pycom13g08200

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr13
OG0014180
Physical Location & Seq
Reverse (-)
5443650 .. 5447831
4182 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1530 bp
ATGTTTGTCTCCATCTGTTTGCATGCTCCAATTCTATATAAACACAGCCACCACATCTTTTTTCTATCTAAACTAAACCAGTCCTCTCACACAACTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCATCCACAACCCCACATTGTGCAGAAATGAGTGAGTTCAGTTTCAGAAGCATCACATTCATGCTAGTAATTGCATTTCTGGTTTGGTCGTCGAATTTCGACGCTTGCATGGGGAGAAGAGGCCGGCATTGGAGGCAAAGCAGGGCATCCTTTACTTCTCTTTCAAAGAAAAAAGGAAAAAGCAACCACGGCGGCAGCGGCGGCGGCCACTACCACAGCGGTAGTGGATCAAAACCCAAGCCCCCATCTCATAAAAAGGCACCATCTCCACCTCGTAACAAGGCACAGCCTCCACCTCATAACAAGGCACCATCGCCACCTCAATATAAAGCTCCACCACCACCACAGAAGGGTTCCTCCACTTATAATGTGCTAGATTTTGGTGCTAAGGGTAACGGCGGTACCGACGACACAAAGGCATTCCAAGCTGCATGGGCCGCTGCTTGTAAAGTCGAGGCATCAAGCATCGTTGTTCCAGCCGTACAGGGAAAGGGAGTGATTGATGGAAGAGGCTCGCCTTGGTGGCAAGACACTCCCTACGGAGACCCTATAGATGATGATTTCAAGCTCATTGTGCCACTAAACAGCTCAGTCCAACAACGCCCGCCAATGCCGGCGTTGCGGTTTTATGGGAGTTTTAATGTCACGGTTACAGGCATAACGATTCAGAATAGCCCCCAATGCCATCTCAAATTCGACAACTGCCAGGGAGTGCTGGTCCATGATATGAGCGTCTCGTCCCCTGGGGACAGTCCCAACACAGATGGAATTCACCTCCAGAACTCCCAAAGAGTGCTCATCCACTCCACCACTCTTGCTTGCGGAGATGACTGTATTTCCATACAAACTGGATGCTCCGATGTATATATACACACCGTGAACTGTGGACCAGGGCATGGAATCAGCATTGGAGGTTTAGGAAAGGGCAACACGAAAGCATGTGTTTCAAACATTACCGTTCGAGACATCATGATGCACAACACGATGAATGGTGTCAGAGTCAAGACATGGCAGGGTGGATCAGGGTCTGTTCAGGGAGTGCTGTTCTCAAACATTCAAGTTTCTGAGGTTCAACTCCCCATTGTGATTGACCAATTCTACTGTGACAAAACCACATGCAAAAACCAAACATCAGCTGTGGCTCTTTCGGGAATCACCTACGAGAGAATAAGAGGAACTTACACCGTAAAACCAGTACACTTTGCCTGTAGTGACAGCCTACCCTGCGTAGATGTAACACTAAATGGTATACAGCTAAAGCCATTGCAAGAAAAGTATCACCTGTACAACCCCTTCTGCTGGCAGACGTTTGGGGAGTTGAGAACCCCAACAGTCCCACCCATTGGTTGTCTACAGCTTGGCAAGCCATCAGGCAACCAAATAAATTCAAATCACGATGCGTGTTGA

Protein Analysis

510

Amino Acids

55.02

Weight (kDa)

9.07

Isoelectric Point (pI)

48.67

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 189 - 461 2.2e-71 Glycosyl hydrolases family 28
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0014180)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G10640 AT1G60590
fragaria_vesca FvH4_4g34120
malus_domestica MD13G1094100.v1.1 MD16G1095400.v1.1
prunus_persica Prupe.1G251200_v2.0.a1
pyrus_communis pycom13g08200 pycom16g08130
rosa_chinensis RchiOBHm_Chr4g0443631
rosa_laevigata RLG00000005907
rosa_multiflora Rmu_co8340541.1_g000001 Rmu_sc0001118.1_g000012
rosa_roxburghii Rroxscaffold_5G00384180
rosa_samantha Rh2CG614500 Rh4AG405700 Rh4BG416700
rosa_wichuraiana Rw4G034830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 489
Acc65I GGTACC 1 cut(s) 524
AccB1I GGYRCC 3 cut(s) 382, 430, 524
AccB7I CCANNNNNTGG 2 cut(s) 1019, 1466
AccI GTMKAC 2 cut(s) 1372, 1474
AclWI GGATC 2 cut(s) 358, 1150
AcoI YGGCCR 1 cut(s) 328
AcsI RAATTY 4 cut(s) 217, 815, 891, 1507
AdeI CACNNNGTG 2 cut(s) 143, 1000
AfaI GTAC 4 cut(s) 526, 606, 1320, 1409
AfiI CCNNNNNNNGG 4 cut(s) 473, 1019, 1422, 1466
AgsI TTSAA 6 cut(s) 288, 688, 1071, 1181, 1196, 1512
AjnI CCWGG 3 cut(s) 828, 865, 1012
AluBI AGCT 7 cut(s) 455, 551, 691, 711, 1259, 1378, 1480
AluI AGCT 7 cut(s) 455, 551, 691, 711, 1259, 1378, 1480
Alw21I GWGCWC 1 cut(s) 921
Alw26I GTCTC 4 cut(s) 13, 660, 862, 1080
AlwI GGATC 2 cut(s) 358, 1150
AlwNI CAGNNNCTG 1 cut(s) 1151
AoxI GGCC 3 cut(s) 244, 328, 558
ApeKI GCWGC 3 cut(s) 318, 551, 563
ApoI RAATTY 4 cut(s) 217, 815, 891, 1507
Asp718I GGTACC 1 cut(s) 524
AspS9I GGNCC 3 cut(s) 558, 841, 1010
AsuHPI GGTGA 3 cut(s) 887, 1270, 1394
AvaII GGWCC 2 cut(s) 841, 1010
BaeI ACNNNNGTAYC 2 cut(s) 508, 541
BanI GGYRCC 3 cut(s) 382, 430, 524
BarI GAAGNNNNNNTAC 2 cut(s) 1400, 1432
Bbv12I GWGCWC 1 cut(s) 921
BbvI GCAGC 3 cut(s) 330, 538, 550
BccI CCATC 8 cut(s) 20, 376, 394, 442, 620, 816, 881, 1498
BceAI ACGGC 3 cut(s) 328, 535, 587
BciT130I CCWGG 3 cut(s) 830, 867, 1014
BcoDI GTCTC 4 cut(s) 13, 660, 862, 1080
BfaI CTAG 2 cut(s) 188, 497
BfmI CTRYAG 3 cut(s) 672, 1330, 1475
BglI GCCNNNNNGGC 1 cut(s) 646
BisI GCNGC 8 cut(s) 316, 319, 322, 325, 328, 552, 561, 564
BlsI GCNGC 8 cut(s) 317, 320, 323, 326, 329, 553, 562, 565
Bme1390I CCNGG 3 cut(s) 830, 867, 1014
Bme18I GGWCC 2 cut(s) 841, 1010
BmgT120I GGNCC 3 cut(s) 558, 841, 1010
BmiI GGNNCC 4 cut(s) 384, 432, 478, 526
BmrFI CCNGG 3 cut(s) 830, 867, 1014
BmsI GCATC 7 cut(s) 183, 278, 590, 597, 965, 1086, 1510
BpmI CTGGAG 1 cut(s) 884
Bpu10I CCTNAGC 1 cut(s) 510
BsaI GGTCTC 1 cut(s) 660
BsaJI CCNNGG 6 cut(s) 310, 641, 829, 865, 866, 1013
BsaXI ACNNNNNCTCC 2 cut(s) 825, 855
Bsc4I CCNNNNNNNGG 4 cut(s) 473, 1019, 1422, 1466
Bse118I RCCGGY 2 cut(s) 246, 736
Bse1I ACTGG 3 cut(s) 79, 976, 1316
Bse3DI GCAATG 1 cut(s) 1385
BseBI CCWGG 3 cut(s) 830, 867, 1014
BseDI CCNNGG 6 cut(s) 310, 641, 829, 865, 866, 1013
BseGI GGATG 4 cut(s) 125, 269, 921, 980
BseLI CCNNNNNNNGG 4 cut(s) 473, 1019, 1422, 1466
BseMI GCAATG 1 cut(s) 1385
BseMII CTCAG 2 cut(s) 726, 1179
BseNI ACTGG 3 cut(s) 79, 976, 1316
BseXI GCAGC 3 cut(s) 330, 538, 550
BsgI GTGCAG 1 cut(s) 165
BshFI GGCC 3 cut(s) 246, 330, 560
BshNI GGYRCC 3 cut(s) 382, 430, 524
BsiHKAI GWGCWC 1 cut(s) 921
BsiSI CCGG 2 cut(s) 247, 737
BslFI GGGAC 4 cut(s) 847, 861, 884, 1442
BslI CCNNNNNNNGG 4 cut(s) 473, 1019, 1422, 1466
BsmAI GTCTC 4 cut(s) 13, 660, 862, 1080
BsmBI CGTCTC 1 cut(s) 862
BsmFI GGGAC 4 cut(s) 847, 861, 884, 1442
BsmI GAATGC 1 cut(s) 542
BsnI GGCC 3 cut(s) 246, 330, 560
Bso31I GGTCTC 1 cut(s) 660
Bsp1286I GDGCHC 1 cut(s) 921
Bsp1407I TGTACA 1 cut(s) 1407
Bsp143I GATC 2 cut(s) 350, 1142
BspANI GGCC 3 cut(s) 246, 330, 560
BspCNI CTCAG 2 cut(s) 725, 1180
BspHI TCATGA 1 cut(s) 1092
BspLI GGNNCC 4 cut(s) 384, 432, 478, 526
BspPI GGATC 2 cut(s) 358, 1150
BspT107I GGYRCC 3 cut(s) 382, 430, 524
BspTNI GGTCTC 1 cut(s) 660
BsrDI GCAATG 1 cut(s) 1385
BsrFI RCCGGY 2 cut(s) 246, 736
BsrGI TGTACA 1 cut(s) 1407
BsrI ACTGG 3 cut(s) 79, 976, 1316
BssAI RCCGGY 2 cut(s) 246, 736
BssECI CCNNGG 6 cut(s) 310, 641, 829, 865, 866, 1013
BssMI GATC 2 cut(s) 350, 1142
BssNAI GTATAC 1 cut(s) 1373
BssT1I CCWWGG 1 cut(s) 641
Bst1107I GTATAC 1 cut(s) 1373
Bst2UI CCWGG 3 cut(s) 830, 867, 1014
Bst4CI ACNGT 9 cut(s) 772, 875, 956, 1000, 1007, 1081, 1226, 1309, 1456
Bst6I CTCTTC 2 cut(s) 235, 625
BstAUI TGTACA 1 cut(s) 1407
BstC8I GCNNGC 9 cut(s) 24, 229, 248, 638, 728, 738, 943, 1424, 1487
BstDEI CTNAG 3 cut(s) 510, 712, 1188
BstDSI CCRYGG 1 cut(s) 310
BstF5I GGATG 4 cut(s) 125, 269, 921, 980
BstKTI GATC 2 cut(s) 353, 1145
BstMAI GTCTC 4 cut(s) 13, 660, 862, 1080
BstMBI GATC 2 cut(s) 350, 1142
BstNI CCWGG 3 cut(s) 830, 867, 1014
BstNSI RCATGY 3 cut(s) 26, 1065, 1242
BstSCI CCNGG 3 cut(s) 828, 865, 1012
BstSFI CTRYAG 3 cut(s) 672, 1330, 1475
BstV1I GCAGC 3 cut(s) 330, 538, 550
BstZ17I GTATAC 1 cut(s) 1373
BsuRI GGCC 3 cut(s) 246, 330, 560
BtgI CCRYGG 1 cut(s) 310
BtgZI GCGATG 1 cut(s) 420
BtsCI GGATG 4 cut(s) 125, 269, 921, 980
Cac8I GCNNGC 9 cut(s) 24, 229, 248, 638, 728, 738, 943, 1424, 1487
CaiI CAGNNNCTG 1 cut(s) 1151
CciI TCATGA 1 cut(s) 1092
Cfr10I RCCGGY 2 cut(s) 246, 736
Cfr13I GGNCC 3 cut(s) 558, 841, 1010
CseI GACGC 2 cut(s) 233, 844
Csp6I GTAC 4 cut(s) 525, 605, 1319, 1408
CspCI CAANNNNNGTGG 2 cut(s) 919, 954
CviQI GTAC 4 cut(s) 525, 605, 1319, 1408
DdeI CTNAG 3 cut(s) 510, 712, 1188
DpnI GATC 2 cut(s) 352, 1144
DpnII GATC 2 cut(s) 350, 1142
DraIII CACNNNGTG 2 cut(s) 143, 1000
EaeI YGGCCR 1 cut(s) 328
Eam1104I CTCTTC 2 cut(s) 235, 625
EarI CTCTTC 2 cut(s) 235, 625
Eco130I CCWWGG 1 cut(s) 641
Eco31I GGTCTC 1 cut(s) 660
Eco47I GGWCC 2 cut(s) 841, 1010
EcoRI GAATTC 1 cut(s) 891
EcoRII CCWGG 3 cut(s) 828, 865, 1012
EcoT14I CCWWGG 1 cut(s) 641
ErhI CCWWGG 1 cut(s) 641
Esp3I CGTCTC 1 cut(s) 862
FalI AAGNNNNNCTT 2 cut(s) 1285, 1317
FaqI GGGAC 4 cut(s) 847, 861, 884, 1442
FauI CCCGC 1 cut(s) 735
FblI GTMKAC 2 cut(s) 1372, 1474
Fnu4HI GCNGC 8 cut(s) 316, 319, 322, 325, 328, 552, 561, 564
FokI GGATG 4 cut(s) 112, 256, 908, 987
Fsp4HI GCNGC 8 cut(s) 316, 319, 322, 325, 328, 552, 561, 564
FspBI CTAG 2 cut(s) 188, 497
GluI GCNGC 8 cut(s) 316, 319, 322, 325, 328, 552, 561, 564
GsuI CTGGAG 1 cut(s) 884
HaeIII GGCC 3 cut(s) 246, 330, 560
HapII CCGG 2 cut(s) 247, 737
HgaI GACGC 2 cut(s) 233, 844
HinfI GANTC 4 cut(s) 787, 1023, 1122, 1275
HpaII CCGG 2 cut(s) 247, 737
HphI GGTGA 3 cut(s) 887, 1270, 1394
Hpy166II GTNNAC 5 cut(s) 1003, 1010, 1321, 1373, 1475
Hpy188I TCNGA 5 cut(s) 170, 792, 982, 1121, 1189
Hpy188III TCNNGA 6 cut(s) 901, 1085, 1093, 1126, 1272, 1517
Hpy8I GTNNAC 5 cut(s) 1003, 1010, 1321, 1373, 1475
Hpy99I CGWCG 3 cut(s) 217, 227, 533
HpyAV CCTTC 2 cut(s) 466, 1426
HpyCH4III ACNGT 9 cut(s) 772, 875, 956, 1000, 1007, 1081, 1226, 1309, 1456
HpyCH4IV ACGT 1 cut(s) 1430
HpyCH4V TGCA 8 cut(s) 22, 146, 197, 231, 554, 1099, 1242, 1390
HpyF3I CTNAG 3 cut(s) 510, 712, 1188
HpySE526I ACGT 1 cut(s) 1430
KpnI GGTACC 1 cut(s) 528
KroI GCCGGC 2 cut(s) 246, 736
KroNI GCCGGC 2 cut(s) 248, 738
Kzo9I GATC 2 cut(s) 350, 1142
LmnI GCTCC 3 cut(s) 31, 460, 983
Lsp1109I GCAGC 3 cut(s) 330, 538, 550
LweI GCATC 7 cut(s) 183, 278, 590, 597, 965, 1086, 1510
MaeI CTAG 2 cut(s) 188, 497
MaeII ACGT 1 cut(s) 1430
MaeIII GTNAC 7 cut(s) 398, 515, 766, 772, 1226, 1334, 1357
MalI GATC 2 cut(s) 352, 1144
MboI GATC 2 cut(s) 350, 1142
MboII GAAGA 2 cut(s) 252, 642
MhlI GDGCHC 1 cut(s) 921
MluCI AATT 7 cut(s) 30, 192, 217, 815, 891, 1217, 1507
MlyI GAGTC 1 cut(s) 1131
MmeI TCCRAC 1 cut(s) 742
MroNI GCCGGC 2 cut(s) 246, 736
MseI TTAA 1 cut(s) 762
MslI CAYNNNNRTG 2 cut(s) 182, 1094
MspA1I CMGCKG 4 cut(s) 321, 342, 563, 1259
MspI CCGG 2 cut(s) 247, 737
MspR9I CCNGG 3 cut(s) 830, 867, 1014
Mva1269I GAATGC 1 cut(s) 542
MvaI CCWGG 3 cut(s) 830, 867, 1014
NaeI GCCGGC 2 cut(s) 248, 738
NdeII GATC 2 cut(s) 350, 1142
NgoMIV GCCGGC 2 cut(s) 246, 736
NlaIV GGNNCC 4 cut(s) 384, 432, 478, 526
NmuCI GTSAC 3 cut(s) 766, 1226, 1334
NspI RCATGY 3 cut(s) 26, 1065, 1242
PaeI GCATGC 1 cut(s) 26
PagI TCATGA 1 cut(s) 1092
PasI CCCWGGG 1 cut(s) 866
PcsI WCGNNNNNNNCGW 1 cut(s) 525
PctI GAATGC 1 cut(s) 542
PdiI GCCGGC 2 cut(s) 248, 738
PfeI GAWTC 3 cut(s) 787, 1023, 1275
PflMI CCANNNNNTGG 2 cut(s) 1019, 1466
PkrI GCNGC 8 cut(s) 317, 320, 323, 326, 329, 553, 562, 565
PleI GAGTC 1 cut(s) 1130
PpsI GAGTC 1 cut(s) 1130
PsiI TTATAA 1 cut(s) 489
Psp6I CCWGG 3 cut(s) 828, 865, 1012
PspGI CCWGG 3 cut(s) 828, 865, 1012
PspN4I GGNNCC 4 cut(s) 384, 432, 478, 526
PspPI GGNCC 3 cut(s) 558, 841, 1010
PstNI CAGNNNCTG 1 cut(s) 1151
PvuII CAGCTG 1 cut(s) 1259
RsaI GTAC 4 cut(s) 526, 606, 1320, 1409
RsaNI GTAC 4 cut(s) 525, 605, 1319, 1408
RseI CAYNNNNRTG 2 cut(s) 182, 1094
SaqAI TTAA 1 cut(s) 762
SatI GCNGC 8 cut(s) 316, 319, 322, 325, 328, 552, 561, 564
Sau3AI GATC 2 cut(s) 350, 1142
Sau96I GGNCC 3 cut(s) 558, 841, 1010
SchI GAGTC 1 cut(s) 1131
ScrFI CCNGG 3 cut(s) 830, 867, 1014
SduI GDGCHC 1 cut(s) 921
SfaNI GCATC 7 cut(s) 183, 278, 590, 597, 965, 1086, 1510
SfcI CTRYAG 3 cut(s) 672, 1330, 1475
SinI GGWCC 2 cut(s) 841, 1010
SmiMI CAYNNNNRTG 2 cut(s) 182, 1094
SphI GCATGC 1 cut(s) 26
Sse9I AATT 7 cut(s) 30, 192, 217, 815, 891, 1217, 1507
SspMI CTAG 2 cut(s) 188, 497
StyD4I CCNGG 3 cut(s) 828, 865, 1012
StyI CCWWGG 1 cut(s) 641
TaaI ACNGT 9 cut(s) 772, 875, 956, 1000, 1007, 1081, 1226, 1309, 1456
TaiI ACGT 1 cut(s) 1433
TaqI TCGA 5 cut(s) 215, 222, 576, 819, 1084
TasI AATT 7 cut(s) 30, 192, 217, 815, 891, 1217, 1507
TatI WGTACW 2 cut(s) 1318, 1407
TauI GCSGC 5 cut(s) 318, 324, 327, 330, 563
TfiI GAWTC 3 cut(s) 787, 1023, 1275
Tru1I TTAA 1 cut(s) 762
Tru9I TTAA 1 cut(s) 762
TseFI GTSAC 3 cut(s) 766, 1226, 1334
TseI GCWGC 3 cut(s) 318, 551, 563
Tsp45I GTSAC 3 cut(s) 766, 1226, 1334
TspDTI ATGAA 2 cut(s) 172, 1124
TspGWI ACGGA 1 cut(s) 678
Van91I CCANNNNNTGG 2 cut(s) 1019, 1466
VpaK11BI GGWCC 2 cut(s) 841, 1010
XapI RAATTY 4 cut(s) 217, 815, 891, 1507
XceI RCATGY 3 cut(s) 26, 1065, 1242
XcmI CCANNNNNNNNNTGG 1 cut(s) 344
XmiI GTMKAC 2 cut(s) 1372, 1474
XspI CTAG 2 cut(s) 188, 497
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.