MD04G1117700.v1.1

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0009024
Physical Location & Seq
Forward (+)
20275868 .. 20277858
1991 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1117700.v1.1.491

Sequence Viewer

Length: 492 bp
ATGAAGACGGACTTATTGATATCTCCAGAGGAAGCACGAATATTACAATTTCGAGGTGAGCATGATAAGACAATACTGATTGGAGCAGATCCCTCGCATATCGATGACAGATGCATTCGGGTTACCATTCACCACTGTTTCTTTGATGGGACCAGACAAAGATATCCTCGCGTTAGATTTGCGAAAATATTCTCTGAATGCAATATATATGAAGCAGGAAAGAAAAAAGTGGCATTTAAGTATCTTACGGAGAAGGCAGCGGACAAGGAGACGGCAGTGACTGGCCACATTAGGTTCGAAGGAGACTTATTCGTAACGGGAACTCAAGCAGGATTATCACCCGATGGCGGTGAACATTGCATGTTTCATCCTACCCAACACTATCAGACATGGACAAAAGGACCTCCAGTGGATGATCTTATGCATGTTCTTCAACATTGCACAGGATGGCAGGGTGTTCCGCGGCCAGGTGATCAAGGAGTAGCTACGTAG
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

164

Amino Acids

18.42

Weight (kDa)

6.79

Isoelectric Point (pI)

39.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 20 - 83 2.1e-07 Pectate lyase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 2 cut(s) 171, 463
AciI CCGC 4 cut(s) 260, 348, 461, 463
AclWI GGATC 1 cut(s) 83
AcoI YGGCCR 2 cut(s) 283, 464
AfiI CCNNNNNNNGG 2 cut(s) 347, 467
AgsI TTSAA 1 cut(s) 434
AjnI CCWGG 1 cut(s) 466
AluBI AGCT 1 cut(s) 485
AluI AGCT 1 cut(s) 485
Alw26I GTCTC 2 cut(s) 263, 297
AlwI GGATC 1 cut(s) 83
AlwNI CAGNNNCTG 1 cut(s) 281
AoxI GGCC 2 cut(s) 283, 464
ApeKI GCWGC 1 cut(s) 257
Asp700I GAANNNNTTC 1 cut(s) 188
AspS9I GGNCC 2 cut(s) 150, 401
AsuHPI GGTGA 5 cut(s) 68, 122, 330, 362, 482
AsuII TTCGAA 1 cut(s) 297
AvaII GGWCC 2 cut(s) 150, 401
BalI TGGCCA 1 cut(s) 285
BbsI GAAGAC 1 cut(s) 11
BbvI GCAGC 1 cut(s) 269
BccI CCATC 3 cut(s) 140, 338, 441
BceAI ACGGC 1 cut(s) 288
BcgI CGANNNNNNTGC 2 cut(s) 75, 109
BciT130I CCWGG 1 cut(s) 468
BclI TGATCA 1 cut(s) 472
BcoDI GTCTC 2 cut(s) 263, 297
BisI GCNGC 2 cut(s) 258, 464
BlsI GCNGC 2 cut(s) 259, 465
Bme1390I CCNGG 1 cut(s) 468
Bme18I GGWCC 2 cut(s) 150, 401
BmgT120I GGNCC 2 cut(s) 150, 401
BmiI GGNNCC 1 cut(s) 151
BmrFI CCNGG 1 cut(s) 468
BmsI GCATC 1 cut(s) 101
BpiI GAAGAC 1 cut(s) 11
BpmI CTGGAG 2 cut(s) 9, 390
Bpu14I TTCGAA 1 cut(s) 297
BpuEI CTTGAG 1 cut(s) 309
Bsa29I ATCGAT 1 cut(s) 102
BsaAI YACGTR 1 cut(s) 489
BsaJI CCNNGG 1 cut(s) 461
Bsc4I CCNNNNNNNGG 2 cut(s) 347, 467
Bse1I ACTGG 2 cut(s) 286, 407
Bse3DI GCAATG 2 cut(s) 355, 436
BseBI CCWGG 1 cut(s) 468
BseCI ATCGAT 1 cut(s) 102
BseDI CCNNGG 1 cut(s) 461
BseGI GGATG 3 cut(s) 367, 418, 452
BseLI CCNNNNNNNGG 2 cut(s) 347, 467
BseMI GCAATG 2 cut(s) 355, 436
BseNI ACTGG 2 cut(s) 286, 407
BseXI GCAGC 1 cut(s) 269
Bsh1236I CGCG 2 cut(s) 171, 463
BshFI GGCC 2 cut(s) 285, 466
BshVI ATCGAT 1 cut(s) 102
BslFI GGGAC 1 cut(s) 163
BslI CCNNNNNNNGG 2 cut(s) 347, 467
BsmAI GTCTC 2 cut(s) 263, 297
BsmBI CGTCTC 1 cut(s) 263
BsmFI GGGAC 1 cut(s) 163
BsmI GAATGC 2 cut(s) 114, 203
BsnI GGCC 2 cut(s) 285, 466
Bsp119I TTCGAA 1 cut(s) 297
Bsp143I GATC 3 cut(s) 88, 415, 472
BspACI CCGC 4 cut(s) 260, 348, 461, 463
BspANI GGCC 2 cut(s) 285, 466
BspDI ATCGAT 1 cut(s) 102
BspFNI CGCG 2 cut(s) 171, 463
BspLI GGNNCC 1 cut(s) 151
BspPI GGATC 1 cut(s) 83
BspT104I TTCGAA 1 cut(s) 297
BsrDI GCAATG 2 cut(s) 355, 436
BsrI ACTGG 2 cut(s) 286, 407
BssECI CCNNGG 1 cut(s) 461
BssMI GATC 3 cut(s) 88, 415, 472
Bst2UI CCWGG 1 cut(s) 468
Bst4CI ACNGT 1 cut(s) 137
BstBAI YACGTR 1 cut(s) 489
BstBI TTCGAA 1 cut(s) 297
BstDSI CCRYGG 1 cut(s) 461
BstEII GGTNACC 1 cut(s) 121
BstF5I GGATG 3 cut(s) 367, 418, 452
BstFNI CGCG 2 cut(s) 171, 463
BstKTI GATC 3 cut(s) 91, 418, 475
BstMAI GTCTC 2 cut(s) 263, 297
BstMBI GATC 3 cut(s) 88, 415, 472
BstNI CCWGG 1 cut(s) 468
BstNSI RCATGY 2 cut(s) 364, 428
BstPI GGTNACC 1 cut(s) 121
BstSCI CCNGG 1 cut(s) 466
BstSNI TACGTA 1 cut(s) 489
BstUI CGCG 2 cut(s) 171, 463
BstV1I GCAGC 1 cut(s) 269
BstV2I GAAGAC 1 cut(s) 11
BstX2I RGATCY 1 cut(s) 88
BstYI RGATCY 1 cut(s) 88
Bsu15I ATCGAT 1 cut(s) 102
BsuRI GGCC 2 cut(s) 285, 466
BsuTUI ATCGAT 1 cut(s) 102
BtgI CCRYGG 1 cut(s) 461
BtsCI GGATG 3 cut(s) 367, 418, 452
BtsI GCAGTG 1 cut(s) 282
BtsIMutI CAGTG 3 cut(s) 133, 282, 414
CaiI CAGNNNCTG 1 cut(s) 281
Cfr13I GGNCC 2 cut(s) 150, 401
Cfr42I CCGCGG 1 cut(s) 464
ClaI ATCGAT 1 cut(s) 102
CviAII CATG 4 cut(s) 62, 361, 390, 425
CviJI RGCY 3 cut(s) 285, 466, 485
CviKI_1 RGCY 3 cut(s) 285, 466, 485
DpnI GATC 3 cut(s) 90, 417, 474
DpnII GATC 3 cut(s) 88, 415, 472
EaeI YGGCCR 2 cut(s) 283, 464
Eco105I TACGTA 1 cut(s) 489
Eco32I GATATC 2 cut(s) 21, 164
Eco47I GGWCC 2 cut(s) 150, 401
Eco91I GGTNACC 1 cut(s) 121
EcoO109I RGGNCCY 1 cut(s) 401
EcoO65I GGTNACC 1 cut(s) 121
EcoRII CCWGG 1 cut(s) 466
EcoRV GATATC 2 cut(s) 21, 164
EcoT22I ATGCAT 2 cut(s) 116, 426
Esp3I CGTCTC 1 cut(s) 263
FaeI CATG 4 cut(s) 65, 364, 393, 428
FaiI YATR 9 cut(s) 63, 99, 206, 208, 210, 362, 391, 422, 426
FalI AAGNNNNNCTT 1 cut(s) 28
FaqI GGGAC 1 cut(s) 163
FatI CATG 4 cut(s) 61, 360, 389, 424
FbaI TGATCA 1 cut(s) 472
Fnu4HI GCNGC 2 cut(s) 258, 464
FokI GGATG 3 cut(s) 354, 425, 459
Fsp4HI GCNGC 2 cut(s) 258, 464
GluI GCNGC 2 cut(s) 258, 464
GsuI CTGGAG 2 cut(s) 9, 390
HaeIII GGCC 2 cut(s) 285, 466
Hin1II CATG 4 cut(s) 65, 364, 393, 428
HphI GGTGA 5 cut(s) 68, 122, 330, 362, 482
Hpy166II GTNNAC 1 cut(s) 353
Hpy188I TCNGA 2 cut(s) 196, 387
Hpy188III TCNNGA 1 cut(s) 26
Hpy8I GTNNAC 1 cut(s) 353
HpyAV CCTTC 2 cut(s) 247, 293
HpyCH4III ACNGT 1 cut(s) 137
HpyCH4IV ACGT 1 cut(s) 488
HpyCH4V TGCA 5 cut(s) 114, 201, 360, 424, 441
HpySE526I ACGT 1 cut(s) 488
Hsp92II CATG 4 cut(s) 65, 364, 393, 428
Ksp22I TGATCA 1 cut(s) 472
KspI CCGCGG 1 cut(s) 464
Kzo9I GATC 3 cut(s) 88, 415, 472
LmnI GCTCC 1 cut(s) 83
Lsp1109I GCAGC 1 cut(s) 269
LweI GCATC 1 cut(s) 101
MaeII ACGT 1 cut(s) 488
MaeIII GTNAC 3 cut(s) 121, 277, 313
MalI GATC 3 cut(s) 90, 417, 474
MboI GATC 3 cut(s) 88, 415, 472
MboII GAAGA 2 cut(s) 16, 422
MflI RGATCY 1 cut(s) 88
MlsI TGGCCA 1 cut(s) 285
MluCI AATT 1 cut(s) 47
MluNI TGGCCA 1 cut(s) 285
MnlI CCTC 5 cut(s) 22, 47, 103, 177, 414
Mox20I TGGCCA 1 cut(s) 285
Mph1103I ATGCAT 2 cut(s) 116, 426
MroXI GAANNNNTTC 1 cut(s) 188
MscI TGGCCA 1 cut(s) 285
MseI TTAA 1 cut(s) 237
MslI CAYNNNNRTG 1 cut(s) 102
Msp20I TGGCCA 1 cut(s) 285
MspA1I CMGCKG 2 cut(s) 260, 463
MspR9I CCNGG 1 cut(s) 468
Mva1269I GAATGC 2 cut(s) 114, 203
MvaI CCWGG 1 cut(s) 468
MvnI CGCG 2 cut(s) 171, 463
NdeII GATC 3 cut(s) 88, 415, 472
NlaIII CATG 4 cut(s) 65, 364, 393, 428
NlaIV GGNNCC 1 cut(s) 151
NmuCI GTSAC 1 cut(s) 277
NsiI ATGCAT 2 cut(s) 116, 426
NspI RCATGY 2 cut(s) 364, 428
NspV TTCGAA 1 cut(s) 297
PctI GAATGC 2 cut(s) 114, 203
PdmI GAANNNNTTC 1 cut(s) 188
PkrI GCNGC 2 cut(s) 259, 465
Ppu21I YACGTR 1 cut(s) 489
PpuMI RGGWCCY 1 cut(s) 401
Psp5II RGGWCCY 1 cut(s) 401
Psp6I CCWGG 1 cut(s) 466
PspEI GGTNACC 1 cut(s) 121
PspGI CCWGG 1 cut(s) 466
PspN4I GGNNCC 1 cut(s) 151
PspPI GGNCC 2 cut(s) 150, 401
PspPPI RGGWCCY 1 cut(s) 401
PstNI CAGNNNCTG 1 cut(s) 281
PsuI RGATCY 1 cut(s) 88
RseI CAYNNNNRTG 1 cut(s) 102
SacII CCGCGG 1 cut(s) 464
SaqAI TTAA 1 cut(s) 237
SatI GCNGC 2 cut(s) 258, 464
Sau3AI GATC 3 cut(s) 88, 415, 472
Sau96I GGNCC 2 cut(s) 150, 401
ScrFI CCNGG 1 cut(s) 468
SetI ASST 6 cut(s) 58, 296, 406, 472, 487, 491
SfaNI GCATC 1 cut(s) 101
Sfr303I CCGCGG 1 cut(s) 464
SfuI TTCGAA 1 cut(s) 297
SgrBI CCGCGG 1 cut(s) 464
SinI GGWCC 2 cut(s) 150, 401
SmiMI CAYNNNNRTG 1 cut(s) 102
SmlI CTYRAG 1 cut(s) 324
SmoI CTYRAG 1 cut(s) 324
SnaBI TACGTA 1 cut(s) 489
Sse9I AATT 1 cut(s) 47
SsiI CCGC 4 cut(s) 260, 348, 461, 463
SspI AATATT 2 cut(s) 42, 189
StyD4I CCNGG 1 cut(s) 466
TaaI ACNGT 1 cut(s) 137
TaiI ACGT 1 cut(s) 491
TaqI TCGA 3 cut(s) 52, 102, 297
TasI AATT 1 cut(s) 47
TauI GCSGC 1 cut(s) 466
Tru1I TTAA 1 cut(s) 237
Tru9I TTAA 1 cut(s) 237
TscAI CASTG 3 cut(s) 140, 282, 414
TseFI GTSAC 1 cut(s) 277
TseI GCWGC 1 cut(s) 257
Tsp45I GTSAC 1 cut(s) 277
TspDTI ATGAA 3 cut(s) 17, 225, 356
TspGWI ACGGA 2 cut(s) 23, 263
TspRI CASTG 3 cut(s) 140, 282, 414
VpaK11BI GGWCC 2 cut(s) 150, 401
XceI RCATGY 2 cut(s) 364, 428
XmnI GAANNNNTTC 1 cut(s) 188
Zsp2I ATGCAT 2 cut(s) 116, 426
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.