MD16G1156200.v1.1

Vacuolar protein sorting-associated protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr16
OG0002758
Physical Location & Seq
Reverse (-)
12449617 .. 12453794
4178 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1156200.v1.1.491

Sequence Viewer

Length: 1587 bp
ATGGGTATCGGTTATACATATGGAAAGGACCTGACTGTTATAGATCAGGTTTCACTTTCTAGACAATATACTTCAAAGCAGGAAAATAAGATGCCAAATGTTACTTTCAAGTTGAGTCAGCTTGAGAAGAAGGATATACTTTTGTGTTGTACTAGTACCATAAACAAACAATTTTGGCTTAGTGTCGGGGCGGATGCCTCGGCACTTCATACTGAACTGAATGCACCTGTTTATGACTGGAGAATATCTGTCCATTCTCCTAGGAAGTTGGAAAATCGCCTTCCCTCTCCGGCTGAATTCACAATCTGGGAAAGAACACTAGACGGAAAATGCGTTGAACGACAGCATGGTATTATCTCTTCACGTGGGGGTGTACATGCATATTCAGCAGACATTCAGAAACCTTTGTATCTGACGTTGTTTGTCCAGGGTGGTTGTGTCCTGGAGAAGAAAAGTAAAAGGAGACTGCGCGTGAGTATTGAACGTGACATGGGAGGAACCACTGTTGCACCCAAAACAATAAGATTTTTTGTTCCATACTGGATTACTAATTATTCATCTATTTATTTGGCATATCGAGTGGTAGAAGTAGAACCTTCAGACAATGCAGATACGGACTCCCTAATGCTTTCTAGGGCAGTCAAGTCTGCAAAAACAGCCTTGAGAAGTCCCACAAACTCTATGGACAGAAAGCATTCTGCCACAAGGAGAAACATCCAAGTACTTGAAGTTATTGAGGACACTAGTCCTGTTCCTAACATGCTTTCTCCACAAGATTATGCCAGCCGTAGTGGGGCTTCGCTGTTTCCATCTCAAAAAGATGTGTATTTGTCCTCGCGAGTGGGGCTTTCTGTTGCCATTCATCCTTCAGACATTTACAGTCCTGGGATATCTCTTTATGAGCTGGAAAAAAAGGAAAGGCTTGATGTAAAAGCATTCAGTTCAGATGGATCCTATTACAAGCTTTCAGCGAGACTGAGCATGACCTCAGACAGAACAAAGGATGTGCACTTCCAGCCCCACACCTTGTTTATTAATAGAGTTGGTTACAGTCTCTGCCTGCAACAATGTGATTCTCAGTCTGTGGCATGGATTCATCCCACAGATTCTCCAAAGCCTTTTTGTTGGCAGTCTAGTGCCAAAGTTGAACTGTTGAAGGTGCGGGTGGATGGTTACAATTGGAGTGCACCATTTAGTGTTTGTAATGAAGGTATCATGCATGTTTGCTTGAAGAAGGATGCCAGAAATTATCTACTTCAATTTCGAATAGCTGTAAGAAGTGGAGCAAAGAACTCAAGCTATGAAGTCATTTTCCGTCCAAACCCTTCCATGAGTCCTTACAGGTTCAAACTTAGAATGCGAGGGATACAATTGGATAACCAGTTGCCCCTTACTCCAACACCTGTTCTTTTTAGACCACAGAAAGTTGGAGAAGATACTGGCTATATCTTGAAACTTTCAATCACAATGAAATCAAATGGGTCGCTAGATCTATGTGTCTATCCATATATCGGTCTCCAGGGACCTGAAAACTCTGCCTTTTTGATATACATTCATGAGCCAATCATTGGCGCCTTCATGAGATGA
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
C2 Chorein_N Pex24p SHR-BD VPS13 VPS13_C VPS13_mid_rpt Vps62

Protein Analysis

529

Amino Acids

59.68

Weight (kDa)

9.33

Isoelectric Point (pI)

45.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
VPS13_VAB PF25036 148 - 448 3.9e-10 Vacuolar-sorting associated protein 13, adaptor binding domain
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 1571
AccB7I CCANNNNNTGG 1 cut(s) 1568
AccII CGCG 2 cut(s) 471, 838
AciI CCGC 2 cut(s) 191, 1162
AclWI GGATC 2 cut(s) 945, 958
AcsI RAATTY 1 cut(s) 296
AcuI CTGAAG 2 cut(s) 582, 852
AcvI CACGTG 1 cut(s) 365
AcyI GRCGYC 1 cut(s) 1572
AfaI GTAC 4 cut(s) 151, 157, 375, 723
AfiI CCNNNNNNNGG 3 cut(s) 793, 1511, 1568
AhlI ACTAGT 2 cut(s) 152, 743
AjnI CCWGG 4 cut(s) 426, 441, 883, 1518
AluBI AGCT 5 cut(s) 121, 904, 964, 1271, 1299
AluI AGCT 5 cut(s) 121, 904, 964, 1271, 1299
Alw21I GWGCWC 2 cut(s) 1011, 1189
Alw26I GTCTC 4 cut(s) 457, 967, 1058, 1520
Alw44I GTGCAC 2 cut(s) 1007, 1185
AlwI GGATC 2 cut(s) 945, 958
AlwNI CAGNNNCTG 1 cut(s) 1056
ApaLI GTGCAC 2 cut(s) 1007, 1185
ApoI RAATTY 1 cut(s) 296
AseI ATTAAT 1 cut(s) 1035
Asp700I GAANNNNTTC 1 cut(s) 694
AspA2I CCTAGG 1 cut(s) 260
AspLEI GCGC 2 cut(s) 471, 1574
AspS9I GGNCC 2 cut(s) 28, 1523
AsuII TTCGAA 1 cut(s) 1264
AvaII GGWCC 2 cut(s) 28, 1523
AvrII CCTAGG 1 cut(s) 260
BaeGI GKGCMC 2 cut(s) 1011, 1189
BaeI ACNNNNGTAYC 2 cut(s) 392, 425
BamHI GGATCC 1 cut(s) 950
BanI GGYRCC 1 cut(s) 1571
BarI GAAGNNNNNNTAC 4 cut(s) 343, 375, 781, 813
BbrPI CACGTG 1 cut(s) 365
Bbv12I GWGCWC 2 cut(s) 1011, 1189
BccI CCATC 3 cut(s) 817, 941, 1163
BceAI ACGGC 1 cut(s) 771
BciT130I CCWGG 4 cut(s) 428, 443, 885, 1520
BciVI GTATCC 1 cut(s) 1359
BcoDI GTCTC 4 cut(s) 457, 967, 1058, 1520
BcuI ACTAGT 2 cut(s) 152, 743
BfaI CTAG 8 cut(s) 60, 153, 261, 320, 633, 744, 1134, 1487
BfoI RGCGCY 1 cut(s) 1575
BfuI GTATCC 1 cut(s) 1359
BglII AGATCT 1 cut(s) 1489
BlnI CCTAGG 1 cut(s) 260
BmcAI AGTACT 1 cut(s) 723
Bme1390I CCNGG 4 cut(s) 428, 443, 885, 1520
Bme18I GGWCC 2 cut(s) 28, 1523
BmgT120I GGNCC 2 cut(s) 28, 1523
BmiI GGNNCC 4 cut(s) 499, 952, 1524, 1573
BmrFI CCNGG 4 cut(s) 428, 443, 885, 1520
BmsI GCATC 3 cut(s) 81, 184, 1228
BoxI GACNNNNGTC 1 cut(s) 744
BpmI CTGGAG 3 cut(s) 259, 464, 1502
Bpu14I TTCGAA 1 cut(s) 1264
BpuEI CTTGAG 3 cut(s) 143, 682, 1279
BsaAI YACGTR 1 cut(s) 365
BsaHI GRCGYC 1 cut(s) 1572
BsaI GGTCTC 1 cut(s) 1520
BsaJI CCNNGG 5 cut(s) 198, 260, 427, 884, 1519
BsaXI ACNNNNNCTCC 2 cut(s) 1093, 1123
Bsc4I CCNNNNNNNGG 3 cut(s) 793, 1511, 1568
Bse1I ACTGG 4 cut(s) 242, 545, 1381, 1444
BseBI CCWGG 4 cut(s) 428, 443, 885, 1520
BseDI CCNNGG 5 cut(s) 198, 260, 427, 884, 1519
BseGI GGATG 7 cut(s) 199, 714, 862, 1009, 1096, 1174, 1243
BseLI CCNNNNNNNGG 3 cut(s) 793, 1511, 1568
BseMII CTCAG 3 cut(s) 968, 1002, 1091
BseNI ACTGG 4 cut(s) 242, 545, 1381, 1444
BseSI GKGCMC 2 cut(s) 1011, 1189
Bsh1236I CGCG 2 cut(s) 471, 838
BshNI GGYRCC 1 cut(s) 1571
BsiHKAI GWGCWC 2 cut(s) 1011, 1189
BsiSI CCGG 1 cut(s) 290
BslFI GGGAC 2 cut(s) 654, 1536
BslI CCNNNNNNNGG 3 cut(s) 793, 1511, 1568
BsmAI GTCTC 4 cut(s) 457, 967, 1058, 1520
BsmFI GGGAC 2 cut(s) 654, 1536
BsmI GAATGC 4 cut(s) 226, 694, 935, 1362
Bso31I GGTCTC 1 cut(s) 1520
Bsp119I TTCGAA 1 cut(s) 1264
Bsp1286I GDGCHC 2 cut(s) 1011, 1189
Bsp1407I TGTACA 1 cut(s) 373
Bsp143I GATC 3 cut(s) 43, 950, 1489
Bsp68I TCGCGA 1 cut(s) 838
BspACI CCGC 2 cut(s) 191, 1162
BspCNI CTCAG 3 cut(s) 969, 1001, 1090
BspFNI CGCG 2 cut(s) 471, 838
BspHI TCATGA 2 cut(s) 1555, 1578
BspLI GGNNCC 4 cut(s) 499, 952, 1524, 1573
BspPI GGATC 2 cut(s) 945, 958
BspT104I TTCGAA 1 cut(s) 1264
BspT107I GGYRCC 1 cut(s) 1571
BspTNI GGTCTC 1 cut(s) 1520
BsrGI TGTACA 1 cut(s) 373
BsrI ACTGG 4 cut(s) 242, 545, 1381, 1444
BssECI CCNNGG 5 cut(s) 198, 260, 427, 884, 1519
BssMI GATC 3 cut(s) 43, 950, 1489
BssNI GRCGYC 1 cut(s) 1572
BssT1I CCWWGG 1 cut(s) 260
Bst2UI CCWGG 4 cut(s) 428, 443, 885, 1520
Bst4CI ACNGT 5 cut(s) 37, 505, 881, 1052, 1152
Bst6I CTCTTC 1 cut(s) 364
BstACI GRCGYC 1 cut(s) 1572
BstAUI TGTACA 1 cut(s) 373
BstBAI YACGTR 1 cut(s) 365
BstBI TTCGAA 1 cut(s) 1264
BstC8I GCNNGC 2 cut(s) 784, 1061
BstDEI CTNAG 5 cut(s) 179, 977, 988, 1077, 1352
BstF5I GGATG 7 cut(s) 199, 714, 862, 1009, 1096, 1174, 1243
BstFNI CGCG 2 cut(s) 471, 838
BstH2I RGCGCY 1 cut(s) 1575
BstHHI GCGC 2 cut(s) 471, 1574
BstKTI GATC 3 cut(s) 46, 953, 1492
BstMAI GTCTC 4 cut(s) 457, 967, 1058, 1520
BstMBI GATC 3 cut(s) 43, 950, 1489
BstMWI GCNNNNNNNGC 4 cut(s) 386, 656, 844, 1015
BstNI CCWGG 4 cut(s) 428, 443, 885, 1520
BstNSI RCATGY 3 cut(s) 380, 763, 1223
BstPAI GACNNNNGTC 1 cut(s) 744
BstSCI CCNGG 4 cut(s) 426, 441, 883, 1518
BstSLI GKGCMC 2 cut(s) 1011, 1189
BstUI CGCG 2 cut(s) 471, 838
BstX2I RGATCY 2 cut(s) 950, 1489
BstYI RGATCY 2 cut(s) 950, 1489
BsuI GTATCC 1 cut(s) 1359
BtsCI GGATG 7 cut(s) 199, 714, 862, 1009, 1096, 1174, 1243
BtsIMutI CAGTG 1 cut(s) 501
BtuMI TCGCGA 1 cut(s) 838
Cac8I GCNNGC 2 cut(s) 784, 1061
CaiI CAGNNNCTG 1 cut(s) 1056
CciI TCATGA 2 cut(s) 1555, 1578
CfoI GCGC 2 cut(s) 471, 1574
Cfr13I GGNCC 2 cut(s) 28, 1523
Csp6I GTAC 4 cut(s) 150, 156, 374, 722
CviQI GTAC 4 cut(s) 150, 156, 374, 722
DdeI CTNAG 5 cut(s) 179, 977, 988, 1077, 1352
DinI GGCGCC 1 cut(s) 1573
DpnI GATC 3 cut(s) 45, 952, 1491
DpnII GATC 3 cut(s) 43, 950, 1489
Eam1104I CTCTTC 1 cut(s) 364
EarI CTCTTC 1 cut(s) 364
EciI GGCGGA 1 cut(s) 206
Eco130I CCWWGG 1 cut(s) 260
Eco31I GGTCTC 1 cut(s) 1520
Eco32I GATATC 1 cut(s) 891
Eco47I GGWCC 2 cut(s) 28, 1523
Eco57I CTGAAG 2 cut(s) 582, 852
Eco72I CACGTG 1 cut(s) 365
EcoO109I RGGNCCY 2 cut(s) 28, 1523
EcoRI GAATTC 1 cut(s) 296
EcoRII CCWGG 4 cut(s) 426, 441, 883, 1518
EcoRV GATATC 1 cut(s) 891
EcoT14I CCWWGG 1 cut(s) 260
EcoT22I ATGCAT 2 cut(s) 382, 1221
EgeI GGCGCC 1 cut(s) 1573
EheI GGCGCC 1 cut(s) 1573
ErhI CCWWGG 1 cut(s) 260
FaqI GGGAC 2 cut(s) 654, 1536
FauI CCCGC 1 cut(s) 1155
FauNDI CATATG 1 cut(s) 19
FokI GGATG 7 cut(s) 206, 701, 849, 1016, 1083, 1181, 1250
FspBI CTAG 8 cut(s) 60, 153, 261, 320, 633, 744, 1134, 1487
GlaI GCGC 2 cut(s) 470, 1573
GsuI CTGGAG 3 cut(s) 259, 464, 1502
HaeII RGCGCY 1 cut(s) 1575
HapII CCGG 1 cut(s) 290
HhaI GCGC 2 cut(s) 471, 1574
Hin1I GRCGYC 1 cut(s) 1572
Hin6I GCGC 2 cut(s) 469, 1572
HinP1I GCGC 2 cut(s) 469, 1572
HindIII AAGCTT 1 cut(s) 962
HinfI GANTC 6 cut(s) 115, 617, 1073, 1093, 1106, 1333
HpaII CCGG 1 cut(s) 290
Hpy166II GTNNAC 3 cut(s) 374, 1009, 1187
Hpy188I TCNGA 6 cut(s) 399, 414, 601, 871, 946, 991
Hpy188III TCNNGA 5 cut(s) 60, 837, 1450, 1556, 1579
Hpy8I GTNNAC 3 cut(s) 374, 1009, 1187
HpyAV CCTTC 9 cut(s) 124, 290, 606, 876, 1150, 1202, 1228, 1335, 1585
HpyCH4III ACNGT 5 cut(s) 37, 505, 881, 1052, 1152
HpyCH4IV ACGT 3 cut(s) 364, 416, 484
HpyCH4V TGCA 9 cut(s) 224, 380, 509, 608, 650, 1009, 1063, 1187, 1219
HpyF10VI GCNNNNNNNGC 4 cut(s) 386, 656, 844, 1015
HpyF3I CTNAG 5 cut(s) 179, 977, 988, 1077, 1352
HpySE526I ACGT 3 cut(s) 364, 416, 484
Hsp92I GRCGYC 1 cut(s) 1572
HspAI GCGC 2 cut(s) 469, 1572
KasI GGCGCC 1 cut(s) 1571
Kzo9I GATC 3 cut(s) 43, 950, 1489
LmnI GCTCC 1 cut(s) 1283
LweI GCATC 3 cut(s) 81, 184, 1228
MaeI CTAG 8 cut(s) 60, 153, 261, 320, 633, 744, 1134, 1487
MaeII ACGT 3 cut(s) 364, 416, 484
MaeIII GTNAC 4 cut(s) 100, 485, 1046, 1172
MalI GATC 3 cut(s) 45, 952, 1491
MboI GATC 3 cut(s) 43, 950, 1489
MboII GAAGA 5 cut(s) 139, 351, 460, 1243, 1445
MfeI CAATTG 2 cut(s) 1177, 1370
MflI RGATCY 2 cut(s) 950, 1489
MhlI GDGCHC 2 cut(s) 1011, 1189
MluCI AATT 7 cut(s) 170, 296, 550, 1177, 1246, 1259, 1370
Mly113I GGCGCC 1 cut(s) 1572
MlyI GAGTC 3 cut(s) 124, 611, 1342
MmeI TCCRAC 3 cut(s) 249, 1408, 1421
MnlI CCTC 7 cut(s) 208, 295, 488, 730, 844, 997, 1355
Mph1103I ATGCAT 2 cut(s) 382, 1221
MroXI GAANNNNTTC 1 cut(s) 694
MseI TTAA 1 cut(s) 1035
MspI CCGG 1 cut(s) 290
MspR9I CCNGG 4 cut(s) 428, 443, 885, 1520
MunI CAATTG 2 cut(s) 1177, 1370
Mva1269I GAATGC 4 cut(s) 226, 694, 935, 1362
MvaI CCWGG 4 cut(s) 428, 443, 885, 1520
MvnI CGCG 2 cut(s) 471, 838
MwoI GCNNNNNNNGC 4 cut(s) 386, 656, 844, 1015
NarI GGCGCC 1 cut(s) 1572
NdeI CATATG 1 cut(s) 19
NdeII GATC 3 cut(s) 43, 950, 1489
NlaIV GGNNCC 4 cut(s) 499, 952, 1524, 1573
NmeAIII GCCGAG 1 cut(s) 179
NmuCI GTSAC 1 cut(s) 485
NruI TCGCGA 1 cut(s) 838
NsiI ATGCAT 2 cut(s) 382, 1221
NspI RCATGY 3 cut(s) 380, 763, 1223
NspV TTCGAA 1 cut(s) 1264
PagI TCATGA 2 cut(s) 1555, 1578
PcsI WCGNNNNNNNCGW 1 cut(s) 330
PctI GAATGC 4 cut(s) 226, 694, 935, 1362
PdmI GAANNNNTTC 1 cut(s) 694
PfeI GAWTC 3 cut(s) 1073, 1093, 1106
PflMI CCANNNNNTGG 1 cut(s) 1568
PfoI TCCNGGA 1 cut(s) 441
PleI GAGTC 3 cut(s) 123, 611, 1341
PluTI GGCGCC 1 cut(s) 1575
PmaCI CACGTG 1 cut(s) 365
PmlI CACGTG 1 cut(s) 365
PpsI GAGTC 3 cut(s) 123, 611, 1341
Ppu21I YACGTR 1 cut(s) 365
PpuMI RGGWCCY 2 cut(s) 28, 1523
PshAI GACNNNNGTC 1 cut(s) 744
PshBI ATTAAT 1 cut(s) 1035
Psp5II RGGWCCY 2 cut(s) 28, 1523
Psp6I CCWGG 4 cut(s) 426, 441, 883, 1518
PspCI CACGTG 1 cut(s) 365
PspGI CCWGG 4 cut(s) 426, 441, 883, 1518
PspN4I GGNNCC 4 cut(s) 499, 952, 1524, 1573
PspPI GGNCC 2 cut(s) 28, 1523
PspPPI RGGWCCY 2 cut(s) 28, 1523
PstNI CAGNNNCTG 1 cut(s) 1056
PsuI RGATCY 2 cut(s) 950, 1489
RruI TCGCGA 1 cut(s) 838
RsaI GTAC 4 cut(s) 151, 157, 375, 723
RsaNI GTAC 4 cut(s) 150, 156, 374, 722
SaqAI TTAA 1 cut(s) 1035
Sau3AI GATC 3 cut(s) 43, 950, 1489
Sau96I GGNCC 2 cut(s) 28, 1523
ScaI AGTACT 1 cut(s) 723
SchI GAGTC 3 cut(s) 124, 611, 1342
ScrFI CCNGG 4 cut(s) 428, 443, 885, 1520
SduI GDGCHC 2 cut(s) 1011, 1189
SfaNI GCATC 3 cut(s) 81, 184, 1228
SfoI GGCGCC 1 cut(s) 1573
SfuI TTCGAA 1 cut(s) 1264
SinI GGWCC 2 cut(s) 28, 1523
SmlI CTYRAG 3 cut(s) 122, 661, 1294
SmoI CTYRAG 3 cut(s) 122, 661, 1294
SpeI ACTAGT 2 cut(s) 152, 743
Sse9I AATT 7 cut(s) 170, 296, 550, 1177, 1246, 1259, 1370
SsiI CCGC 2 cut(s) 191, 1162
SspDI GGCGCC 1 cut(s) 1571
SspMI CTAG 8 cut(s) 60, 153, 261, 320, 633, 744, 1134, 1487
StyD4I CCNGG 4 cut(s) 426, 441, 883, 1518
StyI CCWWGG 1 cut(s) 260
TaaI ACNGT 5 cut(s) 37, 505, 881, 1052, 1152
TaiI ACGT 3 cut(s) 367, 419, 487
TaqI TCGA 2 cut(s) 577, 1264
TaqII GACCGA 1 cut(s) 1502
TasI AATT 7 cut(s) 170, 296, 550, 1177, 1246, 1259, 1370
TatI WGTACW 3 cut(s) 149, 373, 721
TfiI GAWTC 3 cut(s) 1073, 1093, 1106
Tru1I TTAA 1 cut(s) 1035
Tru9I TTAA 1 cut(s) 1035
TscAI CASTG 1 cut(s) 508
TseFI GTSAC 1 cut(s) 485
Tsp45I GTSAC 1 cut(s) 485
TspDTI ATGAA 9 cut(s) 197, 546, 851, 1085, 1221, 1317, 1484, 1544, 1567
TspGWI ACGGA 3 cut(s) 339, 629, 1304
TspRI CASTG 1 cut(s) 508
Van91I CCANNNNNTGG 1 cut(s) 1568
VneI GTGCAC 2 cut(s) 1007, 1185
VpaK11BI GGWCC 2 cut(s) 28, 1523
VspI ATTAAT 1 cut(s) 1035
XapI RAATTY 1 cut(s) 296
XbaI TCTAGA 1 cut(s) 59
XceI RCATGY 3 cut(s) 380, 763, 1223
XcmI CCANNNNNNNNNTGG 1 cut(s) 679
XmaJI CCTAGG 1 cut(s) 260
XmnI GAANNNNTTC 1 cut(s) 694
XspI CTAG 8 cut(s) 60, 153, 261, 320, 633, 744, 1134, 1487
ZrmI AGTACT 1 cut(s) 723
Zsp2I ATGCAT 2 cut(s) 382, 1221
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.