MD09G1030200.v1.1

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0009157
Physical Location & Seq
Forward (+)
1854514 .. 1855354
841 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1030200.v1.1.491

Sequence Viewer

Length: 597 bp
ATGACTGCAGGAGATGACTGTGTATCGATACAAACTGGATGCTCGAACGTATACATACACAACGTAAATTGTGGACCTGGACATGGAGTCAGCATTGGCGGGCTAGGGAAGGACAACACGAAAGCTTGCGTTTCGAACGTCACTGTCCGAGACGTTAAAATGCACAGTACACTCACGGGAGTCAGAATAAAGACCTGGCAGGGAGGATCGGGGTCTGTCCAAAACATAATGTTCTCAAACATTCAACTAACAGAAGTTGAAACCCCGATCATGATTGACCAGTTCTACTGCGACAAGAGCAAGTGCCAAAATCAGAGCTCCGCTGTGGCGATTTCGGGTGTGAATTACGTAAACATACAAGGAACCTACACGTCGAAGGCCGTGCATTTCGCATGCAGTGACAGCTCTCCGTGCACTGGTGTGTCTCTGGATACCATAGAGTTGAAATCAGTTGACGAAGGGAAGCACCTGTACGACCCTTTCTGTTGGGAGGCGTACGGAGTGCTCAAAACAAGCACCGTTCCTCGAATCGACTGCTTGAAGAAGGGGAAGGCGAGCACAAAAGCTCAATCCGGAAGTAGCGGTTCTTCTTGCTAA

Protein Analysis

199

Amino Acids

20.98

Weight (kDa)

7.5

Isoelectric Point (pI)

40.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 3 - 150 2.9e-47 Glycosyl hydrolases family 28
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 51
AccIII TCCGGA 1 cut(s) 572
AciI CCGC 3 cut(s) 99, 321, 582
AclWI GGATC 1 cut(s) 214
AfaI GTAC 3 cut(s) 169, 473, 497
AfiI CCNNNNNNNGG 2 cut(s) 83, 416
AflIII ACRYGT 1 cut(s) 369
AgsI TTSAA 4 cut(s) 245, 260, 445, 541
AhdI GACNNNNNGTC 1 cut(s) 86
AjiI CACGTC 1 cut(s) 372
AjnI CCWGG 2 cut(s) 76, 194
AleI CACNNNNGTG 1 cut(s) 419
AluBI AGCT 4 cut(s) 125, 318, 405, 566
AluI AGCT 4 cut(s) 125, 318, 405, 566
Alw21I GWGCWC 4 cut(s) 320, 416, 507, 560
Alw26I GTCTC 2 cut(s) 144, 429
Alw44I GTGCAC 1 cut(s) 412
AlwI GGATC 1 cut(s) 214
Aor13HI TCCGGA 1 cut(s) 572
AoxI GGCC 1 cut(s) 378
ApaLI GTGCAC 1 cut(s) 412
AspS9I GGNCC 1 cut(s) 74
AsuII TTCGAA 1 cut(s) 134
AvaII GGWCC 1 cut(s) 74
BaeGI GKGCMC 1 cut(s) 416
BanII GRGCYC 1 cut(s) 320
BarI GAAGNNNNNNTAC 3 cut(s) 455, 487, 571
Bbv12I GWGCWC 4 cut(s) 320, 416, 507, 560
BceAI ACGGC 1 cut(s) 365
BcgI CGANNNNNNTGC 4 cut(s) 364, 398, 516, 550
BciT130I CCWGG 2 cut(s) 78, 196
BciVI GTATCC 1 cut(s) 424
BcoDI GTCTC 2 cut(s) 144, 429
BfaI CTAG 1 cut(s) 104
BfmI CTRYAG 1 cut(s) 6
BfuI GTATCC 1 cut(s) 424
Bme1390I CCNGG 2 cut(s) 78, 196
Bme18I GGWCC 1 cut(s) 74
BmeRI GACNNNNNGTC 1 cut(s) 86
BmgBI CACGTC 1 cut(s) 372
BmgT120I GGNCC 1 cut(s) 74
BmiI GGNNCC 1 cut(s) 364
BmrFI CCNGG 2 cut(s) 78, 196
BmsI GCATC 1 cut(s) 29
Bpu14I TTCGAA 1 cut(s) 134
Bsa29I ATCGAT 1 cut(s) 26
BsaAI YACGTR 1 cut(s) 349
BsaWI WCCGGW 1 cut(s) 572
Bsc4I CCNNNNNNNGG 2 cut(s) 83, 416
Bse1I ACTGG 3 cut(s) 40, 280, 421
BseAI TCCGGA 1 cut(s) 572
BseBI CCWGG 2 cut(s) 78, 196
BseCI ATCGAT 1 cut(s) 26
BseGI GGATG 1 cut(s) 44
BseLI CCNNNNNNNGG 2 cut(s) 83, 416
BseNI ACTGG 3 cut(s) 40, 280, 421
BseSI GKGCMC 1 cut(s) 416
BshFI GGCC 1 cut(s) 380
BshVI ATCGAT 1 cut(s) 26
BsiHKAI GWGCWC 4 cut(s) 320, 416, 507, 560
BsiSI CCGG 1 cut(s) 573
BsiWI CGTACG 1 cut(s) 495
BslI CCNNNNNNNGG 2 cut(s) 83, 416
BsmAI GTCTC 2 cut(s) 144, 429
BsmBI CGTCTC 1 cut(s) 144
BsnI GGCC 1 cut(s) 380
Bsp119I TTCGAA 1 cut(s) 134
Bsp1286I GDGCHC 4 cut(s) 320, 416, 507, 560
Bsp13I TCCGGA 1 cut(s) 572
Bsp143I GATC 2 cut(s) 206, 267
BspACI CCGC 3 cut(s) 99, 321, 582
BspANI GGCC 1 cut(s) 380
BspDI ATCGAT 1 cut(s) 26
BspEI TCCGGA 1 cut(s) 572
BspHI TCATGA 1 cut(s) 270
BspLI GGNNCC 1 cut(s) 364
BspMAI CTGCAG 1 cut(s) 10
BspPI GGATC 1 cut(s) 214
BspT104I TTCGAA 1 cut(s) 134
BsrI ACTGG 3 cut(s) 40, 280, 421
BssMI GATC 2 cut(s) 206, 267
BssNAI GTATAC 1 cut(s) 52
Bst1107I GTATAC 1 cut(s) 52
Bst2UI CCWGG 2 cut(s) 78, 196
Bst4CI ACNGT 4 cut(s) 20, 145, 167, 520
BstBAI YACGTR 1 cut(s) 349
BstBI TTCGAA 1 cut(s) 134
BstC8I GCNNGC 4 cut(s) 101, 127, 394, 556
BstF5I GGATG 1 cut(s) 44
BstKTI GATC 2 cut(s) 209, 270
BstMAI GTCTC 2 cut(s) 144, 429
BstMBI GATC 2 cut(s) 206, 267
BstMWI GCNNNNNNNGC 3 cut(s) 297, 402, 411
BstNI CCWGG 2 cut(s) 78, 196
BstNSI RCATGY 1 cut(s) 396
BstSCI CCNGG 2 cut(s) 76, 194
BstSFI CTRYAG 1 cut(s) 6
BstSLI GKGCMC 1 cut(s) 416
BstSNI TACGTA 1 cut(s) 349
BstZ17I GTATAC 1 cut(s) 52
Bsu15I ATCGAT 1 cut(s) 26
BsuI GTATCC 1 cut(s) 424
BsuRI GGCC 1 cut(s) 380
BsuTUI ATCGAT 1 cut(s) 26
BtrI CACGTC 1 cut(s) 372
BtsCI GGATG 1 cut(s) 44
BtsI GCAGTG 1 cut(s) 403
BtsIMutI CAGTG 3 cut(s) 141, 403, 414
Cac8I GCNNGC 4 cut(s) 101, 127, 394, 556
CciI TCATGA 1 cut(s) 270
Cfr13I GGNCC 1 cut(s) 74
ClaI ATCGAT 1 cut(s) 26
Csp6I GTAC 3 cut(s) 168, 472, 496
CviAII CATG 3 cut(s) 83, 271, 393
CviJI RGCY 6 cut(s) 103, 125, 318, 380, 405, 566
CviKI_1 RGCY 6 cut(s) 103, 125, 318, 380, 405, 566
CviQI GTAC 3 cut(s) 168, 472, 496
DpnI GATC 2 cut(s) 208, 269
DpnII GATC 2 cut(s) 206, 267
DriI GACNNNNNGTC 1 cut(s) 86
Eam1105I GACNNNNNGTC 1 cut(s) 86
Ecl136II GAGCTC 1 cut(s) 318
Eco105I TACGTA 1 cut(s) 349
Eco24I GRGCYC 1 cut(s) 320
Eco47I GGWCC 1 cut(s) 74
Eco53kI GAGCTC 1 cut(s) 318
EcoICRI GAGCTC 1 cut(s) 318
EcoRII CCWGG 2 cut(s) 76, 194
EcoT38I GRGCYC 1 cut(s) 320
Esp3I CGTCTC 1 cut(s) 144
FaeI CATG 3 cut(s) 86, 274, 396
FaiI YATR 8 cut(s) 52, 56, 84, 227, 272, 356, 394, 437
FatI CATG 3 cut(s) 82, 270, 392
FauI CCCGC 1 cut(s) 92
FblI GTMKAC 1 cut(s) 51
FokI GGATG 1 cut(s) 51
FriOI GRGCYC 1 cut(s) 320
FspBI CTAG 1 cut(s) 104
HaeIII GGCC 1 cut(s) 380
HapII CCGG 1 cut(s) 573
Hin1II CATG 3 cut(s) 86, 274, 396
HincII GTYRAC 1 cut(s) 454
HindII GTYRAC 1 cut(s) 454
HindIII AAGCTT 1 cut(s) 123
HinfI GANTC 3 cut(s) 87, 180, 528
HpaII CCGG 1 cut(s) 573
Hpy166II GTNNAC 6 cut(s) 52, 74, 170, 352, 414, 454
Hpy188I TCNGA 3 cut(s) 149, 185, 315
Hpy188III TCNNGA 3 cut(s) 271, 428, 573
Hpy8I GTNNAC 6 cut(s) 52, 74, 170, 352, 414, 454
Hpy99I CGWCG 1 cut(s) 376
HpyAV CCTTC 5 cut(s) 103, 370, 452, 538, 544
HpyCH4III ACNGT 4 cut(s) 20, 145, 167, 520
HpyCH4IV ACGT 6 cut(s) 48, 63, 138, 153, 348, 371
HpyCH4V TGCA 5 cut(s) 8, 163, 385, 396, 414
HpyF10VI GCNNNNNNNGC 3 cut(s) 297, 402, 411
HpySE526I ACGT 6 cut(s) 48, 63, 138, 153, 348, 371
Hsp92II CATG 3 cut(s) 86, 274, 396
Kpn2I TCCGGA 1 cut(s) 572
Kzo9I GATC 2 cut(s) 206, 267
LmnI GCTCC 1 cut(s) 323
LweI GCATC 1 cut(s) 29
MaeI CTAG 1 cut(s) 104
MaeII ACGT 6 cut(s) 48, 63, 138, 153, 348, 371
MaeIII GTNAC 2 cut(s) 139, 398
MalI GATC 2 cut(s) 208, 269
MboI GATC 2 cut(s) 206, 267
MboII GAAGA 2 cut(s) 553, 579
MhlI GDGCHC 4 cut(s) 320, 416, 507, 560
MluCI AATT 2 cut(s) 67, 343
MlyI GAGTC 2 cut(s) 96, 189
MnlI CCTC 3 cut(s) 197, 484, 534
MroI TCCGGA 1 cut(s) 572
MseI TTAA 1 cut(s) 156
MslI CAYNNNNRTG 1 cut(s) 419
MspA1I CMGCKG 1 cut(s) 323
MspI CCGG 1 cut(s) 573
MspR9I CCNGG 2 cut(s) 78, 196
MvaI CCWGG 2 cut(s) 78, 196
MwoI GCNNNNNNNGC 3 cut(s) 297, 402, 411
NdeII GATC 2 cut(s) 206, 267
NlaIII CATG 3 cut(s) 86, 274, 396
NlaIV GGNNCC 1 cut(s) 364
NmuCI GTSAC 2 cut(s) 139, 398
NspI RCATGY 1 cut(s) 396
NspV TTCGAA 1 cut(s) 134
OliI CACNNNNGTG 1 cut(s) 419
PaeI GCATGC 1 cut(s) 396
PagI TCATGA 1 cut(s) 270
PfeI GAWTC 1 cut(s) 528
Pfl23II CGTACG 1 cut(s) 495
PleI GAGTC 2 cut(s) 95, 188
PpsI GAGTC 2 cut(s) 95, 188
Ppu21I YACGTR 1 cut(s) 349
Psp124BI GAGCTC 1 cut(s) 320
Psp6I CCWGG 2 cut(s) 76, 194
PspGI CCWGG 2 cut(s) 76, 194
PspLI CGTACG 1 cut(s) 495
PspN4I GGNNCC 1 cut(s) 364
PspPI GGNCC 1 cut(s) 74
PstI CTGCAG 1 cut(s) 10
RsaI GTAC 3 cut(s) 169, 473, 497
RsaNI GTAC 3 cut(s) 168, 472, 496
RseI CAYNNNNRTG 1 cut(s) 419
SacI GAGCTC 1 cut(s) 320
SaqAI TTAA 1 cut(s) 156
Sau3AI GATC 2 cut(s) 206, 267
Sau96I GGNCC 1 cut(s) 74
SchI GAGTC 2 cut(s) 96, 189
ScrFI CCNGG 2 cut(s) 78, 196
SduI GDGCHC 4 cut(s) 320, 416, 507, 560
SfaNI GCATC 1 cut(s) 29
SfcI CTRYAG 1 cut(s) 6
SfuI TTCGAA 1 cut(s) 134
SinI GGWCC 1 cut(s) 74
SmiMI CAYNNNNRTG 1 cut(s) 419
SnaBI TACGTA 1 cut(s) 349
SphI GCATGC 1 cut(s) 396
Sse9I AATT 2 cut(s) 67, 343
SsiI CCGC 3 cut(s) 99, 321, 582
SspMI CTAG 1 cut(s) 104
SstI GAGCTC 1 cut(s) 320
StyD4I CCNGG 2 cut(s) 76, 194
TaaI ACNGT 4 cut(s) 20, 145, 167, 520
TaiI ACGT 6 cut(s) 51, 66, 141, 156, 351, 374
TaqI TCGA 6 cut(s) 26, 44, 134, 374, 526, 531
TasI AATT 2 cut(s) 67, 343
TatI WGTACW 1 cut(s) 167
TfiI GAWTC 1 cut(s) 528
Tru1I TTAA 1 cut(s) 156
Tru9I TTAA 1 cut(s) 156
TscAI CASTG 3 cut(s) 148, 403, 421
TseFI GTSAC 2 cut(s) 139, 398
Tsp45I GTSAC 2 cut(s) 139, 398
TspGWI ACGGA 2 cut(s) 399, 513
TspRI CASTG 3 cut(s) 148, 403, 421
VneI GTGCAC 1 cut(s) 412
VpaK11BI GGWCC 1 cut(s) 74
XceI RCATGY 1 cut(s) 396
XmiI GTMKAC 1 cut(s) 51
XspI CTAG 1 cut(s) 104
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.