 520, 534, 675
Alw21I GWGCWC 1 cut(s) 171
Aor13HI TCCGGA 1 cut(s) 184
AoxI GGCC 4 cut(s) 36, 370, 467, 784
ApeKI GCWGC 3 cut(s) 25, 310, 672
Asp700I GAANNNNTTC 1 cut(s) 533
Asp718I GGTACC 1 cut(s) 437
AspLEI GCGC 3 cut(s) 315, 357, 779
AspS9I GGNCC 3 cut(s) 147, 667, 699
AsuC2I CCSGG 2 cut(s) 419, 430
AsuHPI GGTGA 4 cut(s) 433, 511, 669, 836
AsuNHI GCTAGC 1 cut(s) 328
AvaII GGWCC 3 cut(s) 147, 667, 699
BaeGI GKGCMC 1 cut(s) 873
BanI GGYRCC 1 cut(s) 437
BauI CACGAG 1 cut(s) 552
Bbv12I GWGCWC 1 cut(s) 171
BbvI GCAGC 3 cut(s) 12, 322, 684
BccI CCATC 4 cut(s) 371, 704, 710, 776
BceAI ACGGC 2 cut(s) 347, 357
BcgI CGANNNNNNTGC 2 cut(s) 346, 380
BciT130I CCWGG 2 cut(s) 405, 461
BclI TGATCA 2 cut(s) 501, 615
BcnI CCSGG 2 cut(s) 419, 430
BfaI CTAG 2 cut(s) 104, 329
BfoI RGCGCY 1 cut(s) 316
BisI GCNGC 5 cut(s) 26, 311, 340, 370, 673
BlsI GCNGC 5 cut(s) 27, 312, 341, 371, 674
BmcAI AGTACT 1 cut(s) 229
Bme1390I CCNGG 4 cut(s) 405, 419, 430, 461
Bme18I GGWCC 3 cut(s) 147, 667, 699
BmgT120I GGNCC 3 cut(s) 147, 667, 699
BmiI GGNNCC 3 cut(s) 111, 439, 736
BmrFI CCNGG 4 cut(s) 405, 419, 430, 461
BmsI GCATC 1 cut(s) 784
BmtI GCTAGC 1 cut(s) 332
BoxI GACNNNNGTC 1 cut(s) 405
BpmI CTGGAG 1 cut(s) 310
BpuMI CCSGG 2 cut(s) 419, 430
BsaJI CCNNGG 7 cut(s) 201, 403, 428, 622, 663, 702, 956
BsaWI WCCGGW 1 cut(s) 184
BsaXI ACNNNNNCTCC 4 cut(s) 182, 212, 549, 579
Bsc4I CCNNNNNNNGG 5 cut(s) 433, 434, 748, 853, 888
Bse1I ACTGG 2 cut(s) 164, 658
Bse3DI GCAATG 4 cut(s) 364, 570, 664, 912
BseAI TCCGGA 1 cut(s) 184
BseBI CCWGG 2 cut(s) 405, 461
BseDI CCNNGG 7 cut(s) 201, 403, 428, 622, 663, 702, 956
BseGI GGATG 4 cut(s) 456, 618, 721, 942
BseLI CCNNNNNNNGG 5 cut(s) 433, 434, 748, 853, 888
BseMI GCAATG 4 cut(s) 364, 570, 664, 912
BseNI ACTGG 2 cut(s) 164, 658
BseRI GAGGAG 2 cut(s) 122, 203
BseSI GKGCMC 1 cut(s) 873
BseX3I CGGCCG 1 cut(s) 370
BseXI GCAGC 3 cut(s) 12, 322, 684
BseYI CCCAGC 1 cut(s) 433
Bsh1236I CGCG 1 cut(s) 197
Bsh1285I CGRYCG 1 cut(s) 373
BshFI GGCC 4 cut(s) 38, 372, 469, 786
BshNI GGYRCC 1 cut(s) 437
BsiEI CGRYCG 1 cut(s) 373
BsiHKAI GWGCWC 1 cut(s) 171
BsiSI CCGG 3 cut(s) 185, 419, 430
BslFI GGGAC 3 cut(s) 114, 905, 951
BslI CCNNNNNNNGG 5 cut(s) 433, 434, 748, 853, 888
BsmFI GGGAC 3 cut(s) 114, 905, 951
BsmI GAATGC 1 cut(s) 957
BsnI GGCC 4 cut(s) 38, 372, 469, 786
Bsp1286I GDGCHC 2 cut(s) 171, 873
Bsp13I TCCGGA 1 cut(s) 184
Bsp1407I TGTACA 1 cut(s) 82
Bsp143I GATC 3 cut(s) 192, 501, 615
Bsp19I CCATGG 3 cut(s) 622, 663, 702
BspACI CCGC 5 cut(s) 4, 319, 339, 369, 670
BspANI GGCC 4 cut(s) 38, 372, 469, 786
BspEI TCCGGA 1 cut(s) 184
BspFNI CGCG 1 cut(s) 197
BspHI TCATGA 1 cut(s) 409
BspLI GGNNCC 3 cut(s) 111, 439, 736
BspOI GCTAGC 1 cut(s) 332
BspT107I GGYRCC 1 cut(s) 437
BsrDI GCAATG 4 cut(s) 364, 570, 664, 912
BsrGI TGTACA 1 cut(s) 82
BsrI ACTGG 2 cut(s) 164, 658
BssECI CCNNGG 7 cut(s) 201, 403, 428, 622, 663, 702, 956
BssMI GATC 3 cut(s) 192, 501, 615
BssSI CACGAG 1 cut(s) 552
BssT1I CCWWGG 5 cut(s) 201, 622, 663, 702, 956
Bst2BI CACGAG 1 cut(s) 552
Bst2UI CCWGG 2 cut(s) 405, 461
Bst4CI ACNGT 3 cut(s) 87, 227, 875
BstAUI TGTACA 1 cut(s) 82
BstC8I GCNNGC 4 cut(s) 171, 330, 647, 739
BstDSI CCRYGG 3 cut(s) 622, 663, 702
BstENI CCTNNNNNAGG 1 cut(s) 886
BstF5I GGATG 4 cut(s) 456, 618, 721, 942
BstFNI CGCG 1 cut(s) 197
BstH2I RGCGCY 1 cut(s) 316
BstHHI GCGC 3 cut(s) 315, 357, 779
BstKTI GATC 3 cut(s) 195, 504, 618
BstMBI GATC 3 cut(s) 192, 501, 615
BstMCI CGRYCG 1 cut(s) 373
BstMWI GCNNNNNNNGC 2 cut(s) 783, 868
BstNI CCWGG 2 cut(s) 405, 461
BstPAI GACNNNNGTC 1 cut(s) 405
BstSCI CCNGG 4 cut(s) 403, 417, 428, 459
BstSLI GKGCMC 1 cut(s) 873
BstUI CGCG 1 cut(s) 197
BstV1I GCAGC 3 cut(s) 12, 322, 684
BstZI CGGCCG 1 cut(s) 370
BsuRI GGCC 4 cut(s) 38, 372, 469, 786
BtgI CCRYGG 3 cut(s) 622, 663, 702
BtsCI GGATG 4 cut(s) 456, 618, 721, 942
BtsI GCAGTG 1 cut(s) 20
BtsIMutI CAGTG 2 cut(s) 20, 880
Cac8I GCNNGC 4 cut(s) 171, 330, 647, 739
CciI TCATGA 1 cut(s) 409
CfoI GCGC 3 cut(s) 315, 357, 779
Cfr13I GGNCC 3 cut(s) 147, 667, 699
CseI GACGC 2 cut(s) 186, 557
Csp6I GTAC 4 cut(s) 83, 228, 385, 438
CspCI CAANNNNNGTGG 2 cut(s) 78, 113
CviAII CATG 8 cut(s) 258, 410, 496, 623, 638, 664, 703, 802
CviQI GTAC 4 cut(s) 83, 228, 385, 438
DpnI GATC 3 cut(s) 194, 503, 617
DpnII GATC 3 cut(s) 192, 501, 615
DrdI GACNNNNNNGTC 1 cut(s) 145
DseDI GACNNNNNNGTC 1 cut(s) 145
EaeI YGGCCR 1 cut(s) 370
EagI CGGCCG 1 cut(s) 370
EclXI CGGCCG 1 cut(s) 370
Eco130I CCWWGG 5 cut(s) 201, 622, 663, 702, 956
Eco147I AGGCCT 1 cut(s) 469
Eco47I GGWCC 3 cut(s) 147, 667, 699
Eco52I CGGCCG 1 cut(s) 370
EcoNI CCTNNNNNAGG 1 cut(s) 886
EcoRII CCWGG 2 cut(s) 403, 459
EcoT14I CCWWGG 5 cut(s) 201, 622, 663, 702, 956
ErhI CCWWGG 5 cut(s) 201, 622, 663, 702, 956
FaeI CATG 8 cut(s) 261, 413, 499, 626, 641, 667, 706, 805
FaqI GGGAC 3 cut(s) 114, 905, 951
FatI CATG 8 cut(s) 257, 409, 495, 622, 637, 663, 702, 801
FbaI TGATCA 2 cut(s) 501, 615
FblI GTMKAC 2 cut(s) 628, 753
Fnu4HI GCNGC 5 cut(s) 26, 311, 340, 370, 673
FokI GGATG 4 cut(s) 443, 605, 728, 929
Fsp4HI GCNGC 5 cut(s) 26, 311, 340, 370, 673
FspBI CTAG 2 cut(s) 104, 329
GlaI GCGC 3 cut(s) 314, 356, 778
GluI GCNGC 5 cut(s) 26, 311, 340, 370, 673
GsaI CCCAGC 1 cut(s) 437
GsuI CTGGAG 1 cut(s) 310
HaeII RGCGCY 1 cut(s) 316
HaeIII GGCC 4 cut(s) 38, 372, 469, 786
HapII CCGG 3 cut(s) 185, 419, 430
HgaI GACGC 2 cut(s) 186, 557
HhaI GCGC 3 cut(s) 315, 357, 779
Hin1II CATG 8 cut(s) 261, 413, 499, 626, 641, 667, 706, 805
Hin6I GCGC 3 cut(s) 313, 355, 777
HinP1I GCGC 3 cut(s) 313, 355, 777
HincII GTYRAC 1 cut(s) 754
HindII GTYRAC 1 cut(s) 754
HinfI GANTC 6 cut(s) 16, 271, 558, 682, 878, 939
HpaII CCGG 3 cut(s) 185, 419, 430
HphI GGTGA 4 cut(s) 433, 511, 669, 836
Hpy166II GTNNAC 4 cut(s) 424, 568, 629, 754
Hpy188I TCNGA 1 cut(s) 734
Hpy188III TCNNGA 4 cut(s) 185, 410, 538, 769
Hpy8I GTNNAC 4 cut(s) 424, 568, 629, 754
Hpy99I CGWCG 2 cut(s) 368, 395
HpyAV CCTTC 1 cut(s) 375
HpyCH4III ACNGT 3 cut(s) 87, 227, 875
HpyCH4IV ACGT 2 cut(s) 390, 603
HpyCH4V TGCA 4 cut(s) 263, 588, 645, 904
HpyF10VI GCNNNNNNNGC 2 cut(s) 783, 868
HpySE526I ACGT 2 cut(s) 390, 603
Hsp92II CATG 8 cut(s) 261, 413, 499, 626, 641, 667, 706, 805
HspAI GCGC 3 cut(s) 313, 355, 777
Kpn2I TCCGGA 1 cut(s) 184
KpnI GGTACC 1 cut(s) 441
Ksp22I TGATCA 2 cut(s) 501, 615
Kzo9I GATC 3 cut(s) 192, 501, 615
LmnI GCTCC 4 cut(s) 109, 125, 517, 734
Lsp1109I GCAGC 3 cut(s) 12, 322, 684
LweI GCATC 1 cut(s) 784
MaeI CTAG 2 cut(s) 104, 329
MaeII ACGT 2 cut(s) 390, 603
MaeIII GTNAC 6 cut(s) 221, 296, 446, 491, 604, 907
MalI GATC 3 cut(s) 194, 503, 617
MboI GATC 3 cut(s) 192, 501, 615
MboII GAAGA 1 cut(s) 249
MfeI CAATTG 1 cut(s) 334
MhlI GDGCHC 2 cut(s) 171, 873
MluCI AATT 2 cut(s) 334, 772
MlyI GAGTC 4 cut(s) 10, 567, 691, 933
MmeI TCCRAC 1 cut(s) 174
MnlI CCTC 9 cut(s) 100, 181, 318, 452, 575, 690, 797, 847, 928
MroI TCCGGA 1 cut(s) 184
MroXI GAANNNNTTC 1 cut(s) 533
MseI TTAA 1 cut(s) 126
MslI CAYNNNNRTG 2 cut(s) 636, 849
MspI CCGG 3 cut(s) 185, 419, 430
MspR9I CCNGG 4 cut(s) 405, 419, 430, 461
MunI CAATTG 1 cut(s) 334
Mva1269I GAATGC 1 cut(s) 957
MvaI CCWGG 2 cut(s) 405, 461
MvnI CGCG 1 cut(s) 197
MwoI GCNNNNNNNGC 2 cut(s) 783, 868
NciI CCSGG 2 cut(s) 419, 430
NcoI CCATGG 3 cut(s) 622, 663, 702
NdeII GATC 3 cut(s) 192, 501, 615
NheI GCTAGC 1 cut(s) 328
NlaIII CATG 8 cut(s) 261, 413, 499, 626, 641, 667, 706, 805
NlaIV GGNNCC 3 cut(s) 111, 439, 736
NmuCI GTSAC 4 cut(s) 296, 446, 491, 907
PagI TCATGA 1 cut(s) 409
PceI AGGCCT 1 cut(s) 469
PctI GAATGC 1 cut(s) 957
PdmI GAANNNNTTC 1 cut(s) 533
PfeI GAWTC 2 cut(s) 271, 878
PfoI TCCNGGA 1 cut(s) 459
PkrI GCNGC 5 cut(s) 27, 312, 341, 371, 674
PleI GAGTC 4 cut(s) 10, 566, 690, 933
PpsI GAGTC 4 cut(s) 10, 566, 690, 933
PshAI GACNNNNGTC 1 cut(s) 405
PsiI TTATAA 1 cut(s) 524
Psp6I CCWGG 2 cut(s) 403, 459
PspFI CCCAGC 1 cut(s) 433
PspGI CCWGG 2 cut(s) 403, 459
PspN4I GGNNCC 3 cut(s) 111, 439, 736
PspPI GGNCC 3 cut(s) 147, 667, 699
RsaI GTAC 4 cut(s) 84, 229, 386, 439
RsaNI GTAC 4 cut(s) 83, 228, 385, 438
RseI CAYNNNNRTG 2 cut(s) 636, 849
SalI GTCGAC 1 cut(s) 752
SaqAI TTAA 1 cut(s) 126
SatI GCNGC 5 cut(s) 26, 311, 340, 370, 673
Sau3AI GATC 3 cut(s) 192, 501, 615
Sau96I GGNCC 3 cut(s) 147, 667, 699
ScaI AGTACT 1 cut(s) 229
SchI GAGTC 4 cut(s) 10, 567, 691, 933
ScrFI CCNGG 4 cut(s) 405, 419, 430, 461
SduI GDGCHC 2 cut(s) 171, 873
SfaNI GCATC 1 cut(s) 784
SinI GGWCC 3 cut(s) 147, 667, 699
SmiMI CAYNNNNRTG 2 cut(s) 636, 849
Sse9I AATT 2 cut(s) 334, 772
SseBI AGGCCT 1 cut(s) 469
SsiI CCGC 5 cut(s) 4, 319, 339, 369, 670
SspMI CTAG 2 cut(s) 104, 329
StuI AGGCCT 1 cut(s) 469
StyD4I CCNGG 4 cut(s) 403, 417, 428, 459
StyI CCWWGG 5 cut(s) 201, 622, 663, 702, 956
TaaI ACNGT 3 cut(s) 87, 227, 875
TaiI ACGT 2 cut(s) 393, 606
TaqI TCGA 2 cut(s) 753, 770
TasI AATT 2 cut(s) 334, 772
TatI WGTACW 2 cut(s) 82, 227
TauI GCSGC 2 cut(s) 342, 372
TfiI GAWTC 2 cut(s) 271, 878
Tru1I TTAA 1 cut(s) 126
Tru9I TTAA 1 cut(s) 126
TscAI CASTG 2 cut(s) 27, 880
TseFI GTSAC 4 cut(s) 296, 446, 491, 907
TseI GCWGC 3 cut(s) 25, 310, 672
Tsp45I GTSAC 4 cut(s) 296, 446, 491, 907
TspDTI ATGAA 1 cut(s) 542
TspGWI ACGGA 1 cut(s) 434
TspRI CASTG 2 cut(s) 27, 880
VpaK11BI GGWCC 3 cut(s) 147, 667, 699
XagI CCTNNNNNAGG 1 cut(s) 886
XcmI CCANNNNNNNNNTGG 1 cut(s) 575
XmiI GTMKAC 2 cut(s) 628, 753
XmnI GAANNNNTTC 1 cut(s) 533
XspI CTAG 2 cut(s) 104, 329
ZrmI AGTACT 1 cut(s) 229
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.