pycom09g19460

Polygalacturonase At1g48100-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr9
OG0012763
Physical Location & Seq
Forward (+)
20309702 .. 20310462
761 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom09g19460.2

Sequence Viewer

Length: 642 bp
ATGAAGAATTGCAAGTTTTCACTGCTTGTTTTCTGCATTTCATTCTTTTGCTTCTTATTAGTGTCCAACCAAGCCTGCAGATGGCATAACCATACAAAACAGACGTACTCTCAAAAGCAATCCCACATTTCACCACCTCCTTGCTCTCCGGCTGATCCCACTACTCCTCCCGAAGAGCCGCCTACCAAGCCGTATCATTCCTCCGGTATTTTTGATGTAAGATCATTTGGTGCTGTTGGAGATGGCCAAACTGATGACACCACGGCGTTTAAGATGGCATGGGACACAGCCTGCCAAAGTGATGAATCTGCTGCAAGGATTCTTGTTCCCCAAGGTTTCTCATTCATGATACAATCTACAATATTCACTGGTCCCTGCCTTGGGGGCCTGGTGTTACAGGTTGATGGAACTCTAGTGCCACCTGATGGACCAGGATCCTGGCCAAAGCACATCAGCAGGCACCAATGGCTGGTCTTTTACCGAATCAACGAGATGTTGCTGCAAGGCGGTGGTGTAATTGACGGGAAAGGAGAGAAATGGTGGAATCTTCCCTGCAAACCCCATTGGGTATTTTTTTTTAAATATAAATTTGTTCATATTCTGTCTGATACTTTTTTTTGGGGTGATTCAAGCAATTTCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28 Pectate_lyase_3

Protein Analysis

214

Amino Acids

24.0

Weight (kDa)

7.06

Isoelectric Point (pI)

58.48

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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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Orthologous Genes (Group: OG0012763)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G02460
fragaria_vesca FvH4_1g26650
malus_domestica MD09G1287300.v1.1 MD17G1279500.v1.1
prunus_persica Prupe.3G005900_v2.0.a1 Prupe.6G307200_v2.0.a1
pyrus_communis pycom09g19460 pycom17g27760
rosa_chinensis RchiOBHm_Chr3g0486841
rosa_laevigata RLG00000023055
rosa_multiflora Rmu_sc0005709.1_g000005
rosa_roxburghii Rroxscaffold_6G00395520
rosa_rugosa Rorug03G0227400.1
rosa_samantha Rh3AG277500 Rh3BG312600 Rh3CG311500 Rh3DG308100
rosa_wichuraiana Rw3G024640

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 459
AccB7I CCANNNNNTGG 2 cut(s) 425, 469
AciI CCGC 2 cut(s) 179, 507
AclWI GGATC 3 cut(s) 149, 429, 442
AcoI YGGCCR 2 cut(s) 244, 440
AcsI RAATTY 1 cut(s) 587
AfaI GTAC 1 cut(s) 107
AfiI CCNNNNNNNGG 5 cut(s) 81, 380, 381, 425, 469
AgsI TTSAA 1 cut(s) 630
AjnI CCWGG 3 cut(s) 387, 430, 437
AlwI GGATC 3 cut(s) 149, 429, 442
AoxI GGCC 3 cut(s) 244, 385, 440
ApeKI GCWGC 2 cut(s) 311, 499
ApoI RAATTY 1 cut(s) 587
AspS9I GGNCC 3 cut(s) 371, 385, 428
AsuHPI GGTGA 2 cut(s) 123, 635
AvaII GGWCC 2 cut(s) 371, 428
BalI TGGCCA 2 cut(s) 246, 442
BamHI GGATCC 1 cut(s) 434
BanI GGYRCC 1 cut(s) 459
BbvI GCAGC 2 cut(s) 298, 486
BccI CCATC 5 cut(s) 75, 236, 268, 398, 419
BceAI ACGGC 2 cut(s) 175, 279
BciT130I CCWGG 3 cut(s) 389, 432, 439
BfaI CTAG 1 cut(s) 413
BfmI CTRYAG 1 cut(s) 76
BglI GCCNNNNNGGC 1 cut(s) 384
BisI GCNGC 3 cut(s) 179, 312, 500
BlsI GCNGC 3 cut(s) 180, 313, 501
Bme1390I CCNGG 3 cut(s) 389, 432, 439
Bme18I GGWCC 2 cut(s) 371, 428
BmgT120I GGNCC 3 cut(s) 371, 385, 428
BmiI GGNNCC 4 cut(s) 373, 386, 436, 461
BmrFI CCNGG 3 cut(s) 389, 432, 439
BsaJI CCNNGG 3 cut(s) 261, 331, 379
BsaWI WCCGGW 1 cut(s) 203
BsaXI ACNNNNNCTCC 2 cut(s) 151, 181
Bsc4I CCNNNNNNNGG 5 cut(s) 81, 380, 381, 425, 469
Bse1I ACTGG 1 cut(s) 373
BseBI CCWGG 3 cut(s) 389, 432, 439
BseDI CCNNGG 3 cut(s) 261, 331, 379
BseLI CCNNNNNNNGG 5 cut(s) 81, 380, 381, 425, 469
BseNI ACTGG 1 cut(s) 373
BseRI GAGGAG 1 cut(s) 156
BseXI GCAGC 2 cut(s) 298, 486
BshFI GGCC 3 cut(s) 246, 387, 442
BshNI GGYRCC 1 cut(s) 459
BsiSI CCGG 2 cut(s) 149, 204
BslFI GGGAC 2 cut(s) 296, 357
BslI CCNNNNNNNGG 5 cut(s) 81, 380, 381, 425, 469
BsmFI GGGAC 2 cut(s) 296, 357
BsnI GGCC 3 cut(s) 246, 387, 442
Bsp143I GATC 3 cut(s) 154, 221, 434
BspACI CCGC 2 cut(s) 179, 507
BspANI GGCC 3 cut(s) 246, 387, 442
BspHI TCATGA 1 cut(s) 345
BspLI GGNNCC 4 cut(s) 373, 386, 436, 461
BspMAI CTGCAG 1 cut(s) 80
BspPI GGATC 3 cut(s) 149, 429, 442
BspQI GCTCTTC 1 cut(s) 168
BspT107I GGYRCC 1 cut(s) 459
BsrI ACTGG 1 cut(s) 373
BssECI CCNNGG 3 cut(s) 261, 331, 379
BssMI GATC 3 cut(s) 154, 221, 434
BssT1I CCWWGG 2 cut(s) 331, 379
Bst2UI CCWGG 3 cut(s) 389, 432, 439
Bst6I CTCTTC 1 cut(s) 168
BstC8I GCNNGC 3 cut(s) 76, 292, 458
BstDSI CCRYGG 1 cut(s) 261
BstKTI GATC 3 cut(s) 157, 224, 437
BstMBI GATC 3 cut(s) 154, 221, 434
BstMWI GCNNNNNNNGC 3 cut(s) 187, 384, 466
BstNI CCWGG 3 cut(s) 389, 432, 439
BstSCI CCNGG 3 cut(s) 387, 430, 437
BstSFI CTRYAG 1 cut(s) 76
BstV1I GCAGC 2 cut(s) 298, 486
BstX2I RGATCY 1 cut(s) 434
BstXI CCANNNNNNTGG 1 cut(s) 438
BstYI RGATCY 1 cut(s) 434
BsuRI GGCC 3 cut(s) 246, 387, 442
BtgI CCRYGG 1 cut(s) 261
BtsI GCAGTG 1 cut(s) 20
BtsIMutI CAGTG 2 cut(s) 20, 366
Cac8I GCNNGC 3 cut(s) 76, 292, 458
CciI TCATGA 1 cut(s) 345
Cfr13I GGNCC 3 cut(s) 371, 385, 428
Csp6I GTAC 1 cut(s) 106
CviAII CATG 2 cut(s) 279, 346
CviJI RGCY 9 cut(s) 74, 152, 178, 190, 246, 290, 387, 442, 469
CviKI_1 RGCY 9 cut(s) 74, 152, 178, 190, 246, 290, 387, 442, 469
CviQI GTAC 1 cut(s) 106
DpnI GATC 3 cut(s) 156, 223, 436
DpnII GATC 3 cut(s) 154, 221, 434
DraI TTTAAA 1 cut(s) 580
EaeI YGGCCR 2 cut(s) 244, 440
Eam1104I CTCTTC 1 cut(s) 168
EarI CTCTTC 1 cut(s) 168
Eco130I CCWWGG 2 cut(s) 331, 379
Eco47I GGWCC 2 cut(s) 371, 428
EcoO109I RGGNCCY 1 cut(s) 385
EcoRII CCWGG 3 cut(s) 387, 430, 437
EcoT14I CCWWGG 2 cut(s) 331, 379
ErhI CCWWGG 2 cut(s) 331, 379
FaeI CATG 2 cut(s) 282, 349
FaiI YATR 6 cut(s) 87, 93, 280, 347, 585, 597
FaqI GGGAC 2 cut(s) 296, 357
FatI CATG 2 cut(s) 278, 345
Fnu4HI GCNGC 3 cut(s) 179, 312, 500
Fsp4HI GCNGC 3 cut(s) 179, 312, 500
FspBI CTAG 1 cut(s) 413
GluI GCNGC 3 cut(s) 179, 312, 500
HaeIII GGCC 3 cut(s) 246, 387, 442
HapII CCGG 2 cut(s) 149, 204
Hin1II CATG 2 cut(s) 282, 349
HinfI GANTC 5 cut(s) 305, 319, 483, 544, 626
HpaII CCGG 2 cut(s) 149, 204
HphI GGTGA 2 cut(s) 123, 635
Hpy188I TCNGA 2 cut(s) 607, 641
Hpy188III TCNNGA 2 cut(s) 170, 346
HpyCH4IV ACGT 1 cut(s) 104
HpyCH4V TGCA 6 cut(s) 12, 36, 78, 314, 502, 555
HpyF10VI GCNNNNNNNGC 3 cut(s) 187, 384, 466
HpySE526I ACGT 1 cut(s) 104
Hsp92II CATG 2 cut(s) 282, 349
Kzo9I GATC 3 cut(s) 154, 221, 434
LguI GCTCTTC 1 cut(s) 168
Lsp1109I GCAGC 2 cut(s) 298, 486
MaeI CTAG 1 cut(s) 413
MaeII ACGT 1 cut(s) 104
MaeIII GTNAC 1 cut(s) 393
MalI GATC 3 cut(s) 156, 223, 436
MboI GATC 3 cut(s) 154, 221, 434
MboII GAAGA 3 cut(s) 16, 185, 539
MflI RGATCY 1 cut(s) 434
MlsI TGGCCA 2 cut(s) 246, 442
MluCI AATT 4 cut(s) 7, 516, 587, 634
MluNI TGGCCA 2 cut(s) 246, 442
MmeI TCCRAC 2 cut(s) 90, 217
MnlI CCTC 3 cut(s) 147, 177, 211
Mox20I TGGCCA 2 cut(s) 246, 442
MscI TGGCCA 2 cut(s) 246, 442
MseI TTAA 2 cut(s) 270, 579
Msp20I TGGCCA 2 cut(s) 246, 442
MspI CCGG 2 cut(s) 149, 204
MspR9I CCNGG 3 cut(s) 389, 432, 439
MvaI CCWGG 3 cut(s) 389, 432, 439
MwoI GCNNNNNNNGC 3 cut(s) 187, 384, 466
NdeII GATC 3 cut(s) 154, 221, 434
NlaIII CATG 2 cut(s) 282, 349
NlaIV GGNNCC 4 cut(s) 373, 386, 436, 461
PagI TCATGA 1 cut(s) 345
PciSI GCTCTTC 1 cut(s) 168
PfeI GAWTC 5 cut(s) 305, 319, 483, 544, 626
PflMI CCANNNNNTGG 2 cut(s) 425, 469
PkrI GCNGC 3 cut(s) 180, 313, 501
Psp6I CCWGG 3 cut(s) 387, 430, 437
PspGI CCWGG 3 cut(s) 387, 430, 437
PspN4I GGNNCC 4 cut(s) 373, 386, 436, 461
PspPI GGNCC 3 cut(s) 371, 385, 428
PstI CTGCAG 1 cut(s) 80
PsuI RGATCY 1 cut(s) 434
RsaI GTAC 1 cut(s) 107
RsaNI GTAC 1 cut(s) 106
SapI GCTCTTC 1 cut(s) 168
SaqAI TTAA 2 cut(s) 270, 579
SatI GCNGC 3 cut(s) 179, 312, 500
Sau3AI GATC 3 cut(s) 154, 221, 434
Sau96I GGNCC 3 cut(s) 371, 385, 428
ScrFI CCNGG 3 cut(s) 389, 432, 439
SetI ASST 5 cut(s) 107, 139, 337, 402, 424
SfcI CTRYAG 1 cut(s) 76
SinI GGWCC 2 cut(s) 371, 428
Sse9I AATT 4 cut(s) 7, 516, 587, 634
SsiI CCGC 2 cut(s) 179, 507
SspI AATATT 1 cut(s) 363
SspMI CTAG 1 cut(s) 413
StyD4I CCNGG 3 cut(s) 387, 430, 437
StyI CCWWGG 2 cut(s) 331, 379
TaiI ACGT 1 cut(s) 107
TasI AATT 4 cut(s) 7, 516, 587, 634
TauI GCSGC 1 cut(s) 181
TfiI GAWTC 5 cut(s) 305, 319, 483, 544, 626
Tru1I TTAA 2 cut(s) 270, 579
Tru9I TTAA 2 cut(s) 270, 579
TscAI CASTG 2 cut(s) 27, 373
TseI GCWGC 2 cut(s) 311, 499
TspDTI ATGAA 5 cut(s) 17, 30, 318, 334, 584
TspRI CASTG 2 cut(s) 27, 373
Van91I CCANNNNNTGG 2 cut(s) 425, 469
VpaK11BI GGWCC 2 cut(s) 371, 428
XapI RAATTY 1 cut(s) 587
XspI CTAG 1 cut(s) 413
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.