Prupe.4G086400_v2.0.a1

Nucleoporin protein Ndc1-Nup

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
prunus_persica
Pp04
OG0014392
Physical Location & Seq
Forward (+)
4256141 .. 4260663
4523 bp
Loading structure...
UTR
Exon/CDS
Intron
Prupe.4G086400.1

Sequence Viewer

Length: 1632 bp
ATGGCTTCATCTTCGCCACCAGGCACGGTGGTCCACAACCGCTTGTTAGGGTTCCTCATATGGCAATCTATCCCCTCCACTGTCATCTTCTTCATCTTCAAAACCCTCTCATCAACCATCTCTTCCACTTCTCACTCCACCGTCAAACCCCCATTCCCATTTGCCCCGTCTGTTTTTGCCTTTATTACATTCTTGACCTTCCACCTTTCACAGCTTCTCTTCTCCTTCTCACTATCCCTCATCTCCTCACCCCACCCCCACCGCCTAGCCTCTCCTCTTCAGCTCGCTCTCGGCCTCATTCGCTTCCTTTTCGTTCCCGGTGGCTCCGAGTTATCGGAGTCTCCCGAGTCTCGGGTTCGGGCTAAGTTATCGATCGGGTTCCTGCTGTTTTTGGCAGCGGTGGCGGTTTCGGGGTTCGTTGCTATGGTTTCGGTGTGTGTGAAATTTGGTGATGGGGTTGGGGTGATTGGGGCAGTGGGGTTTAGGGGTTTTGTGATGGGTTTGCTTTATGGCTTGTATTATGTCTATTACCGCAGATGGGTCTTCGAGTTTCCCATTATTCAGCGTCCTCCTTTTTTCAGCTTCAAGATGGGACTCCCTTCGGCTATCACACGATCCTTGAAGCTATCCTGCCTGGCATCCCTGTTTTCAGCTTTTCTGGTGGTGTTTCTGCCCCACCAGCTTCAGAACCAAGCTACAATCGGAAAGGTCATTGCTGAGCAGATTATATTTTACATTGGGAGTTTCTTAGTGTTTCTCTGCTGGGAAATAAGTCACCATTTACATCAGGTGCTTCATACAAAGAGGTTTGTATTTGCACCACCTAAAGGATCAGCAGCAGCAGAAACAAATCCAAGTGAGCATCTCCTTTCAGCTCTGGAAGAAAGCAGTCCTAATTCTCTTCTCCAGTATCTTGCATATCTTGATCTCTATATGGTTTGTGAGAATAATGTTGATACTTGGCGACGAGCTGCATTTTTTGAAGAAAGTGGTGAAACTTACAAAAGAGTTATATATGTATGCTTGCGGCCTCTGGAGCAGCTTGCATCAAAGTTGGGCGAAGGCTTGGAAAGTTCTGTTGAAAAAAGCTCCCAAATATCGAATCAGTTACTGTCGCCAACTGACCAGCGCCTAGACCCAAAATACTCTGAGCCATTGAACAACTTCCAGCTATATGCATGGTGTGCCTGGACGGCTGCCTCACTGACTACATGCTCACACAGAGAGGACAGATTTGGGGTTGCCCAGCTTTCTGGCAGTAATGCCTCTGTGATATCAACACTGATTTCTTGTCTTCTTGCTGTTGAATCATACATGGGGAAGAAGACCAGTTTGCAATCTGCACAGCATTTTATGGGGTCGACTGGTTTTAAATTGAGAACCTCGAGTGTGGGGAATATTGGCATGGGTAAAAAGAGAGCTGGCCCCCTTCATTCAAAAGCATATGCCATTGCTGATGTTCTGAGGAACTCAATCTACCATATTGTGTCTACTTTCCATGATCAGATGGCAAGCAGTGCTAAGAAGGGTCTTCTTGAGAAGGATTGGATCATCAGTGACAAGCCTCCTTTTGGAACACGCGAGCTTCTCGTGCAGAAATTGCATCTTTTCCTGGACTTTCGAGCTAGCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03013 map03013
Pfam Domains
Protein Families
Ndc1_Nup

Protein Analysis

544

Amino Acids

60.18

Weight (kDa)

9.3

Isoelectric Point (pI)

46.4

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: OG0014392)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G73240
fragaria_vesca FvH4_3g04970
malus_domestica MD05G1278400.v1.1 MD10G1257000.v1.1
prunus_persica Prupe.4G086400_v2.0.a1
pyrus_communis pycom05g25900 pycom10g21270
rosa_chinensis RchiOBHm_Chr5g0015011
rosa_laevigata RLG00000032160
rosa_multiflora Rmu_sc0004889.1_g000023
rosa_roxburghii Rroxscaffold_1G00061530
rosa_rugosa Rorug05G0022800
rosa_samantha Rh5AG118000 Rh5BG115200 Rh5CG126500 Rh5DG114700
rosa_wichuraiana Rw5G010170

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 1361, 1490
AccII CGCG 1 cut(s) 1581
AciI CCGC 6 cut(s) 40, 262, 398, 404, 532, 1027
AclWI GGATC 3 cut(s) 609, 838, 1556
AcsI RAATTY 1 cut(s) 443
AcuI CTGAAG 2 cut(s) 263, 668
AfiI CCNNNNNNNGG 4 cut(s) 351, 538, 827, 1571
AgsI TTSAA 8 cut(s) 100, 586, 622, 983, 1082, 1159, 1307, 1437
AjnI CCWGG 4 cut(s) 19, 633, 1187, 1611
Alw26I GTCTC 2 cut(s) 345, 354
AlwI GGATC 3 cut(s) 609, 838, 1556
AlwNI CAGNNNCTG 1 cut(s) 1111
Ama87I CYCGRG 3 cut(s) 344, 351, 1384
AoxI GGCC 3 cut(s) 292, 1028, 1423
ApeKI GCWGC 6 cut(s) 395, 836, 839, 971, 1039, 1196
ApoI RAATTY 1 cut(s) 443
Asp700I GAANNNNTTC 1 cut(s) 1163
AspLEI GCGC 1 cut(s) 1131
AspS9I GGNCC 2 cut(s) 31, 1424
AsuC2I CCSGG 1 cut(s) 318
AsuHPI GGTGA 5 cut(s) 240, 461, 475, 767, 1004
AsuNHI GCTAGC 1 cut(s) 1625
AvaI CYCGRG 3 cut(s) 344, 351, 1384
AvaII GGWCC 1 cut(s) 31
BauI CACGAG 1 cut(s) 1589
BbsI GAAGAC 4 cut(s) 535, 1286, 1331, 1523
BbvI GCAGC 6 cut(s) 407, 848, 851, 958, 1051, 1183
BccI CCATC 6 cut(s) 125, 446, 490, 531, 583, 1501
BceAI ACGGC 1 cut(s) 1209
BciT130I CCWGG 4 cut(s) 21, 635, 1189, 1613
BclI TGATCA 1 cut(s) 1501
BcnI CCSGG 1 cut(s) 318
BcoDI GTCTC 2 cut(s) 345, 354
BfaI CTAG 3 cut(s) 266, 1133, 1626
BfoI RGCGCY 1 cut(s) 1132
BglI GCCNNNNNGGC 1 cut(s) 1193
BisI GCNGC 7 cut(s) 396, 837, 840, 972, 1028, 1040, 1197
BlpI GCTNAGC 1 cut(s) 717
BlsI GCNGC 7 cut(s) 397, 838, 841, 973, 1029, 1041, 1198
Bme1390I CCNGG 5 cut(s) 21, 318, 635, 1189, 1613
Bme18I GGWCC 1 cut(s) 31
BmeT110I CYCGRG 3 cut(s) 344, 351, 1384
BmgT120I GGNCC 2 cut(s) 31, 1424
BmiI GGNNCC 4 cut(s) 53, 325, 380, 1426
BmrFI CCNGG 5 cut(s) 21, 318, 635, 1189, 1613
BmsI GCATC 4 cut(s) 647, 871, 1055, 1612
BmtI GCTAGC 1 cut(s) 1629
BpiI GAAGAC 4 cut(s) 535, 1286, 1331, 1523
BpmI CTGGAG 2 cut(s) 890, 1055
Bpu1102I GCTNAGC 1 cut(s) 717
BpuEI CTTGAG 1 cut(s) 1556
BpuMI CCSGG 1 cut(s) 318
Bsa29I ATCGAT 1 cut(s) 371
Bsc4I CCNNNNNNNGG 4 cut(s) 351, 538, 827, 1571
Bse1I ACTGG 3 cut(s) 907, 1329, 1369
Bse3DI GCAATG 2 cut(s) 711, 1449
BseBI CCWGG 4 cut(s) 21, 635, 1189, 1613
BseCI ATCGAT 1 cut(s) 371
BseGI GGATG 1 cut(s) 638
BseLI CCNNNNNNNGG 4 cut(s) 351, 538, 827, 1571
BseMI GCAATG 2 cut(s) 711, 1449
BseMII CTCAG 3 cut(s) 708, 1140, 1454
BseNI ACTGG 3 cut(s) 907, 1329, 1369
BseRI GAGGAG 2 cut(s) 235, 264
BseXI GCAGC 6 cut(s) 407, 848, 851, 958, 1051, 1183
BseYI CCCAGC 2 cut(s) 762, 1245
BsgI GTGCAG 2 cut(s) 1326, 1613
Bsh1236I CGCG 1 cut(s) 1581
Bsh1285I CGRYCG 1 cut(s) 375
BshFI GGCC 3 cut(s) 294, 1030, 1425
BshVI ATCGAT 1 cut(s) 371
BsiEI CGRYCG 1 cut(s) 375
BsiHKCI CYCGRG 3 cut(s) 344, 351, 1384
BsiSI CCGG 1 cut(s) 318
BslFI GGGAC 1 cut(s) 606
BslI CCNNNNNNNGG 4 cut(s) 351, 538, 827, 1571
BsmAI GTCTC 2 cut(s) 345, 354
BsmFI GGGAC 1 cut(s) 606
BsnI GGCC 3 cut(s) 294, 1030, 1425
BsoBI CYCGRG 3 cut(s) 344, 351, 1384
Bsp143I GATC 6 cut(s) 372, 614, 830, 925, 1501, 1548
Bsp1720I GCTNAGC 1 cut(s) 717
BspACI CCGC 6 cut(s) 40, 262, 398, 404, 532, 1027
BspANI GGCC 3 cut(s) 294, 1030, 1425
BspCNI CTCAG 3 cut(s) 709, 1141, 1455
BspDI ATCGAT 1 cut(s) 371
BspFNI CGCG 1 cut(s) 1581
BspLI GGNNCC 4 cut(s) 53, 325, 380, 1426
BspOI GCTAGC 1 cut(s) 1629
BspPI GGATC 3 cut(s) 609, 838, 1556
BsrDI GCAATG 2 cut(s) 711, 1449
BsrI ACTGG 3 cut(s) 907, 1329, 1369
BssMI GATC 6 cut(s) 372, 614, 830, 925, 1501, 1548
BssSI CACGAG 1 cut(s) 1589
Bst2BI CACGAG 1 cut(s) 1589
Bst2UI CCWGG 4 cut(s) 21, 635, 1189, 1613
Bst4CI ACNGT 4 cut(s) 28, 82, 142, 1113
Bst6I CTCTTC 4 cut(s) 127, 224, 282, 906
BstAPI GCANNNNNTGC 3 cut(s) 1184, 1517, 1600
BstC8I GCNNGC 7 cut(s) 285, 1025, 1044, 1423, 1513, 1583, 1627
BstDEI CTNAG 6 cut(s) 363, 717, 748, 1149, 1463, 1521
BstF5I GGATG 1 cut(s) 638
BstFNI CGCG 1 cut(s) 1581
BstH2I RGCGCY 1 cut(s) 1132
BstHHI GCGC 1 cut(s) 1131
BstKTI GATC 6 cut(s) 375, 617, 833, 928, 1504, 1551
BstMAI GTCTC 2 cut(s) 345, 354
BstMBI GATC 6 cut(s) 372, 614, 830, 925, 1501, 1548
BstMCI CGRYCG 1 cut(s) 375
BstMWI GCNNNNNNNGC 9 cut(s) 300, 401, 679, 1036, 1184, 1193, 1517, 1591, 1600
BstNI CCWGG 4 cut(s) 21, 635, 1189, 1613
BstNSI RCATGY 1 cut(s) 1215
BstSCI CCNGG 5 cut(s) 19, 316, 633, 1187, 1611
BstUI CGCG 1 cut(s) 1581
BstV1I GCAGC 6 cut(s) 407, 848, 851, 958, 1051, 1183
BstV2I GAAGAC 4 cut(s) 535, 1286, 1331, 1523
BstXI CCANNNNNNTGG 1 cut(s) 1253
Bsu15I ATCGAT 1 cut(s) 371
BsuRI GGCC 3 cut(s) 294, 1030, 1425
BsuTUI ATCGAT 1 cut(s) 371
BtsCI GGATG 1 cut(s) 638
BtsI GCAGTG 2 cut(s) 480, 1522
BtsIMutI CAGTG 6 cut(s) 78, 480, 1202, 1280, 1522, 1561
Cac8I GCNNGC 7 cut(s) 285, 1025, 1044, 1423, 1513, 1583, 1627
CaiI CAGNNNCTG 1 cut(s) 1111
CfoI GCGC 1 cut(s) 1131
Cfr13I GGNCC 2 cut(s) 31, 1424
ClaI ATCGAT 1 cut(s) 371
CseI GACGC 1 cut(s) 554
CviAII CATG 5 cut(s) 1179, 1212, 1315, 1405, 1499
DdeI CTNAG 6 cut(s) 363, 717, 748, 1149, 1463, 1521
DpnI GATC 6 cut(s) 374, 616, 832, 927, 1503, 1550
DpnII GATC 6 cut(s) 372, 614, 830, 925, 1501, 1548
DraI TTTAAA 1 cut(s) 1372
Eam1104I CTCTTC 4 cut(s) 127, 224, 282, 906
EarI CTCTTC 4 cut(s) 127, 224, 282, 906
Eco32I GATATC 1 cut(s) 1275
Eco47I GGWCC 1 cut(s) 31
Eco57I CTGAAG 2 cut(s) 263, 668
Eco88I CYCGRG 3 cut(s) 344, 351, 1384
EcoRII CCWGG 4 cut(s) 19, 633, 1187, 1611
EcoRV GATATC 1 cut(s) 1275
EcoT22I ATGCAT 1 cut(s) 1180
FaeI CATG 5 cut(s) 1182, 1215, 1318, 1408, 1502
FaqI GGGAC 1 cut(s) 606
FatI CATG 5 cut(s) 1178, 1211, 1314, 1404, 1498
FauNDI CATATG 2 cut(s) 59, 1444
FbaI TGATCA 1 cut(s) 1501
FblI GTMKAC 2 cut(s) 1361, 1490
Fnu4HI GCNGC 7 cut(s) 396, 837, 840, 972, 1028, 1040, 1197
FokI GGATG 1 cut(s) 625
Fsp4HI GCNGC 7 cut(s) 396, 837, 840, 972, 1028, 1040, 1197
FspBI CTAG 3 cut(s) 266, 1133, 1626
GlaI GCGC 1 cut(s) 1130
GluI GCNGC 7 cut(s) 396, 837, 840, 972, 1028, 1040, 1197
GsaI CCCAGC 2 cut(s) 766, 1249
GsuI CTGGAG 2 cut(s) 890, 1055
HaeII RGCGCY 1 cut(s) 1132
HaeIII GGCC 3 cut(s) 294, 1030, 1425
HapII CCGG 1 cut(s) 318
HgaI GACGC 1 cut(s) 554
HhaI GCGC 1 cut(s) 1131
Hin1II CATG 5 cut(s) 1182, 1215, 1318, 1408, 1502
Hin6I GCGC 1 cut(s) 1129
HinP1I GCGC 1 cut(s) 1129
HincII GTYRAC 1 cut(s) 1362
HindII GTYRAC 1 cut(s) 1362
HinfI GANTC 5 cut(s) 338, 347, 594, 1102, 1307
HpaII CCGG 1 cut(s) 318
HphI GGTGA 5 cut(s) 240, 461, 475, 767, 1004
Hpy166II GTNNAC 3 cut(s) 34, 1362, 1491
Hpy188I TCNGA 7 cut(s) 328, 337, 687, 704, 1150, 1464, 1506
Hpy188III TCNNGA 7 cut(s) 193, 344, 586, 878, 923, 1034, 1535
Hpy8I GTNNAC 3 cut(s) 34, 1362, 1491
Hpy99I CGWCG 1 cut(s) 969
HpyAV CCTTC 7 cut(s) 208, 235, 609, 1055, 1439, 1519, 1534
HpyCH4III ACNGT 4 cut(s) 28, 82, 142, 1113
HpyCH4V TGCA 9 cut(s) 818, 917, 974, 1046, 1178, 1336, 1343, 1594, 1603
HpyF10VI GCNNNNNNNGC 9 cut(s) 300, 401, 679, 1036, 1184, 1193, 1517, 1591, 1600
HpyF3I CTNAG 6 cut(s) 363, 717, 748, 1149, 1463, 1521
Hsp92II CATG 5 cut(s) 1182, 1215, 1318, 1408, 1502
HspAI GCGC 1 cut(s) 1129
Ksp22I TGATCA 1 cut(s) 1501
Kzo9I GATC 6 cut(s) 372, 614, 830, 925, 1501, 1548
LmnI GCTCC 3 cut(s) 329, 1036, 1094
Lsp1109I GCAGC 6 cut(s) 407, 848, 851, 958, 1051, 1183
LweI GCATC 4 cut(s) 647, 871, 1055, 1612
MaeI CTAG 3 cut(s) 266, 1133, 1626
MaeIII GTNAC 3 cut(s) 773, 1107, 1556
MalI GATC 6 cut(s) 374, 616, 832, 927, 1503, 1550
MboI GATC 6 cut(s) 372, 614, 830, 925, 1501, 1548
MluCI AATT 4 cut(s) 443, 895, 1373, 1598
MlyI GAGTC 3 cut(s) 347, 356, 588
Mph1103I ATGCAT 1 cut(s) 1180
MroXI GAANNNNTTC 1 cut(s) 1163
MseI TTAA 1 cut(s) 1371
MspA1I CMGCKG 1 cut(s) 398
MspI CCGG 1 cut(s) 318
MspR9I CCNGG 5 cut(s) 21, 318, 635, 1189, 1613
MvaI CCWGG 4 cut(s) 21, 635, 1189, 1613
MvnI CGCG 1 cut(s) 1581
MwoI GCNNNNNNNGC 9 cut(s) 300, 401, 679, 1036, 1184, 1193, 1517, 1591, 1600
NciI CCSGG 1 cut(s) 318
NdeI CATATG 2 cut(s) 59, 1444
NdeII GATC 6 cut(s) 372, 614, 830, 925, 1501, 1548
NheI GCTAGC 1 cut(s) 1625
NlaIII CATG 5 cut(s) 1182, 1215, 1318, 1408, 1502
NlaIV GGNNCC 4 cut(s) 53, 325, 380, 1426
NmeAIII GCCGAG 1 cut(s) 270
NmuCI GTSAC 2 cut(s) 773, 1556
NsiI ATGCAT 1 cut(s) 1180
NspI RCATGY 1 cut(s) 1215
PaeR7I CTCGAG 1 cut(s) 1384
PdmI GAANNNNTTC 1 cut(s) 1163
PfeI GAWTC 2 cut(s) 1102, 1307
PfoI TCCNGGA 1 cut(s) 1611
PkrI GCNGC 7 cut(s) 397, 838, 841, 973, 1029, 1041, 1198
Ple19I CGATCG 1 cut(s) 375
PleI GAGTC 3 cut(s) 346, 355, 588
PpsI GAGTC 3 cut(s) 346, 355, 588
Psp6I CCWGG 4 cut(s) 19, 633, 1187, 1611
PspFI CCCAGC 2 cut(s) 762, 1245
PspGI CCWGG 4 cut(s) 19, 633, 1187, 1611
PspN4I GGNNCC 4 cut(s) 53, 325, 380, 1426
PspPI GGNCC 2 cut(s) 31, 1424
PspXI VCTCGAGB 1 cut(s) 1384
PsrI GAACNNNNNNTAC 2 cut(s) 1460, 1492
PstNI CAGNNNCTG 1 cut(s) 1111
PvuI CGATCG 1 cut(s) 375
SalI GTCGAC 1 cut(s) 1360
SaqAI TTAA 1 cut(s) 1371
SatI GCNGC 7 cut(s) 396, 837, 840, 972, 1028, 1040, 1197
Sau3AI GATC 6 cut(s) 372, 614, 830, 925, 1501, 1548
Sau96I GGNCC 2 cut(s) 31, 1424
SchI GAGTC 3 cut(s) 347, 356, 588
ScrFI CCNGG 5 cut(s) 21, 318, 635, 1189, 1613
SfaNI GCATC 4 cut(s) 647, 871, 1055, 1612
Sfr274I CTCGAG 1 cut(s) 1384
SinI GGWCC 1 cut(s) 31
SlaI CTCGAG 1 cut(s) 1384
SmlI CTYRAG 2 cut(s) 1384, 1535
SmoI CTYRAG 2 cut(s) 1384, 1535
Sse9I AATT 4 cut(s) 443, 895, 1373, 1598
SsiI CCGC 6 cut(s) 40, 262, 398, 404, 532, 1027
SspI AATATT 1 cut(s) 1399
SspMI CTAG 3 cut(s) 266, 1133, 1626
StyD4I CCNGG 5 cut(s) 19, 316, 633, 1187, 1611
TaaI ACNGT 4 cut(s) 28, 82, 142, 1113
TaqI TCGA 6 cut(s) 371, 546, 1100, 1361, 1385, 1621
TasI AATT 4 cut(s) 443, 895, 1373, 1598
TauI GCSGC 1 cut(s) 1030
TfiI GAWTC 2 cut(s) 1102, 1307
Tru1I TTAA 1 cut(s) 1371
Tru9I TTAA 1 cut(s) 1371
TscAI CASTG 6 cut(s) 85, 480, 1209, 1287, 1522, 1561
TseFI GTSAC 2 cut(s) 773, 1556
TseI GCWGC 6 cut(s) 395, 836, 839, 971, 1039, 1196
Tsp45I GTSAC 2 cut(s) 773, 1556
TspDTI ATGAA 3 cut(s) 82, 785, 1421
TspRI CASTG 6 cut(s) 85, 480, 1209, 1287, 1522, 1561
VpaK11BI GGWCC 1 cut(s) 31
XapI RAATTY 1 cut(s) 443
XceI RCATGY 1 cut(s) 1215
XhoI CTCGAG 1 cut(s) 1384
XmiI GTMKAC 2 cut(s) 1361, 1490
XmnI GAANNNNTTC 1 cut(s) 1163
XspI CTAG 3 cut(s) 266, 1133, 1626
Zsp2I ATGCAT 1 cut(s) 1180
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.