Rmu_sc0004889.1_g000023

Nucleoporin protein Ndc1-Nup

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0004889.1
OG0014392
Physical Location & Seq
Forward (+)
91885 .. 95175
3291 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0004889.1_g000023.1.cds

Sequence Viewer

Length: 1545 bp
atgcctccggcttcacctccagcgccgccggacgcggtggtccgcaaccgcttcttagggttcctgatctggcaatccatcccctccaccctcattttcctcctctccgctctctctccctcaaaaccccctttcccattcgccccatggttcttcgccgtaattaccttcctgtccttccacctctcccagctcctcttctccgcctccctctctctcatctcctccacccacccccacccactgctctcgcctctcaagctctccctcgagctcatacgcttccttttcgttccgggcggctccgatttgaccgggtcgccgggttctcgggtccgggtccgggtcaccgtccgcttcttggcgttcctggctgcggcggcggtgtccgggtccgttgcggcggtttcggtctgcggggagcttggtggtggggtttgggggattgggagagtagggtttaggggttttgtgatgggtttgctttatgggttgtattatgtgtataagcgcaggtgggtcttggagttccccattattcagctgtccggtgcggcatacctagtctcagctattctggtggtgttccttccccatcagtttcacaacagagttacaattgaaaggttgattgcggagcagattcccttctacattgggagtttcttggtgtttctctgctgggaactaagtcaccatttacatcaggtgctgaataccaagagatgcatatttgcgccgcctaaaggatcagctgcagcagaaacaaatccaactgagcatcttcttgcagctttggaggagagcactcctaattctcttcctcagtatcttgcatatcttgatctctgcatgatttgtgagaataatgttgatacttggcgaagagctgcctttttcgaagaaagtggtgaaacttacaaaagggttgtatctgtatgcttgcggcctctggagcagcttgcatcaaagctgggtgatggcttggaaagtcctgttaatggaaaatcccaaatatccaatcagttactgtcgccaaccgaccagcgactagattcaaaatactctgaacccttcgacaacttccagctatatgcatggtgtgcctggtcagctgcttcactgactgcacgctcaaatacggaggacagatttggggttgcccagagatcgggtagtaatgctgctgtgatctcaacactgatctcttgccttcttgctgttgaaacatacatgggaaagaagaccaatgttcctgcacagtttatggggccagctagtatcaaatgggcaacctcgagtgtgggaaatgttggcgtggctaaaaagagagttggccctatccatcccaaagcatatgcccttgccgatgttctcaaaaactcaatctaccatattgtgtcagcatgccatgatcagatggtgagcagtgccaaaacaggcgtgcttgagaagtattgggtcatcgaaggcaagcctccttttgggtcacacgagcttctggtgcagaaattgcgtcttttcctagattttcgagctagctaa
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

514

Amino Acids

56.48

Weight (kDa)

9.18

Isoelectric Point (pI)

45.62

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)
AarI CACCTGC 1 cut(s) 504
AasI GACNNNNNNGTC 1 cut(s) 38
Acc36I ACCTGC 1 cut(s) 504
AccBSI CCGCTC 1 cut(s) 110
AccII CGCG 1 cut(s) 35
AclWI GGATC 1 cut(s) 757
AfiI CCNNNNNNNGG 7 cut(s) 343, 361, 376, 746, 1001, 1171, 1484
AgsI TTSAA 3 cut(s) 623, 1059, 1226
AjnI CCWGG 2 cut(s) 369, 1106
Alw21I GWGCWC 2 cut(s) 276, 809
Alw26I GTCTC 1 cut(s) 571
AlwI GGATC 1 cut(s) 757
AlwNI CAGNNNCTG 2 cut(s) 712, 1030
Ama87I CYCGRG 3 cut(s) 269, 330, 1297
AoxI GGCC 3 cut(s) 947, 1271, 1336
ApeKI GCWGC 8 cut(s) 374, 755, 758, 791, 890, 958, 1115, 1184
AspLEI GCGC 3 cut(s) 25, 513, 739
AspS9I GGNCC 6 cut(s) 40, 334, 340, 393, 1271, 1337
AsuC2I CCSGG 6 cut(s) 297, 316, 324, 338, 344, 391
AsuHPI GGTGA 6 cut(s) 6, 340, 686, 923, 989, 1435
AsuII TTCGAA 1 cut(s) 900
AsuNHI GCTAGC 1 cut(s) 1538
AvaI CYCGRG 3 cut(s) 269, 330, 1297
AvaII GGWCC 4 cut(s) 40, 334, 340, 393
BanII GRGCYC 1 cut(s) 276
BauI CACGAG 1 cut(s) 1493
BbsI GAAGAC 1 cut(s) 1250
Bbv12I GWGCWC 2 cut(s) 276, 809
BbvI GCAGC 8 cut(s) 361, 742, 770, 803, 877, 970, 1102, 1171
BccI CCATC 6 cut(s) 86, 469, 603, 974, 1353, 1414
BceAI ACGGC 1 cut(s) 143
BciT130I CCWGG 2 cut(s) 371, 1108
BclI TGATCA 1 cut(s) 1414
BcnI CCSGG 6 cut(s) 297, 316, 324, 338, 344, 391
BcoDI GTCTC 1 cut(s) 571
BfaI CTAG 5 cut(s) 563, 1052, 1278, 1526, 1539
BfmI CTRYAG 1 cut(s) 756
BfoI RGCGCY 1 cut(s) 26
BfuAI ACCTGC 1 cut(s) 504
Bme1390I CCNGG 8 cut(s) 297, 316, 324, 338, 344, 371, 391, 1108
Bme18I GGWCC 4 cut(s) 40, 334, 340, 393
BmeT110I CYCGRG 3 cut(s) 269, 330, 1297
BmgT120I GGNCC 6 cut(s) 40, 334, 340, 393, 1271, 1337
BmiI GGNNCC 6 cut(s) 62, 304, 335, 341, 394, 1272
BmrFI CCNGG 8 cut(s) 297, 316, 324, 338, 344, 371, 391, 1108
BmsI GCATC 3 cut(s) 716, 790, 974
BmtI GCTAGC 1 cut(s) 1542
BpiI GAAGAC 1 cut(s) 1250
BpmI CTGGAG 1 cut(s) 974
Bpu14I TTCGAA 1 cut(s) 900
BpuEI CTTGAG 2 cut(s) 242, 1469
BpuMI CCSGG 6 cut(s) 297, 316, 324, 338, 344, 391
BsaJI CCNNGG 1 cut(s) 146
BsaWI WCCGGW 1 cut(s) 548
Bsc4I CCNNNNNNNGG 7 cut(s) 343, 361, 376, 746, 1001, 1171, 1484
BseBI CCWGG 2 cut(s) 371, 1108
BseDI CCNNGG 1 cut(s) 146
BseGI GGATG 2 cut(s) 78, 1345
BseLI CCNNNNNNNGG 7 cut(s) 343, 361, 376, 746, 1001, 1171, 1484
BseMII CTCAG 3 cut(s) 582, 768, 839
BseRI GAGGAG 4 cut(s) 92, 185, 214, 815
BseXI GCAGC 8 cut(s) 361, 742, 770, 803, 877, 970, 1102, 1171
BseYI CCCAGC 3 cut(s) 189, 681, 973
BsgI GTGCAG 3 cut(s) 1113, 1242, 1526
Bsh1236I CGCG 1 cut(s) 35
BshFI GGCC 3 cut(s) 949, 1273, 1338
BsiHKAI GWGCWC 2 cut(s) 276, 809
BsiHKCI CYCGRG 3 cut(s) 269, 330, 1297
BsiSI CCGG 9 cut(s) 8, 29, 296, 315, 323, 337, 343, 390, 549
BslI CCNNNNNNNGG 7 cut(s) 343, 361, 376, 746, 1001, 1171, 1484
BsmAI GTCTC 1 cut(s) 571
BsnI GGCC 3 cut(s) 949, 1273, 1338
BsoBI CYCGRG 3 cut(s) 269, 330, 1297
Bsp119I TTCGAA 1 cut(s) 900
Bsp1286I GDGCHC 2 cut(s) 276, 809
Bsp143I GATC 7 cut(s) 66, 749, 844, 1169, 1191, 1203, 1414
Bsp19I CCATGG 1 cut(s) 146
BspANI GGCC 3 cut(s) 949, 1273, 1338
BspCNI CTCAG 3 cut(s) 581, 769, 838
BspFNI CGCG 1 cut(s) 35
BspLI GGNNCC 6 cut(s) 62, 304, 335, 341, 394, 1272
BspMAI CTGCAG 1 cut(s) 760
BspMI ACCTGC 1 cut(s) 504
BspOI GCTAGC 1 cut(s) 1542
BspPI GGATC 1 cut(s) 757
BspQI GCTCTTC 1 cut(s) 880
BspT104I TTCGAA 1 cut(s) 900
BsrBI CCGCTC 1 cut(s) 110
BssECI CCNNGG 1 cut(s) 146
BssMI GATC 7 cut(s) 66, 749, 844, 1169, 1191, 1203, 1414
BssSI CACGAG 1 cut(s) 1493
BssT1I CCWWGG 1 cut(s) 146
Bst2BI CACGAG 1 cut(s) 1493
Bst2UI CCWGG 2 cut(s) 371, 1108
Bst4CI ACNGT 3 cut(s) 352, 1032, 1263
Bst6I CTCTTC 3 cut(s) 203, 825, 880
BstAPI GCANNNNNTGC 2 cut(s) 1103, 1513
BstBI TTCGAA 1 cut(s) 900
BstC8I GCNNGC 8 cut(s) 944, 963, 1132, 1275, 1408, 1445, 1475, 1540
BstDEI CTNAG 5 cut(s) 55, 568, 689, 777, 825
BstDSI CCRYGG 1 cut(s) 146
BstEII GGTNACC 1 cut(s) 346
BstF5I GGATG 2 cut(s) 78, 1345
BstFNI CGCG 1 cut(s) 35
BstH2I RGCGCY 1 cut(s) 26
BstHHI GCGC 3 cut(s) 25, 513, 739
BstKTI GATC 7 cut(s) 69, 752, 847, 1172, 1194, 1206, 1417
BstMAI GTCTC 1 cut(s) 571
BstMBI GATC 7 cut(s) 66, 749, 844, 1169, 1191, 1203, 1414
BstMWI GCNNNNNNNGC 8 cut(s) 259, 371, 380, 955, 1103, 1112, 1504, 1513
BstNI CCWGG 2 cut(s) 371, 1108
BstNSI RCATGY 1 cut(s) 1410
BstPI GGTNACC 1 cut(s) 346
BstSCI CCNGG 8 cut(s) 295, 314, 322, 336, 342, 369, 389, 1106
BstSFI CTRYAG 1 cut(s) 756
BstUI CGCG 1 cut(s) 35
BstV1I GCAGC 8 cut(s) 361, 742, 770, 803, 877, 970, 1102, 1171
BstV2I GAAGAC 1 cut(s) 1250
BsuRI GGCC 3 cut(s) 949, 1273, 1338
BtgI CCRYGG 1 cut(s) 146
BtsCI GGATG 2 cut(s) 78, 1345
BtsI GCAGTG 2 cut(s) 242, 1435
BtsIMutI CAGTG 4 cut(s) 242, 1121, 1199, 1435
BveI ACCTGC 1 cut(s) 504
Cac8I GCNNGC 8 cut(s) 944, 963, 1132, 1275, 1408, 1445, 1475, 1540
CaiI CAGNNNCTG 2 cut(s) 712, 1030
CfoI GCGC 3 cut(s) 25, 513, 739
Cfr13I GGNCC 6 cut(s) 40, 334, 340, 393, 1271, 1337
CseI GACGC 2 cut(s) 41, 1505
CviAII CATG 6 cut(s) 147, 853, 1098, 1234, 1407, 1412
DdeI CTNAG 5 cut(s) 55, 568, 689, 777, 825
DpnI GATC 7 cut(s) 68, 751, 846, 1171, 1193, 1205, 1416
DpnII GATC 7 cut(s) 66, 749, 844, 1169, 1191, 1203, 1414
DrdI GACNNNNNNGTC 1 cut(s) 38
DseDI GACNNNNNNGTC 1 cut(s) 38
Eam1104I CTCTTC 3 cut(s) 203, 825, 880
EarI CTCTTC 3 cut(s) 203, 825, 880
EciI GGCGGA 1 cut(s) 193
Ecl136II GAGCTC 1 cut(s) 274
Eco130I CCWWGG 1 cut(s) 146
Eco24I GRGCYC 1 cut(s) 276
Eco47I GGWCC 4 cut(s) 40, 334, 340, 393
Eco53kI GAGCTC 1 cut(s) 274
Eco88I CYCGRG 3 cut(s) 269, 330, 1297
Eco91I GGTNACC 1 cut(s) 346
EcoICRI GAGCTC 1 cut(s) 274
EcoO65I GGTNACC 1 cut(s) 346
EcoRII CCWGG 2 cut(s) 369, 1106
EcoT14I CCWWGG 1 cut(s) 146
EcoT22I ATGCAT 2 cut(s) 731, 1099
EcoT38I GRGCYC 1 cut(s) 276
ErhI CCWWGG 1 cut(s) 146
FaeI CATG 6 cut(s) 150, 856, 1101, 1237, 1410, 1415
FatI CATG 6 cut(s) 146, 852, 1097, 1233, 1406, 1411
FauI CCCGC 1 cut(s) 410
FauNDI CATATG 1 cut(s) 1357
FbaI TGATCA 1 cut(s) 1414
FokI GGATG 2 cut(s) 65, 1332
FriOI GRGCYC 1 cut(s) 276
FspBI CTAG 5 cut(s) 563, 1052, 1278, 1526, 1539
GlaI GCGC 3 cut(s) 24, 512, 738
GsaI CCCAGC 3 cut(s) 193, 685, 977
GsuI CTGGAG 1 cut(s) 974
HaeII RGCGCY 1 cut(s) 26
HaeIII GGCC 3 cut(s) 949, 1273, 1338
HapII CCGG 9 cut(s) 8, 29, 296, 315, 323, 337, 343, 390, 549
HgaI GACGC 2 cut(s) 41, 1505
HhaI GCGC 3 cut(s) 25, 513, 739
Hin1II CATG 6 cut(s) 150, 856, 1101, 1237, 1410, 1415
Hin6I GCGC 3 cut(s) 23, 511, 737
HinP1I GCGC 3 cut(s) 23, 511, 737
HinfI GANTC 2 cut(s) 643, 1055
HpaII CCGG 9 cut(s) 8, 29, 296, 315, 323, 337, 343, 390, 549
HphI GGTGA 6 cut(s) 6, 340, 686, 923, 989, 1435
Hpy188I TCNGA 3 cut(s) 307, 1069, 1419
Hpy188III TCNNGA 3 cut(s) 64, 842, 953
HpyAV CCTTC 7 cut(s) 178, 187, 599, 658, 1084, 1223, 1463
HpyCH4III ACNGT 3 cut(s) 352, 1032, 1263
HpyF10VI GCNNNNNNNGC 8 cut(s) 259, 371, 380, 955, 1103, 1112, 1504, 1513
HpyF3I CTNAG 5 cut(s) 55, 568, 689, 777, 825
Hsp92II CATG 6 cut(s) 150, 856, 1101, 1237, 1410, 1415
HspAI GCGC 3 cut(s) 23, 511, 737
Ksp22I TGATCA 1 cut(s) 1414
Kzo9I GATC 7 cut(s) 66, 749, 844, 1169, 1191, 1203, 1414
LguI GCTCTTC 1 cut(s) 880
LmnI GCTCC 5 cut(s) 198, 308, 421, 637, 955
Lsp1109I GCAGC 8 cut(s) 361, 742, 770, 803, 877, 970, 1102, 1171
LweI GCATC 3 cut(s) 716, 790, 974
MaeI CTAG 5 cut(s) 563, 1052, 1278, 1526, 1539
MaeIII GTNAC 5 cut(s) 346, 613, 692, 1026, 1488
MalI GATC 7 cut(s) 68, 751, 846, 1171, 1193, 1205, 1416
MbiI CCGCTC 1 cut(s) 110
MboI GATC 7 cut(s) 66, 749, 844, 1169, 1191, 1203, 1414
MboII GAAGA 7 cut(s) 145, 190, 776, 812, 897, 914, 1255
MfeI CAATTG 1 cut(s) 618
MhlI GDGCHC 2 cut(s) 276, 809
MluCI AATT 4 cut(s) 162, 618, 814, 1511
MmeI TCCRAC 1 cut(s) 797
Mph1103I ATGCAT 2 cut(s) 731, 1099
MseI TTAA 1 cut(s) 999
MspA1I CMGCKG 3 cut(s) 544, 755, 1115
MspI CCGG 9 cut(s) 8, 29, 296, 315, 323, 337, 343, 390, 549
MspR9I CCNGG 8 cut(s) 297, 316, 324, 338, 344, 371, 391, 1108
MunI CAATTG 1 cut(s) 618
MvaI CCWGG 2 cut(s) 371, 1108
MvnI CGCG 1 cut(s) 35
MwoI GCNNNNNNNGC 8 cut(s) 259, 371, 380, 955, 1103, 1112, 1504, 1513
NciI CCSGG 6 cut(s) 297, 316, 324, 338, 344, 391
NcoI CCATGG 1 cut(s) 146
NdeI CATATG 1 cut(s) 1357
NdeII GATC 7 cut(s) 66, 749, 844, 1169, 1191, 1203, 1414
NheI GCTAGC 1 cut(s) 1538
NlaIII CATG 6 cut(s) 150, 856, 1101, 1237, 1410, 1415
NlaIV GGNNCC 6 cut(s) 62, 304, 335, 341, 394, 1272
NmuCI GTSAC 3 cut(s) 346, 692, 1488
NsiI ATGCAT 2 cut(s) 731, 1099
NspI RCATGY 1 cut(s) 1410
NspV TTCGAA 1 cut(s) 900
PaeI GCATGC 1 cut(s) 1410
PaeR7I CTCGAG 2 cut(s) 269, 1297
PaqCI CACCTGC 1 cut(s) 504
PciSI GCTCTTC 1 cut(s) 880
PfeI GAWTC 2 cut(s) 643, 1055
PflFI GACNNNGTC 1 cut(s) 316
Psp124BI GAGCTC 1 cut(s) 276
Psp6I CCWGG 2 cut(s) 369, 1106
PspEI GGTNACC 1 cut(s) 346
PspFI CCCAGC 3 cut(s) 189, 681, 973
PspGI CCWGG 2 cut(s) 369, 1106
PspN4I GGNNCC 6 cut(s) 62, 304, 335, 341, 394, 1272
PspPI GGNCC 6 cut(s) 40, 334, 340, 393, 1271, 1337
PspXI VCTCGAGB 2 cut(s) 269, 1297
PstI CTGCAG 1 cut(s) 760
PstNI CAGNNNCTG 2 cut(s) 712, 1030
PsyI GACNNNGTC 1 cut(s) 316
PvuII CAGCTG 3 cut(s) 544, 755, 1115
SacI GAGCTC 1 cut(s) 276
SapI GCTCTTC 1 cut(s) 880
SaqAI TTAA 1 cut(s) 999
Sau3AI GATC 7 cut(s) 66, 749, 844, 1169, 1191, 1203, 1414
Sau96I GGNCC 6 cut(s) 40, 334, 340, 393, 1271, 1337
ScrFI CCNGG 8 cut(s) 297, 316, 324, 338, 344, 371, 391, 1108
SduI GDGCHC 2 cut(s) 276, 809
SfaNI GCATC 3 cut(s) 716, 790, 974
SfcI CTRYAG 1 cut(s) 756
Sfr274I CTCGAG 2 cut(s) 269, 1297
SfuI TTCGAA 1 cut(s) 900
SinI GGWCC 4 cut(s) 40, 334, 340, 393
SlaI CTCGAG 2 cut(s) 269, 1297
SmlI CTYRAG 4 cut(s) 257, 269, 1297, 1448
SmoI CTYRAG 4 cut(s) 257, 269, 1297, 1448
SphI GCATGC 1 cut(s) 1410
Sse9I AATT 4 cut(s) 162, 618, 814, 1511
SspMI CTAG 5 cut(s) 563, 1052, 1278, 1526, 1539
SstI GAGCTC 1 cut(s) 276
StyD4I CCNGG 8 cut(s) 295, 314, 322, 336, 342, 369, 389, 1106
StyI CCWWGG 1 cut(s) 146
TaaI ACNGT 3 cut(s) 352, 1032, 1263
TaqI TCGA 6 cut(s) 270, 900, 1077, 1298, 1467, 1534
TaqII GACCGA 1 cut(s) 400
TasI AATT 4 cut(s) 162, 618, 814, 1511
TauI GCSGC 8 cut(s) 28, 303, 380, 383, 404, 557, 742, 949
TfiI GAWTC 2 cut(s) 643, 1055
Tru1I TTAA 1 cut(s) 999
Tru9I TTAA 1 cut(s) 999
TscAI CASTG 4 cut(s) 249, 1128, 1206, 1435
TseFI GTSAC 3 cut(s) 346, 692, 1488
TseI GCWGC 8 cut(s) 374, 755, 758, 791, 890, 958, 1115, 1184
Tsp45I GTSAC 3 cut(s) 346, 692, 1488
TspGWI ACGGA 2 cut(s) 385, 1157
TspRI CASTG 4 cut(s) 249, 1128, 1206, 1435
Tth111I GACNNNGTC 1 cut(s) 316
VpaK11BI GGWCC 4 cut(s) 40, 334, 340, 393
XceI RCATGY 1 cut(s) 1410
XcmI CCANNNNNNNNNTGG 1 cut(s) 144
XhoI CTCGAG 2 cut(s) 269, 1297
XspI CTAG 5 cut(s) 563, 1052, 1278, 1526, 1539
Zsp2I ATGCAT 2 cut(s) 731, 1099
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.