MD01G1119400.v1.1

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr01
OG0008283
Physical Location & Seq
Forward (+)
23336389 .. 23338833
2445 bp
Loading structure...
UTR
Exon/CDS
Intron
MD01G1119400.v1.1.491

Sequence Viewer

Length: 741 bp
ATGGCTTCTCTACCGTACGCCGACGTGGATTTCAGCCTGCGATCAATGGCCGGTCGGGCCGAGGGCTTCGGTCAGTTCGCCATCGGTGGCCTCAACGGACCGGTCTATTCTGTGACCTCATTGGAGGATGATTGTCCAGGCTCACTTCGTAAGGGGTCCCGAAAACAAGAACCGCTCTGGATTGTGTTTGAGGTTTCTGGCACCATTCATCTTTCGTCTTGCTTGAGTGTGTCATCTTACAAGACAATTGATGGACGAGGCCAGAGGATAAAGCTCACGGGCAAAGGCCTTAGGCTGAAGGAATGTGAGCATATAATTGTATGTAACCTCGAGTTTGAAGGTGGTAGAGGACATGATGTCGATGGCATTCAGATCAAACCGAACTCTAGGCACATATGGATAGACCGGTGCAGCCTTCGTGATTACAATGATGGACTCATATATATCACCAGACAAAGTACAGACATAACTATCTCTAGATACCCCTCGCACGGTGGTGACAGATGCATTCGGGTGACAATTCATCATTGTTTCTTTGACGGAACAAGGCAAAGACAACCTCGTCTTAGATTTGGGAAAGTTCATCTTTACAACAATTACACTCGAAACGGGGCTATATACGCTGTTTCGCAGATATACTCTCGGTGCAACATTTATGAAGCAGGAAACAAGAAAAAGACTTTCGAATACCATACAGAAAAGGCAGCAGACAGAGAAGTGGCGAAGGCCGGCTTCATATGA
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

247

Amino Acids

27.75

Weight (kDa)

9.17

Isoelectric Point (pI)

38.36

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 75 - 225 2.5e-12 Pectate lyase
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 561
AccB1I GGYRCC 1 cut(s) 200
AccBSI CCGCTC 1 cut(s) 175
AciI CCGC 1 cut(s) 173
AcoI YGGCCR 1 cut(s) 48
AcuI CTGAAG 1 cut(s) 317
AfaI GTAC 2 cut(s) 17, 460
AfiI CCNNNNNNNGG 1 cut(s) 491
AgeI ACCGGT 2 cut(s) 100, 405
AgsI TTSAA 1 cut(s) 338
AhdI GACNNNNNGTC 1 cut(s) 356
AjiI CACGTC 1 cut(s) 25
AjnI CCWGG 1 cut(s) 136
AleI CACNNNNGTG 1 cut(s) 495
AluBI AGCT 1 cut(s) 274
AluI AGCT 1 cut(s) 274
Ama87I CYCGRG 1 cut(s) 329
AoxI GGCC 6 cut(s) 48, 57, 88, 259, 286, 726
ApeKI GCWGC 2 cut(s) 411, 704
AsiGI ACCGGT 2 cut(s) 100, 405
AspS9I GGNCC 3 cut(s) 57, 98, 156
AsuHPI GGTGA 3 cut(s) 439, 509, 526
AsuII TTCGAA 1 cut(s) 684
AvaI CYCGRG 1 cut(s) 329
AvaII GGWCC 2 cut(s) 98, 156
AxyI CCTNAGG 1 cut(s) 290
BanI GGYRCC 1 cut(s) 200
BbvI GCAGC 2 cut(s) 423, 716
BccI CCATC 4 cut(s) 89, 245, 356, 425
BciT130I CCWGG 1 cut(s) 138
BfaI CTAG 2 cut(s) 387, 477
BglI GCCNNNNNGGC 1 cut(s) 56
BisI GCNGC 2 cut(s) 412, 705
BlsI GCNGC 2 cut(s) 413, 706
Bme1390I CCNGG 1 cut(s) 138
Bme18I GGWCC 2 cut(s) 98, 156
BmeRI GACNNNNNGTC 1 cut(s) 356
BmeT110I CYCGRG 1 cut(s) 329
BmgBI CACGTC 1 cut(s) 25
BmgT120I GGNCC 3 cut(s) 57, 98, 156
BmiI GGNNCC 3 cut(s) 157, 158, 202
BmrFI CCNGG 1 cut(s) 138
BmsI GCATC 1 cut(s) 494
Bpu14I TTCGAA 1 cut(s) 684
BpuEI CTTGAG 1 cut(s) 244
BsaJI CCNNGG 1 cut(s) 60
BsaWI WCCGGW 2 cut(s) 100, 405
Bsc4I CCNNNNNNNGG 1 cut(s) 491
Bse118I RCCGGY 4 cut(s) 50, 100, 405, 728
Bse21I CCTNAGG 1 cut(s) 290
BseBI CCWGG 1 cut(s) 138
BseDI CCNNGG 1 cut(s) 60
BseGI GGATG 1 cut(s) 133
BseLI CCNNNNNNNGG 1 cut(s) 491
BseXI GCAGC 2 cut(s) 423, 716
BsgI GTGCAG 1 cut(s) 430
Bsh1285I CGRYCG 1 cut(s) 55
BshFI GGCC 6 cut(s) 50, 59, 90, 261, 288, 728
BshNI GGYRCC 1 cut(s) 200
BshTI ACCGGT 2 cut(s) 100, 405
BsiEI CGRYCG 1 cut(s) 55
BsiHKCI CYCGRG 1 cut(s) 329
BsiSI CCGG 4 cut(s) 51, 101, 406, 729
BsiWI CGTACG 1 cut(s) 15
BslFI GGGAC 1 cut(s) 142
BslI CCNNNNNNNGG 1 cut(s) 491
BsmFI GGGAC 1 cut(s) 142
BsmI GAATGC 2 cut(s) 366, 507
BsnI GGCC 6 cut(s) 50, 59, 90, 261, 288, 728
BsoBI CYCGRG 1 cut(s) 329
Bsp119I TTCGAA 1 cut(s) 684
Bsp143I GATC 2 cut(s) 41, 372
BspACI CCGC 1 cut(s) 173
BspANI GGCC 6 cut(s) 50, 59, 90, 261, 288, 728
BspLI GGNNCC 3 cut(s) 157, 158, 202
BspT104I TTCGAA 1 cut(s) 684
BspT107I GGYRCC 1 cut(s) 200
BsrBI CCGCTC 1 cut(s) 175
BsrFI RCCGGY 4 cut(s) 50, 100, 405, 728
BssAI RCCGGY 4 cut(s) 50, 100, 405, 728
BssECI CCNNGG 1 cut(s) 60
BssMI GATC 2 cut(s) 41, 372
Bst2UI CCWGG 1 cut(s) 138
Bst4CI ACNGT 2 cut(s) 15, 494
BstBI TTCGAA 1 cut(s) 684
BstC8I GCNNGC 2 cut(s) 38, 730
BstDEI CTNAG 2 cut(s) 290, 566
BstF5I GGATG 1 cut(s) 133
BstKTI GATC 2 cut(s) 44, 375
BstMBI GATC 2 cut(s) 41, 372
BstMCI CGRYCG 1 cut(s) 55
BstMWI GCNNNNNNNGC 2 cut(s) 56, 620
BstNI CCWGG 1 cut(s) 138
BstSCI CCNGG 1 cut(s) 136
BstV1I GCAGC 2 cut(s) 423, 716
Bsu36I CCTNAGG 1 cut(s) 290
BsuRI GGCC 6 cut(s) 50, 59, 90, 261, 288, 728
BtrI CACGTC 1 cut(s) 25
BtsCI GGATG 1 cut(s) 133
Cac8I GCNNGC 2 cut(s) 38, 730
Cfr10I RCCGGY 4 cut(s) 50, 100, 405, 728
Cfr13I GGNCC 3 cut(s) 57, 98, 156
CpoI CGGWCCG 1 cut(s) 98
Csp6I GTAC 2 cut(s) 16, 459
CspAI ACCGGT 2 cut(s) 100, 405
CspI CGGWCCG 1 cut(s) 98
CviAII CATG 1 cut(s) 353
CviQI GTAC 2 cut(s) 16, 459
DdeI CTNAG 2 cut(s) 290, 566
DpnI GATC 2 cut(s) 43, 374
DpnII GATC 2 cut(s) 41, 372
DrdI GACNNNNNNGTC 1 cut(s) 561
DriI GACNNNNNGTC 1 cut(s) 356
DseDI GACNNNNNNGTC 1 cut(s) 561
EaeI YGGCCR 1 cut(s) 48
Eam1105I GACNNNNNGTC 1 cut(s) 356
Eco147I AGGCCT 1 cut(s) 288
Eco47I GGWCC 2 cut(s) 98, 156
Eco57I CTGAAG 1 cut(s) 317
Eco81I CCTNAGG 1 cut(s) 290
Eco88I CYCGRG 1 cut(s) 329
EcoO109I RGGNCCY 1 cut(s) 156
EcoRII CCWGG 1 cut(s) 136
EcoT22I ATGCAT 1 cut(s) 509
FaeI CATG 1 cut(s) 356
FalI AAGNNNNNCTT 3 cut(s) 570, 602, 716
FaqI GGGAC 1 cut(s) 142
FatI CATG 1 cut(s) 352
FauNDI CATATG 2 cut(s) 395, 737
Fnu4HI GCNGC 2 cut(s) 412, 705
FokI GGATG 1 cut(s) 140
Fsp4HI GCNGC 2 cut(s) 412, 705
FspBI CTAG 2 cut(s) 387, 477
GluI GCNGC 2 cut(s) 412, 705
HaeIII GGCC 6 cut(s) 50, 59, 90, 261, 288, 728
HapII CCGG 4 cut(s) 51, 101, 406, 729
Hin1II CATG 1 cut(s) 356
HinfI GANTC 1 cut(s) 435
HpaII CCGG 4 cut(s) 51, 101, 406, 729
HphI GGTGA 3 cut(s) 439, 509, 526
Hpy188I TCNGA 1 cut(s) 372
Hpy188III TCNNGA 4 cut(s) 159, 178, 419, 477
Hpy99I CGWCG 1 cut(s) 26
HpyAV CCTTC 4 cut(s) 292, 332, 425, 718
HpyCH4III ACNGT 2 cut(s) 15, 494
HpyCH4IV ACGT 1 cut(s) 24
HpyCH4V TGCA 3 cut(s) 411, 507, 648
HpyF10VI GCNNNNNNNGC 2 cut(s) 56, 620
HpyF3I CTNAG 2 cut(s) 290, 566
HpySE526I ACGT 1 cut(s) 24
Hsp92II CATG 1 cut(s) 356
KflI GGGWCCC 1 cut(s) 156
KroI GCCGGC 1 cut(s) 728
KroNI GCCGGC 1 cut(s) 730
Kzo9I GATC 2 cut(s) 41, 372
Lsp1109I GCAGC 2 cut(s) 423, 716
LweI GCATC 1 cut(s) 494
MaeI CTAG 2 cut(s) 387, 477
MaeII ACGT 1 cut(s) 24
MaeIII GTNAC 4 cut(s) 112, 323, 497, 514
MalI GATC 2 cut(s) 43, 374
MbiI CCGCTC 1 cut(s) 175
MboI GATC 2 cut(s) 41, 372
MfeI CAATTG 1 cut(s) 246
MluCI AATT 4 cut(s) 246, 315, 519, 595
MlyI GAGTC 1 cut(s) 429
Mph1103I ATGCAT 1 cut(s) 509
MroNI GCCGGC 1 cut(s) 728
MslI CAYNNNNRTG 2 cut(s) 495, 512
MspI CCGG 4 cut(s) 51, 101, 406, 729
MspR9I CCNGG 1 cut(s) 138
MunI CAATTG 1 cut(s) 246
Mva1269I GAATGC 2 cut(s) 366, 507
MvaI CCWGG 1 cut(s) 138
MwoI GCNNNNNNNGC 2 cut(s) 56, 620
NaeI GCCGGC 1 cut(s) 730
NdeI CATATG 2 cut(s) 395, 737
NdeII GATC 2 cut(s) 41, 372
NgoMIV GCCGGC 1 cut(s) 728
NlaIII CATG 1 cut(s) 356
NlaIV GGNNCC 3 cut(s) 157, 158, 202
NmeAIII GCCGAG 1 cut(s) 85
NmuCI GTSAC 3 cut(s) 112, 497, 514
NsiI ATGCAT 1 cut(s) 509
NspV TTCGAA 1 cut(s) 684
OliI CACNNNNGTG 1 cut(s) 495
PaeR7I CTCGAG 1 cut(s) 329
PceI AGGCCT 1 cut(s) 288
PctI GAATGC 2 cut(s) 366, 507
PdiI GCCGGC 1 cut(s) 730
Pfl23II CGTACG 1 cut(s) 15
PinAI ACCGGT 2 cut(s) 100, 405
PkrI GCNGC 2 cut(s) 413, 706
PleI GAGTC 1 cut(s) 429
PpsI GAGTC 1 cut(s) 429
PpuMI RGGWCCY 1 cut(s) 156
Psp5II RGGWCCY 1 cut(s) 156
Psp6I CCWGG 1 cut(s) 136
PspGI CCWGG 1 cut(s) 136
PspLI CGTACG 1 cut(s) 15
PspN4I GGNNCC 3 cut(s) 157, 158, 202
PspPI GGNCC 3 cut(s) 57, 98, 156
PspPPI RGGWCCY 1 cut(s) 156
PspXI VCTCGAGB 1 cut(s) 329
RsaI GTAC 2 cut(s) 17, 460
RsaNI GTAC 2 cut(s) 16, 459
RseI CAYNNNNRTG 2 cut(s) 495, 512
Rsr2I CGGWCCG 1 cut(s) 98
RsrII CGGWCCG 1 cut(s) 98
SatI GCNGC 2 cut(s) 412, 705
Sau3AI GATC 2 cut(s) 41, 372
Sau96I GGNCC 3 cut(s) 57, 98, 156
SchI GAGTC 1 cut(s) 429
ScrFI CCNGG 1 cut(s) 138
SetI ASST 7 cut(s) 27, 119, 195, 276, 330, 343, 562
SfaNI GCATC 1 cut(s) 494
SfiI GGCCNNNNNGGCC 1 cut(s) 56
Sfr274I CTCGAG 1 cut(s) 329
SfuI TTCGAA 1 cut(s) 684
SinI GGWCC 2 cut(s) 98, 156
SlaI CTCGAG 1 cut(s) 329
SmiMI CAYNNNNRTG 2 cut(s) 495, 512
SmlI CTYRAG 2 cut(s) 223, 329
SmoI CTYRAG 2 cut(s) 223, 329
Sse9I AATT 4 cut(s) 246, 315, 519, 595
SseBI AGGCCT 1 cut(s) 288
SsiI CCGC 1 cut(s) 173
SspMI CTAG 2 cut(s) 387, 477
StuI AGGCCT 1 cut(s) 288
StyD4I CCNGG 1 cut(s) 136
TaaI ACNGT 2 cut(s) 15, 494
TaiI ACGT 1 cut(s) 27
TaqI TCGA 4 cut(s) 330, 360, 604, 684
TaqII GACCGA 1 cut(s) 59
TasI AATT 4 cut(s) 246, 315, 519, 595
TatI WGTACW 1 cut(s) 458
TseFI GTSAC 3 cut(s) 112, 497, 514
TseI GCWGC 2 cut(s) 411, 704
Tsp45I GTSAC 3 cut(s) 112, 497, 514
TspDTI ATGAA 5 cut(s) 197, 512, 572, 672, 724
TspGWI ACGGA 2 cut(s) 111, 555
VpaK11BI GGWCC 2 cut(s) 98, 156
XbaI TCTAGA 1 cut(s) 476
XhoI CTCGAG 1 cut(s) 329
XspI CTAG 2 cut(s) 387, 477
Zsp2I ATGCAT 1 cut(s) 509
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.