MD05G1247600.v1.1

Polygalacturonase QRT3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0016157
Physical Location & Seq
Forward (+)
37913388 .. 37916124
2737 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1247600.v1.1.491

Sequence Viewer

Length: 1452 bp
ATGAGAAATATGATGATGTCATCAGCAGCATTGTTTTTCTTCTTGTTATTGTTGTTGGTAGCAGAAGAAGCTTCATGTTCCTACAGGCCTCAAATGCTATCAGCATTCCAAGCACAAGCAACAAAGCTCCAACAAAAACCATCCACTTTCTCATTTTCTGCAGCTTCAAATGTCACAGTGAATGGGAGGGTGTTTTACCCAATCGGGTATGGGGCAGACCCGACTGGTGAGGAGGACAGCACAGCTGCCCTACTCAAAGCAGTGGAGGAAGCTTTTCAGTTGAAATCTGAGCTTGAATTGCTGCCTGGAATCACTGACTTGGGAGGAGTTACCATTGATCTGCAAGGTGGAAATTACAAAATTAGCCAGCCTTTGATTTTTCCGTCAGGTGGTGGCAATGTTGTGGTACGAGGAGGAACCCTTCGTGCCTCATCCACATTTCCAGGGGACCGCCATCTCATTGAACTATGGTCACAAAATTCCCAAAAACAGAAACAAAAATCCTCCATCGCCAATAATTATTTCACAAATGAAGCCCAAAACAATGAAGCAATCTACTACGAGGACATCACATTCCGAGACGTTCTCTTCGATTCGGGCTTCCGAGGAGGAGGCATTTTCATTGTCGATTCAGCCCGAATCCGAATAACCAACTGCTTCTTCCTCCACTTCACAACAGAAGGCATTTTGGTTCAAAAGGGCCATGAGACCTACATATCAAACACCTTCCTAGGGCAACACTCAACGGTTGGTGGTGACAGCGGCGAGCGGCAATTTACGGGGACTGCCATTGACCTAGCCAGCAATGACAATGCCATAACTGACGTGGTAATATTCTCAGCTGCTATTGGTGTTGTTCTGAGGGGCCAGGCTAACATGGTCACTGGTGTACATTGTTACAATAAGGCCACAGGGTTTGGAGGCATAGGCATTTTGGTAAAATTAGCAGGAAATTCACAAACCAGATTGGATAATTGCTACCTGGATTATAATGCTATAGTTATGGAAGATCCGGTGCAAGTACATGTCACAAATGGATTCTTCTTAGGTGGTGCAAATATAGTGTTGAAATCTGTCAATGGAAAAATATTTGGATTAAATATTGTAAACAATATGTTTACAGGGGGAGGCTCACAAGTGCCGATGGTCCAGTTAGAGGGGCAATTCGGGGATATTGATCAGGTGGTGATTGATCAGAACAATGTGAATGGGATGACCTTGAAATCAACGGTGGGAAGGTTGAATGTGGAGGGCAATGGGACGAAATGGACGGCTGATTTTTCATCTGTGTTGGTCTTTCCCAACAGGATTAGTGGTTTTCAGTACTCGTTTTATACAAAAGGGGACACCAAGTTTACAGCACATGCTGTGACAAATATCTTGAACAATGCGGTGGTTGTGGAGAGTGAAAAGGTTGTAAATGCTGTGGTTTCTCTGGTTGTTCACCAGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Beta_helix

Protein Analysis

484

Amino Acids

52.19

Weight (kDa)

5.54

Isoelectric Point (pI)

26.57

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: OG0016157)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G20040
fragaria_vesca FvH4_3g12830
malus_domestica MD05G1247600.v1.1
prunus_persica Prupe.4G116400_v2.0.a1
pyrus_communis pycom05g22370
rosa_chinensis RchiOBHm_Chr5g0020771
rosa_laevigata RLG00000032561
rosa_multiflora Rmu_sc0002527.1_g000005
rosa_roxburghii Rroxscaffold_1G00057530
rosa_rugosa Rorug05G0062800
rosa_samantha Rh5AG152700 Rh5BG152400 Rh5CG164000 Rh5DG151900
rosa_wichuraiana Rw5G013540

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 990
AccBSI CCGCTC 1 cut(s) 769
AciI CCGC 4 cut(s) 451, 762, 769, 1391
AclWI GGATC 1 cut(s) 1004
AcsI RAATTY 2 cut(s) 478, 952
AfaI GTAC 4 cut(s) 408, 891, 1023, 1325
AfiI CCNNNNNNNGG 3 cut(s) 389, 732, 1156
AflIII ACRYGT 1 cut(s) 1024
AgsI TTSAA 9 cut(s) 168, 283, 296, 464, 695, 1069, 1222, 1243, 1384
AjiI CACGTC 1 cut(s) 826
AjnI CCWGG 4 cut(s) 304, 442, 867, 981
AjuI GAANNNNNNNTTGG 4 cut(s) 506, 538, 644, 676
AluBI AGCT 7 cut(s) 71, 127, 164, 245, 272, 292, 842
AluI AGCT 7 cut(s) 71, 127, 164, 245, 272, 292, 842
Alw26I GTCTC 2 cut(s) 573, 701
AlwI GGATC 1 cut(s) 1004
AoxI GGCC 4 cut(s) 86, 700, 865, 906
ApeKI GCWGC 5 cut(s) 26, 161, 245, 301, 842
ApoI RAATTY 2 cut(s) 478, 952
ArsI GACNNNNNNTTYG 2 cut(s) 572, 604
Asp700I GAANNNNTTC 1 cut(s) 273
AspA2I CCTAGG 1 cut(s) 730
AspS9I GGNCC 4 cut(s) 448, 700, 865, 1147
AsuHPI GGTGA 4 cut(s) 239, 767, 1198, 1436
AvaII GGWCC 2 cut(s) 448, 1147
AvrII CCTAGG 1 cut(s) 730
BbvI GCAGC 5 cut(s) 38, 173, 232, 288, 829
BccI CCATC 4 cut(s) 148, 462, 515, 1138
BceAI ACGGC 1 cut(s) 1287
BciT130I CCWGG 4 cut(s) 306, 444, 869, 983
BclI TGATCA 2 cut(s) 1177, 1192
BcoDI GTCTC 2 cut(s) 573, 701
BfaI CTAG 2 cut(s) 731, 797
BfmI CTRYAG 3 cut(s) 82, 159, 996
BisI GCNGC 7 cut(s) 27, 162, 246, 302, 763, 770, 843
BlnI CCTAGG 1 cut(s) 730
BlsI GCNGC 7 cut(s) 28, 163, 247, 303, 764, 771, 844
BmcAI AGTACT 1 cut(s) 1325
Bme1390I CCNGG 4 cut(s) 306, 444, 869, 983
Bme18I GGWCC 2 cut(s) 448, 1147
BmgBI CACGTC 1 cut(s) 826
BmgT120I GGNCC 4 cut(s) 448, 700, 865, 1147
BmiI GGNNCC 3 cut(s) 418, 449, 866
BmrFI CCNGG 4 cut(s) 306, 444, 869, 983
BplI GAGNNNNNCTC 2 cut(s) 570, 602
BsaBI GATNNNNATC 1 cut(s) 1176
BsaI GGTCTC 1 cut(s) 701
BsaJI CCNNGG 3 cut(s) 443, 604, 730
BsaWI WCCGGW 1 cut(s) 1012
Bsc4I CCNNNNNNNGG 3 cut(s) 389, 732, 1156
Bse1I ACTGG 4 cut(s) 229, 889, 1150, 1447
Bse3DI GCAATG 3 cut(s) 403, 811, 1261
Bse8I GATNNNNATC 1 cut(s) 1176
BseBI CCWGG 4 cut(s) 306, 444, 869, 983
BseDI CCNNGG 3 cut(s) 443, 604, 730
BseGI GGATG 3 cut(s) 140, 431, 1218
BseJI GATNNNNATC 1 cut(s) 1176
BseLI CCNNNNNNNGG 3 cut(s) 389, 732, 1156
BseMI GCAATG 3 cut(s) 403, 811, 1261
BseMII CTCAG 3 cut(s) 279, 851, 852
BseNI ACTGG 4 cut(s) 229, 889, 1150, 1447
BseRI GAGGAG 5 cut(s) 245, 339, 426, 621, 624
BseXI GCAGC 5 cut(s) 38, 173, 232, 288, 829
BshFI GGCC 4 cut(s) 88, 702, 867, 908
BsiSI CCGG 1 cut(s) 1013
BslFI GGGAC 4 cut(s) 461, 796, 1273, 1358
BslI CCNNNNNNNGG 3 cut(s) 389, 732, 1156
BsmAI GTCTC 2 cut(s) 573, 701
BsmBI CGTCTC 1 cut(s) 573
BsmFI GGGAC 4 cut(s) 461, 796, 1273, 1358
BsmI GAATGC 1 cut(s) 104
BsnI GGCC 4 cut(s) 88, 702, 867, 908
Bso31I GGTCTC 1 cut(s) 701
Bsp1407I TGTACA 1 cut(s) 889
Bsp143I GATC 4 cut(s) 337, 1009, 1177, 1192
BspACI CCGC 4 cut(s) 451, 762, 769, 1391
BspANI GGCC 4 cut(s) 88, 702, 867, 908
BspCNI CTCAG 3 cut(s) 280, 851, 852
BspLI GGNNCC 3 cut(s) 418, 449, 866
BspMAI CTGCAG 1 cut(s) 163
BspPI GGATC 1 cut(s) 1004
BspTNI GGTCTC 1 cut(s) 701
BsrBI CCGCTC 1 cut(s) 769
BsrDI GCAATG 3 cut(s) 403, 811, 1261
BsrGI TGTACA 1 cut(s) 889
BsrI ACTGG 4 cut(s) 229, 889, 1150, 1447
BssECI CCNNGG 3 cut(s) 443, 604, 730
BssMI GATC 4 cut(s) 337, 1009, 1177, 1192
BssT1I CCWWGG 1 cut(s) 730
Bst2UI CCWGG 4 cut(s) 306, 444, 869, 983
Bst4CI ACNGT 3 cut(s) 178, 748, 1231
Bst6I CTCTTC 1 cut(s) 593
BstAUI TGTACA 1 cut(s) 889
BstC8I GCNNGC 3 cut(s) 368, 767, 802
BstDEI CTNAG 4 cut(s) 288, 838, 860, 1045
BstF5I GGATG 3 cut(s) 140, 431, 1218
BstKTI GATC 4 cut(s) 340, 1012, 1180, 1195
BstMAI GTCTC 2 cut(s) 573, 701
BstMBI GATC 4 cut(s) 337, 1009, 1177, 1192
BstMWI GCNNNNNNNGC 4 cut(s) 68, 94, 110, 298
BstNI CCWGG 4 cut(s) 306, 444, 869, 983
BstNSI RCATGY 2 cut(s) 1028, 1367
BstSCI CCNGG 4 cut(s) 304, 442, 867, 981
BstSFI CTRYAG 3 cut(s) 82, 159, 996
BstV1I GCAGC 5 cut(s) 38, 173, 232, 288, 829
BstX2I RGATCY 1 cut(s) 1009
BstYI RGATCY 1 cut(s) 1009
BsuRI GGCC 4 cut(s) 88, 702, 867, 908
BtgZI GCGATG 1 cut(s) 493
BtrI CACGTC 1 cut(s) 826
BtsCI GGATG 3 cut(s) 140, 431, 1218
BtsI GCAGTG 1 cut(s) 267
BtsIMutI CAGTG 4 cut(s) 183, 267, 312, 882
Cac8I GCNNGC 3 cut(s) 368, 767, 802
Cfr13I GGNCC 4 cut(s) 448, 700, 865, 1147
Csp6I GTAC 4 cut(s) 407, 890, 1022, 1324
CspCI CAANNNNNGTGG 2 cut(s) 898, 933
CviAII CATG 5 cut(s) 75, 704, 877, 1025, 1364
CviQI GTAC 4 cut(s) 407, 890, 1022, 1324
DdeI CTNAG 4 cut(s) 288, 838, 860, 1045
DpnI GATC 4 cut(s) 339, 1011, 1179, 1194
DpnII GATC 4 cut(s) 337, 1009, 1177, 1192
Eam1104I CTCTTC 1 cut(s) 593
EarI CTCTTC 1 cut(s) 593
Eco130I CCWWGG 1 cut(s) 730
Eco147I AGGCCT 1 cut(s) 88
Eco31I GGTCTC 1 cut(s) 701
Eco47I GGWCC 2 cut(s) 448, 1147
EcoRII CCWGG 4 cut(s) 304, 442, 867, 981
EcoT14I CCWWGG 1 cut(s) 730
ErhI CCWWGG 1 cut(s) 730
Esp3I CGTCTC 1 cut(s) 573
FaeI CATG 5 cut(s) 78, 707, 880, 1028, 1367
FaqI GGGAC 4 cut(s) 461, 796, 1273, 1358
FatI CATG 5 cut(s) 74, 703, 876, 1024, 1363
FbaI TGATCA 2 cut(s) 1177, 1192
Fnu4HI GCNGC 7 cut(s) 27, 162, 246, 302, 763, 770, 843
FokI GGATG 3 cut(s) 127, 418, 1225
Fsp4HI GCNGC 7 cut(s) 27, 162, 246, 302, 763, 770, 843
FspBI CTAG 2 cut(s) 731, 797
GluI GCNGC 7 cut(s) 27, 162, 246, 302, 763, 770, 843
HaeIII GGCC 4 cut(s) 88, 702, 867, 908
HapII CCGG 1 cut(s) 1013
Hin1II CATG 5 cut(s) 78, 707, 880, 1028, 1367
HindIII AAGCTT 2 cut(s) 69, 270
HinfI GANTC 5 cut(s) 309, 593, 629, 639, 1038
HpaII CCGG 1 cut(s) 1013
HphI GGTGA 4 cut(s) 239, 767, 1198, 1436
Hpy166II GTNNAC 5 cut(s) 890, 1108, 1119, 1356, 1444
Hpy188I TCNGA 6 cut(s) 289, 578, 605, 644, 861, 1197
Hpy188III TCNNGA 1 cut(s) 1381
Hpy8I GTNNAC 5 cut(s) 890, 1108, 1119, 1356, 1444
HpyAV CCTTC 4 cut(s) 431, 674, 736, 1230
HpyCH4III ACNGT 3 cut(s) 178, 748, 1231
HpyCH4IV ACGT 2 cut(s) 582, 825
HpyCH4V TGCA 4 cut(s) 161, 343, 1018, 1055
HpyF10VI GCNNNNNNNGC 4 cut(s) 68, 94, 110, 298
HpyF3I CTNAG 4 cut(s) 288, 838, 860, 1045
HpySE526I ACGT 2 cut(s) 582, 825
Hsp92II CATG 5 cut(s) 78, 707, 880, 1028, 1367
Ksp22I TGATCA 2 cut(s) 1177, 1192
Kzo9I GATC 4 cut(s) 337, 1009, 1177, 1192
LmnI GCTCC 1 cut(s) 132
Lsp1109I GCAGC 5 cut(s) 38, 173, 232, 288, 829
MaeI CTAG 2 cut(s) 731, 797
MaeII ACGT 2 cut(s) 582, 825
MaeIII GTNAC 8 cut(s) 172, 328, 471, 755, 880, 896, 1027, 1369
MalI GATC 4 cut(s) 339, 1011, 1179, 1194
MbiI CCGCTC 1 cut(s) 769
MboI GATC 4 cut(s) 337, 1009, 1177, 1192
MboII GAAGA 6 cut(s) 31, 77, 580, 652, 1019, 1033
MflI RGATCY 1 cut(s) 1009
MmeI TCCRAC 1 cut(s) 154
MroXI GAANNNNTTC 1 cut(s) 273
MseI TTAA 1 cut(s) 1097
MspA1I CMGCKG 3 cut(s) 245, 762, 842
MspI CCGG 1 cut(s) 1013
MspR9I CCNGG 4 cut(s) 306, 444, 869, 983
Mva1269I GAATGC 1 cut(s) 104
MvaI CCWGG 4 cut(s) 306, 444, 869, 983
MwoI GCNNNNNNNGC 4 cut(s) 68, 94, 110, 298
NdeII GATC 4 cut(s) 337, 1009, 1177, 1192
NlaIII CATG 5 cut(s) 78, 707, 880, 1028, 1367
NlaIV GGNNCC 3 cut(s) 418, 449, 866
NmuCI GTSAC 6 cut(s) 172, 471, 755, 880, 1027, 1369
NspI RCATGY 2 cut(s) 1028, 1367
PceI AGGCCT 1 cut(s) 88
PciI ACATGT 1 cut(s) 1024
PcsI WCGNNNNNNNCGW 1 cut(s) 588
PctI GAATGC 1 cut(s) 104
PdmI GAANNNNTTC 1 cut(s) 273
PfeI GAWTC 5 cut(s) 309, 593, 629, 639, 1038
PkrI GCNGC 7 cut(s) 28, 163, 247, 303, 764, 771, 844
PscI ACATGT 1 cut(s) 1024
PsiI TTATAA 1 cut(s) 990
Psp6I CCWGG 4 cut(s) 304, 442, 867, 981
PspGI CCWGG 4 cut(s) 304, 442, 867, 981
PspN4I GGNNCC 3 cut(s) 418, 449, 866
PspPI GGNCC 4 cut(s) 448, 700, 865, 1147
PstI CTGCAG 1 cut(s) 163
PsuI RGATCY 1 cut(s) 1009
PvuII CAGCTG 2 cut(s) 245, 842
RsaI GTAC 4 cut(s) 408, 891, 1023, 1325
RsaNI GTAC 4 cut(s) 407, 890, 1022, 1324
SaqAI TTAA 1 cut(s) 1097
SatI GCNGC 7 cut(s) 27, 162, 246, 302, 763, 770, 843
Sau3AI GATC 4 cut(s) 337, 1009, 1177, 1192
Sau96I GGNCC 4 cut(s) 448, 700, 865, 1147
ScaI AGTACT 1 cut(s) 1325
ScrFI CCNGG 4 cut(s) 306, 444, 869, 983
SfcI CTRYAG 3 cut(s) 82, 159, 996
SinI GGWCC 2 cut(s) 448, 1147
SseBI AGGCCT 1 cut(s) 88
SsiI CCGC 4 cut(s) 451, 762, 769, 1391
SspI AATATT 3 cut(s) 834, 1089, 1102
SspMI CTAG 2 cut(s) 731, 797
StuI AGGCCT 1 cut(s) 88
StyD4I CCNGG 4 cut(s) 304, 442, 867, 981
StyI CCWWGG 1 cut(s) 730
TaaI ACNGT 3 cut(s) 178, 748, 1231
TaiI ACGT 2 cut(s) 585, 828
TaqI TCGA 2 cut(s) 591, 627
TatI WGTACW 3 cut(s) 889, 1021, 1323
TauI GCSGC 2 cut(s) 765, 772
TfiI GAWTC 5 cut(s) 309, 593, 629, 639, 1038
Tru1I TTAA 1 cut(s) 1097
Tru9I TTAA 1 cut(s) 1097
TscAI CASTG 4 cut(s) 183, 267, 319, 889
TseFI GTSAC 6 cut(s) 172, 471, 755, 880, 1027, 1369
TseI GCWGC 5 cut(s) 26, 161, 245, 301, 842
Tsp45I GTSAC 6 cut(s) 172, 471, 755, 880, 1027, 1369
TspDTI ATGAA 5 cut(s) 63, 546, 561, 610, 1272
TspGWI ACGGA 1 cut(s) 372
TspRI CASTG 4 cut(s) 183, 267, 319, 889
VpaK11BI GGWCC 2 cut(s) 448, 1147
XapI RAATTY 2 cut(s) 478, 952
XceI RCATGY 2 cut(s) 1028, 1367
XcmI CCANNNNNNNNNTGG 1 cut(s) 823
XmaJI CCTAGG 1 cut(s) 730
XmnI GAANNNNTTC 1 cut(s) 273
XspI CTAG 2 cut(s) 731, 797
ZrmI AGTACT 1 cut(s) 1325
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.