Rh1DG322900

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0008283
Physical Location & Seq
Forward (+)
54875225 .. 54882058
6834 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG322900.1

Sequence Viewer

Length: 963 bp
ATGTTTTGGTTTTTAGATGATGGTCCAGGCTCACTTCGTGAAGGATGCCGGAAACAAGAACCACTTTGGATTGTCTTTGAGGTTTCAGGCACCATTATTCTCTCTTCTTACTTAAGTGTGTCGTCTTACAAGACAATTGATGGCCGAGGGCAGAGAGTAAAGCTCACAGGCAAGGGCCTTAGACTGAAGGAATGTGAACACATAATCATATGCAACCTTGAGTTTGAAGGTGGTAGAGGACATGATGTTGATGGCATTCAGATAAAACCAAATTCCAGGCATATATGGATTGACCGATGCAGCCTTCGTGATTATGATGATGGACTCATAGATATCACCCGACAAAGTACAGACATAACTATTTCTAGATGTTACTTCCATCAACATGACAAGACGATGCTTATTGGAGCGGACCCTTCACATGTTGGTGACAGATGCATTCGGGTCACTATTCATCATTGTTTTTTTGATGGGACAAGGCAAAGGCAACCTCGTGTTAGATTTGGGAAAGTTCATCTTTACAACAATTACACTCGTAACTGGGGTATATATGCTGTTTGTGCCAGCGTAGAATCCCAGATATACTCTCAATGCAACATATATGAAGCAGGAACGAAGAAGAAGACGTTTGAATATTATACAGAAAAGGCTGCAGACAGAGAAGAGGCGAAATCTGGCTTCATAAGATCTGAGGGGGACGTATTCCTGAATGGAGCCCAACCATGCACATTAACAGGGTTCAGTGAAGAATGCATGTTCCATCCAAGTGAATTTTATCCACTTTGGACTATGGAAGCAGCCTCAGATTCTCTTAAAGGTGTTCTCCACATTCTTACGGGTTGGCAATCCATTCATAGGCCACCAGTAGAGCAGCTGAGAGGGAGGCAGCTCCTCGGAGGTGATGATGAAGATGCTGTAGAACTGACTGAGGTAGAAGTCCCGTGGAACAAATCCGACAAGTAA
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

320

Amino Acids

36.64

Weight (kDa)

6.07

Isoelectric Point (pI)

45.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 38 - 208 6.5e-29 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)
AccB1I GGYRCC 1 cut(s) 89
AccBSI CCGCTC 1 cut(s) 410
AciI CCGC 1 cut(s) 410
AcoI YGGCCR 1 cut(s) 142
AcsI RAATTY 2 cut(s) 271, 770
AcuI CTGAAG 1 cut(s) 206
AdeI CACNNNGTG 1 cut(s) 38
AfaI GTAC 1 cut(s) 349
AfiI CCNNNNNNNGG 1 cut(s) 855
AflII CTTAAG 1 cut(s) 112
AflIII ACRYGT 1 cut(s) 421
AgsI TTSAA 2 cut(s) 227, 632
AjnI CCWGG 2 cut(s) 25, 275
AluBI AGCT 3 cut(s) 163, 874, 889
AluI AGCT 3 cut(s) 163, 874, 889
AoxI GGCC 3 cut(s) 142, 175, 857
ApeKI GCWGC 5 cut(s) 300, 650, 797, 871, 886
ApoI RAATTY 2 cut(s) 271, 770
AspS9I GGNCC 3 cut(s) 23, 175, 412
AsuHPI GGTGA 3 cut(s) 328, 440, 911
AvaII GGWCC 2 cut(s) 23, 412
BanI GGYRCC 1 cut(s) 89
BanII GRGCYC 1 cut(s) 718
BauI CACGAG 1 cut(s) 492
BbsI GAAGAC 1 cut(s) 629
BbvI GCAGC 5 cut(s) 312, 637, 809, 883, 898
BccI CCATC 7 cut(s) 14, 134, 245, 314, 387, 464, 768
BciT130I CCWGG 2 cut(s) 27, 277
BfaI CTAG 1 cut(s) 366
BfmI CTRYAG 2 cut(s) 651, 915
BfrI CTTAAG 1 cut(s) 112
BglII AGATCT 1 cut(s) 686
BisI GCNGC 5 cut(s) 301, 651, 798, 872, 887
BlsI GCNGC 5 cut(s) 302, 652, 799, 873, 888
Bme1390I CCNGG 2 cut(s) 27, 277
Bme18I GGWCC 2 cut(s) 23, 412
BmgT120I GGNCC 3 cut(s) 23, 175, 412
BmiI GGNNCC 3 cut(s) 91, 414, 715
BmrFI CCNGG 2 cut(s) 27, 277
BmrI ACTGGG 1 cut(s) 550
BmsI GCATC 5 cut(s) 35, 287, 387, 425, 901
BmuI ACTGGG 1 cut(s) 550
BpiI GAAGAC 1 cut(s) 629
BplI GAGNNNNNCTC 2 cut(s) 147, 179
BpuEI CTTGAG 1 cut(s) 239
BsaJI CCNNGG 3 cut(s) 145, 892, 941
Bsc4I CCNNNNNNNGG 1 cut(s) 855
Bse1I ACTGG 2 cut(s) 545, 863
BseBI CCWGG 2 cut(s) 27, 277
BseDI CCNNGG 3 cut(s) 145, 892, 941
BseGI GGATG 2 cut(s) 50, 760
BseLI CCNNNNNNNGG 1 cut(s) 855
BseMII CTCAG 4 cut(s) 681, 816, 866, 918
BseNI ACTGG 2 cut(s) 545, 863
BseRI GAGGAG 1 cut(s) 881
BseXI GCAGC 5 cut(s) 312, 637, 809, 883, 898
BshFI GGCC 3 cut(s) 144, 177, 859
BshNI GGYRCC 1 cut(s) 89
BsiSI CCGG 1 cut(s) 49
BslFI GGGAC 3 cut(s) 487, 710, 923
BslI CCNNNNNNNGG 1 cut(s) 855
BsmFI GGGAC 3 cut(s) 487, 710, 923
BsmI GAATGC 3 cut(s) 255, 438, 755
BsnI GGCC 3 cut(s) 144, 177, 859
Bsp1286I GDGCHC 1 cut(s) 718
Bsp143I GATC 1 cut(s) 686
BspACI CCGC 1 cut(s) 410
BspANI GGCC 3 cut(s) 144, 177, 859
BspCNI CTCAG 4 cut(s) 682, 815, 867, 919
BspLI GGNNCC 3 cut(s) 91, 414, 715
BspMAI CTGCAG 1 cut(s) 655
BspT107I GGYRCC 1 cut(s) 89
BspTI CTTAAG 1 cut(s) 112
BsrBI CCGCTC 1 cut(s) 410
BsrI ACTGG 2 cut(s) 545, 863
BssECI CCNNGG 3 cut(s) 145, 892, 941
BssMI GATC 1 cut(s) 686
BssSI CACGAG 1 cut(s) 492
Bst2BI CACGAG 1 cut(s) 492
Bst2UI CCWGG 2 cut(s) 27, 277
Bst6I CTCTTC 2 cut(s) 109, 657
BstAFI CTTAAG 1 cut(s) 112
BstC8I GCNNGC 1 cut(s) 565
BstDEI CTNAG 5 cut(s) 179, 690, 802, 875, 927
BstDSI CCRYGG 1 cut(s) 941
BstF5I GGATG 2 cut(s) 50, 760
BstKTI GATC 1 cut(s) 689
BstMBI GATC 1 cut(s) 686
BstMWI GCNNNNNNNGC 1 cut(s) 560
BstNI CCWGG 2 cut(s) 27, 277
BstNSI RCATGY 2 cut(s) 425, 757
BstSCI CCNGG 2 cut(s) 25, 275
BstSFI CTRYAG 2 cut(s) 651, 915
BstV1I GCAGC 5 cut(s) 312, 637, 809, 883, 898
BstV2I GAAGAC 1 cut(s) 629
BstX2I RGATCY 1 cut(s) 686
BstYI RGATCY 1 cut(s) 686
BsuRI GGCC 3 cut(s) 144, 177, 859
BtgI CCRYGG 1 cut(s) 941
BtsCI GGATG 2 cut(s) 50, 760
BtsIMutI CAGTG 1 cut(s) 748
Cac8I GCNNGC 1 cut(s) 565
Cfr13I GGNCC 3 cut(s) 23, 175, 412
Csp6I GTAC 1 cut(s) 348
CviAII CATG 5 cut(s) 242, 386, 422, 723, 754
CviQI GTAC 1 cut(s) 348
DdeI CTNAG 5 cut(s) 179, 690, 802, 875, 927
DpnI GATC 1 cut(s) 688
DpnII GATC 1 cut(s) 686
DraIII CACNNNGTG 1 cut(s) 38
EaeI YGGCCR 1 cut(s) 142
Eam1104I CTCTTC 2 cut(s) 109, 657
EarI CTCTTC 2 cut(s) 109, 657
Eco24I GRGCYC 1 cut(s) 718
Eco32I GATATC 1 cut(s) 334
Eco47I GGWCC 2 cut(s) 23, 412
Eco57I CTGAAG 1 cut(s) 206
EcoO109I RGGNCCY 1 cut(s) 175
EcoRII CCWGG 2 cut(s) 25, 275
EcoRV GATATC 1 cut(s) 334
EcoT22I ATGCAT 2 cut(s) 440, 755
EcoT38I GRGCYC 1 cut(s) 718
FaeI CATG 5 cut(s) 245, 389, 425, 726, 757
FalI AAGNNNNNCTT 4 cut(s) 48, 80, 501, 533
FaqI GGGAC 3 cut(s) 487, 710, 923
FatI CATG 5 cut(s) 241, 385, 421, 722, 753
FauNDI CATATG 1 cut(s) 209
Fnu4HI GCNGC 5 cut(s) 301, 651, 798, 872, 887
FokI GGATG 2 cut(s) 57, 747
FriOI GRGCYC 1 cut(s) 718
Fsp4HI GCNGC 5 cut(s) 301, 651, 798, 872, 887
FspBI CTAG 1 cut(s) 366
GluI GCNGC 5 cut(s) 301, 651, 798, 872, 887
HaeIII GGCC 3 cut(s) 144, 177, 859
HapII CCGG 1 cut(s) 49
Hin1II CATG 5 cut(s) 245, 389, 425, 726, 757
HinfI GANTC 3 cut(s) 324, 572, 806
HpaII CCGG 1 cut(s) 49
HphI GGTGA 3 cut(s) 328, 440, 911
Hpy166II GTNNAC 1 cut(s) 197
Hpy188I TCNGA 5 cut(s) 261, 691, 805, 896, 955
Hpy188III TCNNGA 4 cut(s) 38, 308, 366, 706
Hpy8I GTNNAC 1 cut(s) 197
HpyAV CCTTC 5 cut(s) 35, 181, 221, 314, 426
HpyCH4IV ACGT 2 cut(s) 626, 699
HpyCH4V TGCA 7 cut(s) 213, 300, 438, 594, 653, 726, 753
HpyF10VI GCNNNNNNNGC 1 cut(s) 560
HpyF3I CTNAG 5 cut(s) 179, 690, 802, 875, 927
HpySE526I ACGT 2 cut(s) 626, 699
Hsp92II CATG 5 cut(s) 245, 389, 425, 726, 757
Kzo9I GATC 1 cut(s) 686
LmnI GCTCC 3 cut(s) 407, 713, 894
Lsp1109I GCAGC 5 cut(s) 312, 637, 809, 883, 898
LweI GCATC 5 cut(s) 35, 287, 387, 425, 901
MaeI CTAG 1 cut(s) 366
MaeII ACGT 2 cut(s) 626, 699
MaeIII GTNAC 4 cut(s) 371, 428, 445, 536
MalI GATC 1 cut(s) 688
MbiI CCGCTC 1 cut(s) 410
MboI GATC 1 cut(s) 686
MboII GAAGA 7 cut(s) 96, 628, 631, 634, 674, 758, 920
MfeI CAATTG 1 cut(s) 135
MflI RGATCY 1 cut(s) 686
MhlI GDGCHC 1 cut(s) 718
MluCI AATT 4 cut(s) 135, 271, 526, 770
MlyI GAGTC 1 cut(s) 318
Mph1103I ATGCAT 2 cut(s) 440, 755
MseI TTAA 3 cut(s) 113, 731, 813
MslI CAYNNNNRTG 3 cut(s) 384, 426, 765
MspA1I CMGCKG 1 cut(s) 874
MspCI CTTAAG 1 cut(s) 112
MspI CCGG 1 cut(s) 49
MspR9I CCNGG 2 cut(s) 27, 277
MunI CAATTG 1 cut(s) 135
Mva1269I GAATGC 3 cut(s) 255, 438, 755
MvaI CCWGG 2 cut(s) 27, 277
MwoI GCNNNNNNNGC 1 cut(s) 560
NdeI CATATG 1 cut(s) 209
NdeII GATC 1 cut(s) 686
NlaIII CATG 5 cut(s) 245, 389, 425, 726, 757
NlaIV GGNNCC 3 cut(s) 91, 414, 715
NmeAIII GCCGAG 1 cut(s) 170
NmuCI GTSAC 2 cut(s) 428, 445
NsiI ATGCAT 2 cut(s) 440, 755
NspI RCATGY 2 cut(s) 425, 757
PciI ACATGT 1 cut(s) 421
PctI GAATGC 3 cut(s) 255, 438, 755
PfeI GAWTC 2 cut(s) 572, 806
PkrI GCNGC 5 cut(s) 302, 652, 799, 873, 888
PleI GAGTC 1 cut(s) 318
PpsI GAGTC 1 cut(s) 318
PscI ACATGT 1 cut(s) 421
Psp6I CCWGG 2 cut(s) 25, 275
PspGI CCWGG 2 cut(s) 25, 275
PspN4I GGNNCC 3 cut(s) 91, 414, 715
PspPI GGNCC 3 cut(s) 23, 175, 412
PstI CTGCAG 1 cut(s) 655
PsuI RGATCY 1 cut(s) 686
PvuII CAGCTG 1 cut(s) 874
RsaI GTAC 1 cut(s) 349
RsaNI GTAC 1 cut(s) 348
RseI CAYNNNNRTG 3 cut(s) 384, 426, 765
SaqAI TTAA 3 cut(s) 113, 731, 813
SatI GCNGC 5 cut(s) 301, 651, 798, 872, 887
Sau3AI GATC 1 cut(s) 686
Sau96I GGNCC 3 cut(s) 23, 175, 412
SchI GAGTC 1 cut(s) 318
ScrFI CCNGG 2 cut(s) 27, 277
SduI GDGCHC 1 cut(s) 718
SfaNI GCATC 5 cut(s) 35, 287, 387, 425, 901
SfcI CTRYAG 2 cut(s) 651, 915
SinI GGWCC 2 cut(s) 23, 412
SmiMI CAYNNNNRTG 3 cut(s) 384, 426, 765
SmlI CTYRAG 2 cut(s) 112, 218
SmoI CTYRAG 2 cut(s) 112, 218
Sse9I AATT 4 cut(s) 135, 271, 526, 770
SsiI CCGC 1 cut(s) 410
SspI AATATT 1 cut(s) 635
SspMI CTAG 1 cut(s) 366
StyD4I CCNGG 2 cut(s) 25, 275
TaiI ACGT 2 cut(s) 629, 702
TaqII GACCGA 1 cut(s) 309
TasI AATT 4 cut(s) 135, 271, 526, 770
TatI WGTACW 1 cut(s) 347
TfiI GAWTC 2 cut(s) 572, 806
Tru1I TTAA 3 cut(s) 113, 731, 813
Tru9I TTAA 3 cut(s) 113, 731, 813
TscAI CASTG 1 cut(s) 748
TseFI GTSAC 2 cut(s) 428, 445
TseI GCWGC 5 cut(s) 300, 650, 797, 871, 886
Tsp45I GTSAC 2 cut(s) 428, 445
TspDTI ATGAA 6 cut(s) 443, 503, 618, 670, 842, 921
TspRI CASTG 1 cut(s) 748
Vha464I CTTAAG 1 cut(s) 112
VpaK11BI GGWCC 2 cut(s) 23, 412
XapI RAATTY 2 cut(s) 271, 770
XbaI TCTAGA 1 cut(s) 365
XceI RCATGY 2 cut(s) 425, 757
XspI CTAG 1 cut(s) 366
Zsp2I ATGCAT 2 cut(s) 440, 755
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.