Rh5DG040600

NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0015568
Physical Location & Seq
Forward (+)
3021204 .. 3023499
2296 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG040600.1

Sequence Viewer

Length: 1551 bp
ATGGCAATGTTCTGTGATCTCCAAGTCGATGTCAATGGCGAAGAAGTCTTCATGGTGAACAAGAAAACTTTGGCGTCTTTCTCTTGTCGATTAAGCAAACTATTTGGTAAATCAATGGGTACAACGAGCCTCAAAGTGATATTCCATGACTTTCCTGGAGGTGCAGAGGGTTTTGAGCTCATGACAAGGTTTTGTTACAACAATGGAACAACCGAAATAACTCCTTCCAACTTAGTCCTTGTATACTGCATCGCCGATTTCATGGAGATGGATGGTGATATACTATTGCAAGCTCAAAACACTCTTGATGGTATCAGCTCTTGGACGTGGTCTGAGCTTCTAGTAGCTCTGAAGCAGTGCCAAGATTTACTTGCCCCCTCAAATTCTTCATTGATATTGCAGATAGTCATGGACTGCATCATAGGCAAGCTTTCTTGTCCATTTTTTCCAACCCCCAATGATACTACTTCATCAGAGAACGTGAGTAGTTTCCAGTTTTCTAGTGGTTGGAGGAGCAGTTATAATCTGAAAAGTAATTGCTCTATGAAAACATGGTGGTTTGAAGACTTGATGTTCTTAAATACCAAATCGATCGAAATGGTTATAAGAAGCCTGATATCCAAGGAGATTGAACAGTCTACAGTTTTCAAGTTTCTCCTTTGTTATCATCAGTCCAAGTGTTTTGGTGCCAAACCAGAAGAGAAGTACAAGATCACAGAGGTTGTTATCGGTCTACTTTCTCTGCTTGATAGGAGCTCCCTTTCTTTCAAGGGATTATTCAATATATATCAAGCGGCTTTGAACATGAAAGTAGGCAAGAAATACAAAAACAAGTTGGAGATTATGATAGGTTCACAGCTGGATCAAGCAACAATCGATTATTTACTTGTTCCATCTCCCTGTGGGAAAAAGTATGTTTATGATGTGAATTTGATTTTGAGGTTAGGGAAATCATTTCTTCTTCAAGAAGGGGGTCATTTATCCCAGAAGAGTCGCTTCACAAAGGTCGCCAAGTTAATGGATTTATACCTTGCAGAAGTGGCTCCAGATTTTCATTTGAAACCTTCAAAGTTTGCAGCATTAGTTATGATGTTGCCAGCGTCTGTGCGAGAATCTCATGACAGACTTTACGAGGCCATTGCTGTATATTTTAAGTGCCACACTGGTCTATCTGAACAAGAGAAGCTGACAATCTGTTGTGCACTGAACTATAAGAAGCTCTCAGTAGGACCTTTGAAACAAGCCTCTCGCACAAAGTTCCCTTCCAGAAGAGCAGTTGAAGCTTTCAAGAAACAGCGATCCAAGCTCAGAAGCGTACTCCAGGAAGTCTACTACATCCGAACCAAGGATAAGAAAGAGGAAATTGAGTCGGTCCTACTTGACGCAAAGAGTCTTGATCTCCCAACAGAGGCTCAGAAGCTCAGTGCAGATTCAGCATTGGAATTGGGGAAGGTTTTCGGGACAATGCAGATACAAGTGACAAGTGTAATCAAATCAAGATCGCCCTTTCAGGCAACCAATACTCGATACTTGCCAAAACTCTTTCCATAA
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
NPH3

Protein Analysis

516

Amino Acids

58.29

Weight (kDa)

8.96

Isoelectric Point (pI)

41.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 184 - 409 3.4e-54 NPH3 family
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: OG0015568)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g03040
malus_domestica MD05G1335300.v1.1
prunus_persica Prupe.4G030100_v2.0.a1 Prupe.4G030100_v2.0.a1 Prupe.4G030100_v2.0.a1 Prupe.4G030100_v2.0.a1
pyrus_communis pycom05g30670
rosa_chinensis RchiOBHm_Chr5g0004691
rosa_laevigata RLG00000031252
rosa_roxburghii Rroxscaffold_1G00070870
rosa_rugosa Rorug04G0413300
rosa_samantha Rh5AG040900 Rh5BG040600 Rh5CG044400 Rh5DG040600
rosa_wichuraiana Rw5G003940

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 522, 605
AccB1I GGYRCC 1 cut(s) 686
AccI GTMKAC 4 cut(s) 243, 638, 733, 1329
AciI CCGC 1 cut(s) 794
AclWI GGATC 2 cut(s) 870, 1293
AcsI RAATTY 2 cut(s) 382, 928
AcuI CTGAAG 1 cut(s) 371
AcyI GRCGYC 1 cut(s) 74
AfaI GTAC 3 cut(s) 121, 707, 1317
AfiI CCNNNNNNNGG 2 cut(s) 1345, 1408
AjiI CACGTC 1 cut(s) 327
AjnI CCWGG 2 cut(s) 154, 1320
Alw21I GWGCWC 3 cut(s) 180, 758, 1204
Alw44I GTGCAC 1 cut(s) 1200
AlwI GGATC 2 cut(s) 870, 1293
AlwNI CAGNNNCTG 1 cut(s) 1103
AoxI GGCC 1 cut(s) 1134
ApaLI GTGCAC 1 cut(s) 1200
ApeKI GCWGC 1 cut(s) 1076
ApoI RAATTY 2 cut(s) 382, 928
Asp700I GAANNNNTTC 1 cut(s) 1454
AspS9I GGNCC 2 cut(s) 1229, 1372
AsuHPI GGTGA 2 cut(s) 67, 287
AvaII GGWCC 2 cut(s) 1229, 1372
BaeGI GKGCMC 1 cut(s) 1204
BanI GGYRCC 1 cut(s) 686
BanII GRGCYC 2 cut(s) 180, 758
BbsI GAAGAC 2 cut(s) 40, 570
Bbv12I GWGCWC 3 cut(s) 180, 758, 1204
BbvI GCAGC 1 cut(s) 1088
BccI CCATC 4 cut(s) 262, 266, 302, 901
BcgI CGANNNNNNTGC 2 cut(s) 1121, 1155
BciT130I CCWGG 2 cut(s) 156, 1322
BfaI CTAG 2 cut(s) 341, 501
BfmI CTRYAG 1 cut(s) 639
BisI GCNGC 2 cut(s) 795, 1077
BlsI GCNGC 2 cut(s) 796, 1078
Bme1390I CCNGG 2 cut(s) 156, 1322
Bme18I GGWCC 2 cut(s) 1229, 1372
BmgBI CACGTC 1 cut(s) 327
BmgT120I GGNCC 2 cut(s) 1229, 1372
BmiI GGNNCC 2 cut(s) 688, 1044
BmrFI CCNGG 2 cut(s) 156, 1322
BmsI GCATC 2 cut(s) 258, 426
BpiI GAAGAC 2 cut(s) 40, 570
BpmI CTGGAG 3 cut(s) 177, 1029, 1304
Bsa29I ATCGAT 2 cut(s) 590, 876
BsaHI GRCGYC 1 cut(s) 74
BsaJI CCNNGG 2 cut(s) 621, 1344
BsaXI ACNNNNNCTCC 2 cut(s) 502, 532
Bsc4I CCNNNNNNNGG 2 cut(s) 1345, 1408
Bse1I ACTGG 2 cut(s) 493, 1168
Bse3DI GCAATG 2 cut(s) 12, 1137
BseBI CCWGG 2 cut(s) 156, 1322
BseCI ATCGAT 2 cut(s) 590, 876
BseDI CCNNGG 2 cut(s) 621, 1344
BseGI GGATG 2 cut(s) 277, 1335
BseLI CCNNNNNNNGG 2 cut(s) 1345, 1408
BseMI GCAATG 2 cut(s) 12, 1137
BseMII CTCAG 5 cut(s) 324, 1236, 1321, 1427, 1435
BseNI ACTGG 2 cut(s) 493, 1168
BseRI GAGGAG 1 cut(s) 526
BseSI GKGCMC 1 cut(s) 1204
BseXI GCAGC 1 cut(s) 1088
BsgI GTGCAG 2 cut(s) 183, 1446
Bsh1285I CGRYCG 1 cut(s) 594
BshFI GGCC 1 cut(s) 1136
BshNI GGYRCC 1 cut(s) 686
BshVI ATCGAT 2 cut(s) 590, 876
BsiEI CGRYCG 1 cut(s) 594
BsiHKAI GWGCWC 3 cut(s) 180, 758, 1204
BslFI GGGAC 1 cut(s) 1474
BslI CCNNNNNNNGG 2 cut(s) 1345, 1408
BsmFI GGGAC 1 cut(s) 1474
BsnI GGCC 1 cut(s) 1136
Bsp1286I GDGCHC 3 cut(s) 180, 758, 1204
Bsp143I GATC 7 cut(s) 16, 591, 711, 862, 1298, 1396, 1499
BspACI CCGC 1 cut(s) 794
BspANI GGCC 1 cut(s) 1136
BspCNI CTCAG 5 cut(s) 325, 1235, 1320, 1426, 1434
BspDI ATCGAT 2 cut(s) 590, 876
BspHI TCATGA 2 cut(s) 180, 1117
BspLI GGNNCC 2 cut(s) 688, 1044
BspPI GGATC 2 cut(s) 870, 1293
BspQI GCTCTTC 1 cut(s) 1264
BspT107I GGYRCC 1 cut(s) 686
BsrDI GCAATG 2 cut(s) 12, 1137
BsrI ACTGG 2 cut(s) 493, 1168
BssECI CCNNGG 2 cut(s) 621, 1344
BssMI GATC 7 cut(s) 16, 591, 711, 862, 1298, 1396, 1499
BssNAI GTATAC 1 cut(s) 244
BssNI GRCGYC 1 cut(s) 74
BssT1I CCWWGG 2 cut(s) 621, 1344
Bst1107I GTATAC 1 cut(s) 244
Bst2UI CCWGG 2 cut(s) 156, 1322
Bst4CI ACNGT 2 cut(s) 636, 643
Bst6I CTCTTC 3 cut(s) 693, 983, 1264
BstACI GRCGYC 1 cut(s) 74
BstC8I GCNNGC 3 cut(s) 291, 428, 1098
BstDEI CTNAG 6 cut(s) 232, 333, 1222, 1307, 1413, 1421
BstF5I GGATG 2 cut(s) 277, 1335
BstKTI GATC 7 cut(s) 19, 594, 714, 865, 1301, 1399, 1502
BstMBI GATC 7 cut(s) 16, 591, 711, 862, 1298, 1396, 1499
BstMCI CGRYCG 1 cut(s) 594
BstMWI GCNNNNNNNGC 5 cut(s) 423, 1040, 1280, 1303, 1433
BstNI CCWGG 2 cut(s) 156, 1322
BstSCI CCNGG 2 cut(s) 154, 1320
BstSFI CTRYAG 1 cut(s) 639
BstSLI GKGCMC 1 cut(s) 1204
BstV1I GCAGC 1 cut(s) 1088
BstV2I GAAGAC 2 cut(s) 40, 570
BstXI CCANNNNNNTGG 1 cut(s) 1018
BstZ17I GTATAC 1 cut(s) 244
Bsu15I ATCGAT 2 cut(s) 590, 876
BsuRI GGCC 1 cut(s) 1136
BsuTUI ATCGAT 2 cut(s) 590, 876
BtgZI GCGATG 1 cut(s) 235
BtrI CACGTC 1 cut(s) 327
BtsCI GGATG 2 cut(s) 277, 1335
BtsI GCAGTG 1 cut(s) 362
BtsIMutI CAGTG 4 cut(s) 362, 1161, 1202, 1429
Cac8I GCNNGC 3 cut(s) 291, 428, 1098
CaiI CAGNNNCTG 1 cut(s) 1103
CciI TCATGA 2 cut(s) 180, 1117
Cfr13I GGNCC 2 cut(s) 1229, 1372
ClaI ATCGAT 2 cut(s) 590, 876
CseI GACGC 3 cut(s) 63, 1089, 1391
Csp6I GTAC 3 cut(s) 120, 706, 1316
CviAII CATG 8 cut(s) 52, 146, 181, 262, 409, 552, 805, 1118
CviQI GTAC 3 cut(s) 120, 706, 1316
DdeI CTNAG 6 cut(s) 232, 333, 1222, 1307, 1413, 1421
DpnI GATC 7 cut(s) 18, 593, 713, 864, 1300, 1398, 1501
DpnII GATC 7 cut(s) 16, 591, 711, 862, 1298, 1396, 1499
Eam1104I CTCTTC 3 cut(s) 693, 983, 1264
EarI CTCTTC 3 cut(s) 693, 983, 1264
Ecl136II GAGCTC 2 cut(s) 178, 756
Eco130I CCWWGG 2 cut(s) 621, 1344
Eco24I GRGCYC 2 cut(s) 180, 758
Eco32I GATATC 1 cut(s) 618
Eco47I GGWCC 2 cut(s) 1229, 1372
Eco53kI GAGCTC 2 cut(s) 178, 756
Eco57I CTGAAG 1 cut(s) 371
EcoICRI GAGCTC 2 cut(s) 178, 756
EcoO109I RGGNCCY 1 cut(s) 1229
EcoRII CCWGG 2 cut(s) 154, 1320
EcoRV GATATC 1 cut(s) 618
EcoT14I CCWWGG 2 cut(s) 621, 1344
EcoT38I GRGCYC 2 cut(s) 180, 758
ErhI CCWWGG 2 cut(s) 621, 1344
FaeI CATG 8 cut(s) 55, 149, 184, 265, 412, 555, 808, 1121
FalI AAGNNNNNCTT 4 cut(s) 354, 386, 980, 1012
FaqI GGGAC 1 cut(s) 1474
FatI CATG 8 cut(s) 51, 145, 180, 261, 408, 551, 804, 1117
FblI GTMKAC 4 cut(s) 243, 638, 733, 1329
Fnu4HI GCNGC 2 cut(s) 795, 1077
FokI GGATG 2 cut(s) 284, 1322
FriOI GRGCYC 2 cut(s) 180, 758
Fsp4HI GCNGC 2 cut(s) 795, 1077
FspBI CTAG 2 cut(s) 341, 501
GluI GCNGC 2 cut(s) 795, 1077
GsuI CTGGAG 3 cut(s) 177, 1029, 1304
HaeIII GGCC 1 cut(s) 1136
HgaI GACGC 3 cut(s) 63, 1089, 1391
Hin1I GRCGYC 1 cut(s) 74
Hin1II CATG 8 cut(s) 55, 149, 184, 265, 412, 555, 808, 1121
HindIII AAGCTT 2 cut(s) 428, 1281
HinfI GANTC 5 cut(s) 991, 1112, 1367, 1390, 1430
HphI GGTGA 2 cut(s) 67, 287
Hpy166II GTNNAC 7 cut(s) 58, 244, 639, 734, 854, 1202, 1330
Hpy188I TCNGA 8 cut(s) 334, 351, 475, 528, 1174, 1310, 1340, 1416
Hpy8I GTNNAC 7 cut(s) 58, 244, 639, 734, 854, 1202, 1330
HpyAV CCTTC 5 cut(s) 234, 962, 1074, 1272, 1444
HpyCH4III ACNGT 2 cut(s) 636, 643
HpyCH4IV ACGT 2 cut(s) 326, 480
HpyF10VI GCNNNNNNNGC 5 cut(s) 423, 1040, 1280, 1303, 1433
HpyF3I CTNAG 6 cut(s) 232, 333, 1222, 1307, 1413, 1421
HpySE526I ACGT 2 cut(s) 326, 480
Hsp92I GRCGYC 1 cut(s) 74
Hsp92II CATG 8 cut(s) 55, 149, 184, 265, 412, 555, 808, 1121
Kzo9I GATC 7 cut(s) 16, 591, 711, 862, 1298, 1396, 1499
LguI GCTCTTC 1 cut(s) 1264
LmnI GCTCC 4 cut(s) 513, 753, 761, 1048
Lsp1109I GCAGC 1 cut(s) 1088
LweI GCATC 2 cut(s) 258, 426
MaeI CTAG 2 cut(s) 341, 501
MaeII ACGT 2 cut(s) 326, 480
MaeIII GTNAC 2 cut(s) 194, 1477
MalI GATC 7 cut(s) 18, 593, 713, 864, 1300, 1398, 1501
MboI GATC 7 cut(s) 16, 591, 711, 862, 1298, 1396, 1499
MboII GAAGA 9 cut(s) 40, 53, 378, 575, 710, 950, 953, 1000, 1281
MhlI GDGCHC 3 cut(s) 180, 758, 1204
MluCI AATT 5 cut(s) 382, 535, 928, 1362, 1442
MlyI GAGTC 3 cut(s) 1000, 1376, 1399
MmeI TCCRAC 4 cut(s) 252, 473, 488, 816
MroXI GAANNNNTTC 1 cut(s) 1454
MseI TTAA 4 cut(s) 92, 578, 1016, 1152
MslI CAYNNNNRTG 1 cut(s) 266
MspA1I CMGCKG 1 cut(s) 859
MspR9I CCNGG 2 cut(s) 156, 1322
MvaI CCWGG 2 cut(s) 156, 1322
MwoI GCNNNNNNNGC 5 cut(s) 423, 1040, 1280, 1303, 1433
NdeII GATC 7 cut(s) 16, 591, 711, 862, 1298, 1396, 1499
NlaIII CATG 8 cut(s) 55, 149, 184, 265, 412, 555, 808, 1121
NlaIV GGNNCC 2 cut(s) 688, 1044
NmuCI GTSAC 1 cut(s) 1477
PagI TCATGA 2 cut(s) 180, 1117
PciSI GCTCTTC 1 cut(s) 1264
PdmI GAANNNNTTC 1 cut(s) 1454
PfeI GAWTC 2 cut(s) 1112, 1430
PflFI GACNNNGTC 1 cut(s) 328
PfoI TCCNGGA 2 cut(s) 154, 1320
PkrI GCNGC 2 cut(s) 796, 1078
Ple19I CGATCG 1 cut(s) 594
PleI GAGTC 3 cut(s) 999, 1375, 1398
PpsI GAGTC 3 cut(s) 999, 1375, 1398
PpuMI RGGWCCY 1 cut(s) 1229
PsiI TTATAA 2 cut(s) 522, 605
Psp124BI GAGCTC 2 cut(s) 180, 758
Psp5II RGGWCCY 1 cut(s) 1229
Psp6I CCWGG 2 cut(s) 154, 1320
PspGI CCWGG 2 cut(s) 154, 1320
PspN4I GGNNCC 2 cut(s) 688, 1044
PspPI GGNCC 2 cut(s) 1229, 1372
PspPPI RGGWCCY 1 cut(s) 1229
PstNI CAGNNNCTG 1 cut(s) 1103
PsyI GACNNNGTC 1 cut(s) 328
PvuI CGATCG 1 cut(s) 594
PvuII CAGCTG 1 cut(s) 859
RsaI GTAC 3 cut(s) 121, 707, 1317
RsaNI GTAC 3 cut(s) 120, 706, 1316
RseI CAYNNNNRTG 1 cut(s) 266
SacI GAGCTC 2 cut(s) 180, 758
SapI GCTCTTC 1 cut(s) 1264
SaqAI TTAA 4 cut(s) 92, 578, 1016, 1152
SatI GCNGC 2 cut(s) 795, 1077
Sau3AI GATC 7 cut(s) 16, 591, 711, 862, 1298, 1396, 1499
Sau96I GGNCC 2 cut(s) 1229, 1372
SchI GAGTC 3 cut(s) 1000, 1376, 1399
ScrFI CCNGG 2 cut(s) 156, 1322
SduI GDGCHC 3 cut(s) 180, 758, 1204
SfaNI GCATC 2 cut(s) 258, 426
SfcI CTRYAG 1 cut(s) 639
SinI GGWCC 2 cut(s) 1229, 1372
SmiMI CAYNNNNRTG 1 cut(s) 266
Sse9I AATT 5 cut(s) 382, 535, 928, 1362, 1442
SsiI CCGC 1 cut(s) 794
SspMI CTAG 2 cut(s) 341, 501
SstI GAGCTC 2 cut(s) 180, 758
StyD4I CCNGG 2 cut(s) 154, 1320
StyI CCWWGG 2 cut(s) 621, 1344
TaaI ACNGT 2 cut(s) 636, 643
TaiI ACGT 2 cut(s) 329, 483
TaqI TCGA 6 cut(s) 27, 88, 590, 594, 876, 1525
TaqII GACCGA 2 cut(s) 719, 1360
TasI AATT 5 cut(s) 382, 535, 928, 1362, 1442
TatI WGTACW 1 cut(s) 705
TauI GCSGC 1 cut(s) 797
TfiI GAWTC 2 cut(s) 1112, 1430
Tru1I TTAA 4 cut(s) 92, 578, 1016, 1152
Tru9I TTAA 4 cut(s) 92, 578, 1016, 1152
TscAI CASTG 4 cut(s) 362, 1168, 1209, 1429
TseFI GTSAC 1 cut(s) 1477
TseI GCWGC 1 cut(s) 1076
Tsp45I GTSAC 1 cut(s) 1477
TspDTI ATGAA 7 cut(s) 40, 250, 378, 459, 560, 821, 1043
TspRI CASTG 4 cut(s) 362, 1168, 1209, 1429
Tth111I GACNNNGTC 1 cut(s) 328
VneI GTGCAC 1 cut(s) 1200
VpaK11BI GGWCC 2 cut(s) 1229, 1372
XapI RAATTY 2 cut(s) 382, 928
XcmI CCANNNNNNNNNTGG 2 cut(s) 152, 500
XmiI GTMKAC 4 cut(s) 243, 638, 733, 1329
XmnI GAANNNNTTC 1 cut(s) 1454
XspI CTAG 2 cut(s) 341, 501
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.