Rh6BG284900

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0008200
Physical Location & Seq
Forward (+)
50909860 .. 50921903
12044 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG284900.1

Sequence Viewer

Length: 993 bp
ATGAGATTAGCTAGCTCGAGAGCCACAATGCGGTTCTATATGACTCCACTGCTGCTTCTTTTGGCCTTGCTCGTAAGCGTAGCGGCTTCAATAGAGAATGACAAGCCTTTACAGTCAAGGTCCGTGGGACTAGAGGAGCCAAAAAACTCCATCAACTCGTCAATGTCGACAGAAAGGTCCAACGATGACTGGAATGAGCACGCAGTAGATAATCCGGAGGAGATCGCGTCCTTGGTTGATACGACCATTCGTAACAGTACTGCGAGAAGAAACTTGGGATTTTTCTCATGCGCAACAGGGAATCCCATTGATGACTGCTGGAGATGTGACCCACAATGGCAGCGCCACCGCAAGAGGCTAGCCAATTGCGGCATTGGGTTCGGGCGCAACGCCGTAGGCGGCCGTGACGGAAGGTATTACGTTGTAAATGACCCCGGTCATGATGATCCGGTGAACCCCAGGCCGGGTACCCTCCGTCACGCTGTCATCCAGGACAGGCCTTTGTGGATTGTGTTCAAGCGTGATATGGTGATCACATTGAAGCAGGAGCTTATAATGAACAGCTTCAAGACCATTGACGCTCGTGGAGTCAATGTCCACATTGCTTATGGAGGTTGCATTACTATTCAATACGTTACTAATGTGATCATCCATGGTCTACATATCCATGACTGCAAGCCTACCGGCAATGCCATGGTCCAGAGCTCACCGAGTCATTATGGGTGGAGGACCATGGCTGATGGGGATGGTATATCCATTTTCGGAGCCAGCCACATTTGGGTCGACCACAACTCGCTCTCGAATTGCGCCGATGGCCTCATTGATGCTATCATGGGTTCTACTGCCATTACCATTTCTAACAACTACTTCACTCACCATAATGAGGTTATGTTGTTGGGGCACAGTGATTCCTACACAAGGGACAAGCAAATGCAAGTGACCATTGCCTACAATCATTTTGGTGAGGGACTCATCCAAAGAATGCCAAGGTAA
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

330

Amino Acids

36.89

Weight (kDa)

6.94

Isoelectric Point (pI)

43.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 187 - 329 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) 554
AasI GACNNNNNNGTC 1 cut(s) 175
Acc16I TGCGCA 1 cut(s) 292
Acc65I GGTACC 1 cut(s) 467
AccB1I GGYRCC 1 cut(s) 467
AccI GTMKAC 3 cut(s) 167, 658, 783
AccII CGCG 1 cut(s) 227
AccIII TCCGGA 1 cut(s) 214
AciI CCGC 5 cut(s) 31, 83, 349, 369, 399
AclWI GGATC 1 cut(s) 440
AcoI YGGCCR 1 cut(s) 400
AfaI GTAC 2 cut(s) 259, 469
AfiI CCNNNNNNNGG 6 cut(s) 30, 463, 464, 778, 883, 918
AgsI TTSAA 5 cut(s) 90, 517, 541, 568, 629
AjnI CCWGG 2 cut(s) 458, 489
AluBI AGCT 5 cut(s) 11, 15, 550, 564, 705
AluI AGCT 5 cut(s) 11, 15, 550, 564, 705
Alw21I GWGCWC 2 cut(s) 201, 707
AlwI GGATC 1 cut(s) 440
Ama87I CYCGRG 1 cut(s) 16
Aor13HI TCCGGA 1 cut(s) 214
AoxI GGCC 5 cut(s) 63, 400, 461, 497, 814
ApeKI GCWGC 2 cut(s) 52, 340
Asp700I GAANNNNTTC 1 cut(s) 563
Asp718I GGTACC 1 cut(s) 467
AspLEI GCGC 4 cut(s) 293, 345, 387, 809
AspS9I GGNCC 4 cut(s) 120, 177, 697, 729
AsuC2I CCSGG 2 cut(s) 435, 465
AsuHPI GGTGA 5 cut(s) 463, 541, 699, 866, 974
AsuNHI GCTAGC 2 cut(s) 11, 358
AvaI CYCGRG 1 cut(s) 16
AvaII GGWCC 4 cut(s) 120, 177, 697, 729
BaeGI GKGCMC 1 cut(s) 903
BanI GGYRCC 1 cut(s) 467
BanII GRGCYC 1 cut(s) 707
BauI CACGAG 1 cut(s) 582
Bbv12I GWGCWC 2 cut(s) 201, 707
BbvI GCAGC 2 cut(s) 39, 352
BccI CCATC 4 cut(s) 158, 734, 740, 806
BceAI ACGGC 2 cut(s) 377, 387
BcgI CGANNNNNNTGC 2 cut(s) 361, 395
BciT130I CCWGG 2 cut(s) 460, 491
BclI TGATCA 2 cut(s) 531, 645
BcnI CCSGG 2 cut(s) 435, 465
BfaI CTAG 3 cut(s) 12, 131, 359
BfoI RGCGCY 1 cut(s) 346
BisI GCNGC 5 cut(s) 53, 84, 341, 370, 400
BlsI GCNGC 5 cut(s) 54, 85, 342, 371, 401
BmcAI AGTACT 1 cut(s) 259
Bme1390I CCNGG 4 cut(s) 435, 460, 465, 491
Bme18I GGWCC 4 cut(s) 120, 177, 697, 729
BmeT110I CYCGRG 1 cut(s) 16
BmgT120I GGNCC 4 cut(s) 120, 177, 697, 729
BmiI GGNNCC 3 cut(s) 138, 469, 766
BmrFI CCNGG 4 cut(s) 435, 460, 465, 491
BmsI GCATC 1 cut(s) 814
BmtI GCTAGC 2 cut(s) 15, 362
BoxI GACNNNNGTC 1 cut(s) 435
BpmI CTGGAG 1 cut(s) 340
BpuMI CCSGG 2 cut(s) 435, 465
BsaJI CCNNGG 8 cut(s) 123, 231, 433, 458, 652, 693, 732, 986
BsaWI WCCGGW 2 cut(s) 214, 448
BsaXI ACNNNNNCTCC 4 cut(s) 212, 242, 579, 609
Bsc4I CCNNNNNNNGG 6 cut(s) 30, 463, 464, 778, 883, 918
Bse118I RCCGGY 1 cut(s) 683
Bse1I ACTGG 1 cut(s) 194
Bse3DI GCAATG 3 cut(s) 600, 694, 942
BseAI TCCGGA 1 cut(s) 214
BseBI CCWGG 2 cut(s) 460, 491
BseDI CCNNGG 8 cut(s) 123, 231, 433, 458, 652, 693, 732, 986
BseGI GGATG 4 cut(s) 486, 648, 751, 972
BseLI CCNNNNNNNGG 6 cut(s) 30, 463, 464, 778, 883, 918
BseMI GCAATG 3 cut(s) 600, 694, 942
BseNI ACTGG 1 cut(s) 194
BseRI GAGGAG 2 cut(s) 149, 233
BseSI GKGCMC 1 cut(s) 903
BseX3I CGGCCG 1 cut(s) 400
BseXI GCAGC 2 cut(s) 39, 352
Bsh1236I CGCG 1 cut(s) 227
Bsh1285I CGRYCG 1 cut(s) 403
BshFI GGCC 5 cut(s) 65, 402, 463, 499, 816
BshNI GGYRCC 1 cut(s) 467
BsiEI CGRYCG 1 cut(s) 403
BsiHKAI GWGCWC 2 cut(s) 201, 707
BsiHKCI CYCGRG 1 cut(s) 16
BsiSI CCGG 5 cut(s) 215, 435, 449, 464, 684
BslFI GGGAC 3 cut(s) 141, 935, 981
BslI CCNNNNNNNGG 6 cut(s) 30, 463, 464, 778, 883, 918
BsmFI GGGAC 3 cut(s) 141, 935, 981
BsmI GAATGC 1 cut(s) 987
BsnI GGCC 5 cut(s) 65, 402, 463, 499, 816
BsoBI CYCGRG 1 cut(s) 16
Bsp1286I GDGCHC 3 cut(s) 201, 707, 903
Bsp13I TCCGGA 1 cut(s) 214
Bsp143I GATC 4 cut(s) 222, 445, 531, 645
Bsp19I CCATGG 3 cut(s) 652, 693, 732
BspACI CCGC 5 cut(s) 31, 83, 349, 369, 399
BspANI GGCC 5 cut(s) 65, 402, 463, 499, 816
BspEI TCCGGA 1 cut(s) 214
BspFNI CGCG 1 cut(s) 227
BspHI TCATGA 1 cut(s) 439
BspLI GGNNCC 3 cut(s) 138, 469, 766
BspOI GCTAGC 2 cut(s) 15, 362
BspPI GGATC 1 cut(s) 440
BspT107I GGYRCC 1 cut(s) 467
BsrDI GCAATG 3 cut(s) 600, 694, 942
BsrFI RCCGGY 1 cut(s) 683
BsrI ACTGG 1 cut(s) 194
BssAI RCCGGY 1 cut(s) 683
BssECI CCNNGG 8 cut(s) 123, 231, 433, 458, 652, 693, 732, 986
BssMI GATC 4 cut(s) 222, 445, 531, 645
BssSI CACGAG 1 cut(s) 582
BssT1I CCWWGG 5 cut(s) 231, 652, 693, 732, 986
Bst2BI CACGAG 1 cut(s) 582
Bst2UI CCWGG 2 cut(s) 460, 491
Bst4CI ACNGT 3 cut(s) 114, 257, 905
BstC8I GCNNGC 5 cut(s) 13, 201, 360, 677, 769
BstDSI CCRYGG 4 cut(s) 123, 652, 693, 732
BstENI CCTNNNNNAGG 1 cut(s) 916
BstF5I GGATG 4 cut(s) 486, 648, 751, 972
BstFNI CGCG 1 cut(s) 227
BstH2I RGCGCY 1 cut(s) 346
BstHHI GCGC 4 cut(s) 293, 345, 387, 809
BstKTI GATC 4 cut(s) 225, 448, 534, 648
BstMBI GATC 4 cut(s) 222, 445, 531, 645
BstMCI CGRYCG 1 cut(s) 403
BstMWI GCNNNNNNNGC 1 cut(s) 813
BstNI CCWGG 2 cut(s) 460, 491
BstPAI GACNNNNGTC 1 cut(s) 435
BstSCI CCNGG 4 cut(s) 433, 458, 463, 489
BstSLI GKGCMC 1 cut(s) 903
BstUI CGCG 1 cut(s) 227
BstV1I GCAGC 2 cut(s) 39, 352
BstZI CGGCCG 1 cut(s) 400
BsuRI GGCC 5 cut(s) 65, 402, 463, 499, 816
BtgI CCRYGG 4 cut(s) 123, 652, 693, 732
BtsCI GGATG 4 cut(s) 486, 648, 751, 972
BtsI GCAGTG 1 cut(s) 47
BtsIMutI CAGTG 2 cut(s) 47, 910
Cac8I GCNNGC 5 cut(s) 13, 201, 360, 677, 769
CciI TCATGA 1 cut(s) 439
CfoI GCGC 4 cut(s) 293, 345, 387, 809
Cfr10I RCCGGY 1 cut(s) 683
Cfr13I GGNCC 4 cut(s) 120, 177, 697, 729
CseI GACGC 2 cut(s) 216, 587
Csp6I GTAC 2 cut(s) 258, 468
CspCI CAANNNNNGTGG 2 cut(s) 105, 140
CviAII CATG 7 cut(s) 288, 440, 653, 668, 694, 733, 832
CviQI GTAC 2 cut(s) 258, 468
DpnI GATC 4 cut(s) 224, 447, 533, 647
DpnII GATC 4 cut(s) 222, 445, 531, 645
DrdI GACNNNNNNGTC 1 cut(s) 175
DseDI GACNNNNNNGTC 1 cut(s) 175
EaeI YGGCCR 1 cut(s) 400
EagI CGGCCG 1 cut(s) 400
Ecl136II GAGCTC 1 cut(s) 705
EclXI CGGCCG 1 cut(s) 400
Eco130I CCWWGG 5 cut(s) 231, 652, 693, 732, 986
Eco147I AGGCCT 1 cut(s) 499
Eco24I GRGCYC 1 cut(s) 707
Eco47I GGWCC 4 cut(s) 120, 177, 697, 729
Eco52I CGGCCG 1 cut(s) 400
Eco53kI GAGCTC 1 cut(s) 705
Eco88I CYCGRG 1 cut(s) 16
EcoICRI GAGCTC 1 cut(s) 705
EcoNI CCTNNNNNAGG 1 cut(s) 916
EcoRII CCWGG 2 cut(s) 458, 489
EcoT14I CCWWGG 5 cut(s) 231, 652, 693, 732, 986
EcoT38I GRGCYC 1 cut(s) 707
ErhI CCWWGG 5 cut(s) 231, 652, 693, 732, 986
FaeI CATG 7 cut(s) 291, 443, 656, 671, 697, 736, 835
FaqI GGGAC 3 cut(s) 141, 935, 981
FatI CATG 7 cut(s) 287, 439, 652, 667, 693, 732, 831
FbaI TGATCA 2 cut(s) 531, 645
FblI GTMKAC 3 cut(s) 167, 658, 783
Fnu4HI GCNGC 5 cut(s) 53, 84, 341, 370, 400
FokI GGATG 4 cut(s) 473, 635, 758, 959
FriOI GRGCYC 1 cut(s) 707
Fsp4HI GCNGC 5 cut(s) 53, 84, 341, 370, 400
FspBI CTAG 3 cut(s) 12, 131, 359
FspI TGCGCA 1 cut(s) 292
GlaI GCGC 4 cut(s) 292, 344, 386, 808
GluI GCNGC 5 cut(s) 53, 84, 341, 370, 400
GsuI CTGGAG 1 cut(s) 340
HaeII RGCGCY 1 cut(s) 346
HaeIII GGCC 5 cut(s) 65, 402, 463, 499, 816
HapII CCGG 5 cut(s) 215, 435, 449, 464, 684
HgaI GACGC 2 cut(s) 216, 587
HhaI GCGC 4 cut(s) 293, 345, 387, 809
Hin1II CATG 7 cut(s) 291, 443, 656, 671, 697, 736, 835
Hin6I GCGC 4 cut(s) 291, 343, 385, 807
HinP1I GCGC 4 cut(s) 291, 343, 385, 807
HincII GTYRAC 2 cut(s) 168, 784
HindII GTYRAC 2 cut(s) 168, 784
HinfI GANTC 6 cut(s) 43, 301, 588, 712, 908, 969
HpaII CCGG 5 cut(s) 215, 435, 449, 464, 684
HphI GGTGA 5 cut(s) 463, 541, 699, 866, 974
Hpy166II GTNNAC 5 cut(s) 168, 454, 598, 659, 784
Hpy188I TCNGA 1 cut(s) 764
Hpy188III TCNNGA 6 cut(s) 18, 215, 440, 568, 700, 799
Hpy8I GTNNAC 5 cut(s) 168, 454, 598, 659, 784
HpyAV CCTTC 1 cut(s) 405
HpyCH4III ACNGT 3 cut(s) 114, 257, 905
HpyCH4IV ACGT 2 cut(s) 420, 633
HpyCH4V TGCA 3 cut(s) 618, 675, 934
HpyF10VI GCNNNNNNNGC 1 cut(s) 813
HpySE526I ACGT 2 cut(s) 420, 633
Hsp92II CATG 7 cut(s) 291, 443, 656, 671, 697, 736, 835
HspAI GCGC 4 cut(s) 291, 343, 385, 807
Kpn2I TCCGGA 1 cut(s) 214
KpnI GGTACC 1 cut(s) 471
Ksp22I TGATCA 2 cut(s) 531, 645
Kzo9I GATC 4 cut(s) 222, 445, 531, 645
LmnI GCTCC 3 cut(s) 136, 547, 764
Lsp1109I GCAGC 2 cut(s) 39, 352
LweI GCATC 1 cut(s) 814
MaeI CTAG 3 cut(s) 12, 131, 359
MaeII ACGT 2 cut(s) 420, 633
MaeIII GTNAC 6 cut(s) 251, 326, 404, 476, 634, 937
MalI GATC 4 cut(s) 224, 447, 533, 647
MboI GATC 4 cut(s) 222, 445, 531, 645
MboII GAAGA 1 cut(s) 279
MfeI CAATTG 1 cut(s) 364
MhlI GDGCHC 3 cut(s) 201, 707, 903
MluCI AATT 2 cut(s) 364, 802
MlyI GAGTC 4 cut(s) 37, 597, 721, 963
MmeI TCCRAC 1 cut(s) 204
MnlI CCTC 9 cut(s) 127, 211, 348, 482, 605, 720, 827, 877, 958
MroI TCCGGA 1 cut(s) 214
MroXI GAANNNNTTC 1 cut(s) 563
MslI CAYNNNNRTG 3 cut(s) 666, 879, 960
MspI CCGG 5 cut(s) 215, 435, 449, 464, 684
MspR9I CCNGG 4 cut(s) 435, 460, 465, 491
MunI CAATTG 1 cut(s) 364
Mva1269I GAATGC 1 cut(s) 987
MvaI CCWGG 2 cut(s) 460, 491
MvnI CGCG 1 cut(s) 227
MwoI GCNNNNNNNGC 1 cut(s) 813
NciI CCSGG 2 cut(s) 435, 465
NcoI CCATGG 3 cut(s) 652, 693, 732
NdeII GATC 4 cut(s) 222, 445, 531, 645
NheI GCTAGC 2 cut(s) 11, 358
NlaIII CATG 7 cut(s) 291, 443, 656, 671, 697, 736, 835
NlaIV GGNNCC 3 cut(s) 138, 469, 766
NmuCI GTSAC 4 cut(s) 326, 404, 476, 937
NsbI TGCGCA 1 cut(s) 292
PaeR7I CTCGAG 1 cut(s) 16
PagI TCATGA 1 cut(s) 439
PceI AGGCCT 1 cut(s) 499
PcsI WCGNNNNNNNCGW 1 cut(s) 164
PctI GAATGC 1 cut(s) 987
PdmI GAANNNNTTC 1 cut(s) 563
PfeI GAWTC 2 cut(s) 301, 908
PfoI TCCNGGA 1 cut(s) 489
PkrI GCNGC 5 cut(s) 54, 85, 342, 371, 401
PleI GAGTC 4 cut(s) 37, 596, 720, 963
PpsI GAGTC 4 cut(s) 37, 596, 720, 963
PshAI GACNNNNGTC 1 cut(s) 435
PsiI TTATAA 1 cut(s) 554
Psp124BI GAGCTC 1 cut(s) 707
Psp6I CCWGG 2 cut(s) 458, 489
PspGI CCWGG 2 cut(s) 458, 489
PspN4I GGNNCC 3 cut(s) 138, 469, 766
PspPI GGNCC 4 cut(s) 120, 177, 697, 729
RsaI GTAC 2 cut(s) 259, 469
RsaNI GTAC 2 cut(s) 258, 468
RseI CAYNNNNRTG 3 cut(s) 666, 879, 960
SacI GAGCTC 1 cut(s) 707
SalI GTCGAC 2 cut(s) 166, 782
SatI GCNGC 5 cut(s) 53, 84, 341, 370, 400
Sau3AI GATC 4 cut(s) 222, 445, 531, 645
Sau96I GGNCC 4 cut(s) 120, 177, 697, 729
ScaI AGTACT 1 cut(s) 259
SchI GAGTC 4 cut(s) 37, 597, 721, 963
ScrFI CCNGG 4 cut(s) 435, 460, 465, 491
SduI GDGCHC 3 cut(s) 201, 707, 903
SfaNI GCATC 1 cut(s) 814
Sfr274I CTCGAG 1 cut(s) 16
SinI GGWCC 4 cut(s) 120, 177, 697, 729
SlaI CTCGAG 1 cut(s) 16
SmiMI CAYNNNNRTG 3 cut(s) 666, 879, 960
SmlI CTYRAG 1 cut(s) 16
SmoI CTYRAG 1 cut(s) 16
Sse9I AATT 2 cut(s) 364, 802
SseBI AGGCCT 1 cut(s) 499
SsiI CCGC 5 cut(s) 31, 83, 349, 369, 399
SspMI CTAG 3 cut(s) 12, 131, 359
SstI GAGCTC 1 cut(s) 707
StuI AGGCCT 1 cut(s) 499
StyD4I CCNGG 4 cut(s) 433, 458, 463, 489
StyI CCWWGG 5 cut(s) 231, 652, 693, 732, 986
TaaI ACNGT 3 cut(s) 114, 257, 905
TaiI ACGT 2 cut(s) 423, 636
TaqI TCGA 4 cut(s) 17, 167, 783, 800
TasI AATT 2 cut(s) 364, 802
TatI WGTACW 1 cut(s) 257
TauI GCSGC 3 cut(s) 86, 372, 402
TfiI GAWTC 2 cut(s) 301, 908
TscAI CASTG 2 cut(s) 54, 910
TseFI GTSAC 4 cut(s) 326, 404, 476, 937
TseI GCWGC 2 cut(s) 52, 340
Tsp45I GTSAC 4 cut(s) 326, 404, 476, 937
TspDTI ATGAA 1 cut(s) 572
TspGWI ACGGA 3 cut(s) 112, 423, 464
TspRI CASTG 2 cut(s) 54, 910
VpaK11BI GGWCC 4 cut(s) 120, 177, 697, 729
XagI CCTNNNNNAGG 1 cut(s) 916
XcmI CCANNNNNNNNNTGG 1 cut(s) 605
XhoI CTCGAG 1 cut(s) 16
XmiI GTMKAC 3 cut(s) 167, 658, 783
XmnI GAANNNNTTC 1 cut(s) 563
XspI CTAG 3 cut(s) 12, 131, 359
ZrmI AGTACT 1 cut(s) 259
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.