Rroxscaffold_1G00070870

NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0015568
Physical Location & Seq
Reverse (-)
91846231 .. 91848251
2021 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00070870.1

Sequence Viewer

Length: 1296 bp
ATGGGTACAACTAGCCTCAAAGTGATATTCCATGACTTTCCTGGAGGTGCAGAGGGTTTTGAGCTCATGACAAGGTTTTGTTACAACAATGGAACAACCGAAATAACTCCTTCCAACTTAGTCCTTGTATACTGCATCGCCAATTTCATGGAGATGGATGGTGATATACTATTGCAAGCTCAAAACACTCTTGATGGTATCAGCTCTTGGACGTGGTCTGAGCTTCTAGTAGCTCTGAAGCAGTGCCAAGATTTACTTGCCCCCTCAAATTCTTCATTGATATTGCAGATCGTCATGGACTGCATCAGAGGCAAGCTTTCTTGTCCATTTTTTCCAACCCCCAATGATACTACTTCATCAGAGAACGTGAGTAGTTTCCAGTTTTCTAGTGGTTCGAGGAGCAGTTATAATCTGAAAAGCAATTGCTCTATGAAAAAATGGTGGTTTGAAGACTTGATGTTCTTAAATACCAAATCGATCGAAATGGTTATAAGAAGCCTGATATCCAAGGAGATTGAGCAGTCTACAGTTTTCAAGTTTCTCCTTCGTTATCATCAGTCAAAGTGTTTTGGTGCCAAACCAGAAGAGAAGTACAAGATCACAGAGGTTGTTATCGGGAAATCATTTCTTCTTCAAGAAGGGGGTCATTTATCCCAGAAGAGTCACTTCACAAAGGTTGCCAAGTTGATGGATTTATACCTTGCAGAAGTGGCTCCAGATTTTCATTTGAAACCTTCAAAGTTTGCAGCATTAGTTATGATGTTGCCAGCGTCTCTGCGAGAATCTCATGACAGACTTTACGAGGCCATTGCTGTATATTTTAAGTGCCACACTGGTCTATCTGAACAAGAGAAGCTGACAATCTGTTGTGCACTGAACTATAAGAAGCTCTCAGCAGGACCTTTGAAACAAGCCTCTCGCATAAAGTTCCCTTCCAGAAGAGCAGTTGAAGCTTTCAAGAAACAGCGATCCAAGCTCAGAAGAGTACTCCAGGAAGTCTACTACATCCGAACCAAGGATAAGAAAGAGGAAATTGAGTCAGTCCTACTTGACGCAAAGAGTCTTGATCTCCCAACAGAGGCTCAGAAGCTCAGAGCAGATTTGCAGAGGATGCATTCGAAGGCATTGGAATTGGGGAAGGTTTTTGGGACAACGCAGATACAAGTGACAAGTGAATTGGATGTTTCTAAAGAATATCGAAGTGAGGAGTACACAGTCAACTGTGGATGTGGTAAAATACTAAAATGCAATGGGGATGTGTGTCTGTGTGTAAGAGCCATAGATTGTGCAGCTTAA
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

431

Amino Acids

48.74

Weight (kDa)

8.64

Isoelectric Point (pI)

42.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 217 - 299 3.9e-28 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) 408, 491
AccB1I GGYRCC 1 cut(s) 572
AccI GTMKAC 3 cut(s) 129, 524, 999
AclWI GGATC 1 cut(s) 963
AcsI RAATTY 1 cut(s) 268
AcuI CTGAAG 1 cut(s) 257
AfaI GTAC 4 cut(s) 7, 593, 987, 1211
AfiI CCNNNNNNNGG 2 cut(s) 1015, 1078
AgsI TTSAA 8 cut(s) 449, 535, 635, 730, 738, 907, 950, 958
AjiI CACGTC 1 cut(s) 213
AjnI CCWGG 2 cut(s) 40, 990
Alw21I GWGCWC 2 cut(s) 66, 874
Alw26I GTCTC 1 cut(s) 777
Alw44I GTGCAC 1 cut(s) 870
AlwI GGATC 1 cut(s) 963
AoxI GGCC 1 cut(s) 804
ApaLI GTGCAC 1 cut(s) 870
ApeKI GCWGC 2 cut(s) 746, 1289
ApoI RAATTY 1 cut(s) 268
AspS9I GGNCC 1 cut(s) 899
AsuHPI GGTGA 1 cut(s) 173
AsuII TTCGAA 1 cut(s) 1118
AvaII GGWCC 1 cut(s) 899
BaeGI GKGCMC 1 cut(s) 874
BanI GGYRCC 1 cut(s) 572
BanII GRGCYC 1 cut(s) 66
BbsI GAAGAC 1 cut(s) 456
Bbv12I GWGCWC 2 cut(s) 66, 874
BbvI GCAGC 1 cut(s) 758
BccI CCATC 4 cut(s) 148, 152, 188, 682
BcgI CGANNNNNNTGC 2 cut(s) 791, 825
BciT130I CCWGG 2 cut(s) 42, 992
BcoDI GTCTC 1 cut(s) 777
BfaI CTAG 3 cut(s) 12, 227, 387
BfmI CTRYAG 1 cut(s) 525
BisI GCNGC 2 cut(s) 747, 1290
BlsI GCNGC 2 cut(s) 748, 1291
BmcAI AGTACT 1 cut(s) 987
Bme1390I CCNGG 2 cut(s) 42, 992
Bme18I GGWCC 1 cut(s) 899
BmgBI CACGTC 1 cut(s) 213
BmgT120I GGNCC 1 cut(s) 899
BmiI GGNNCC 2 cut(s) 574, 714
BmrFI CCNGG 2 cut(s) 42, 992
BmsI GCATC 3 cut(s) 144, 312, 1101
BpiI GAAGAC 1 cut(s) 456
BpmI CTGGAG 3 cut(s) 63, 699, 974
Bpu14I TTCGAA 1 cut(s) 1118
Bsa29I ATCGAT 1 cut(s) 476
BsaJI CCNNGG 2 cut(s) 507, 1014
Bsc4I CCNNNNNNNGG 2 cut(s) 1015, 1078
Bse1I ACTGG 2 cut(s) 379, 838
Bse3DI GCAATG 2 cut(s) 807, 1255
BseBI CCWGG 2 cut(s) 42, 992
BseCI ATCGAT 1 cut(s) 476
BseDI CCNNGG 2 cut(s) 507, 1014
BseGI GGATG 6 cut(s) 163, 1005, 1116, 1186, 1232, 1261
BseLI CCNNNNNNNGG 2 cut(s) 1015, 1078
BseMI GCAATG 2 cut(s) 807, 1255
BseMII CTCAG 5 cut(s) 210, 906, 991, 1097, 1105
BseNI ACTGG 2 cut(s) 379, 838
BseRI GAGGAG 2 cut(s) 412, 1220
BseSI GKGCMC 1 cut(s) 874
BseXI GCAGC 1 cut(s) 758
BsgI GTGCAG 1 cut(s) 69
Bsh1285I CGRYCG 1 cut(s) 480
BshFI GGCC 1 cut(s) 806
BshNI GGYRCC 1 cut(s) 572
BshVI ATCGAT 1 cut(s) 476
BsiEI CGRYCG 1 cut(s) 480
BsiHKAI GWGCWC 2 cut(s) 66, 874
BslFI GGGAC 1 cut(s) 1162
BslI CCNNNNNNNGG 2 cut(s) 1015, 1078
BsmAI GTCTC 1 cut(s) 777
BsmBI CGTCTC 1 cut(s) 777
BsmFI GGGAC 1 cut(s) 1162
BsmI GAATGC 1 cut(s) 1114
BsnI GGCC 1 cut(s) 806
Bsp119I TTCGAA 1 cut(s) 1118
Bsp1286I GDGCHC 2 cut(s) 66, 874
Bsp143I GATC 5 cut(s) 288, 477, 597, 968, 1066
BspANI GGCC 1 cut(s) 806
BspCNI CTCAG 5 cut(s) 211, 905, 990, 1096, 1104
BspDI ATCGAT 1 cut(s) 476
BspHI TCATGA 2 cut(s) 66, 787
BspLI GGNNCC 2 cut(s) 574, 714
BspPI GGATC 1 cut(s) 963
BspQI GCTCTTC 1 cut(s) 934
BspT104I TTCGAA 1 cut(s) 1118
BspT107I GGYRCC 1 cut(s) 572
BsrDI GCAATG 2 cut(s) 807, 1255
BsrI ACTGG 2 cut(s) 379, 838
BssECI CCNNGG 2 cut(s) 507, 1014
BssMI GATC 5 cut(s) 288, 477, 597, 968, 1066
BssNAI GTATAC 1 cut(s) 130
BssT1I CCWWGG 2 cut(s) 507, 1014
Bst1107I GTATAC 1 cut(s) 130
Bst2UI CCWGG 2 cut(s) 42, 992
Bst4CI ACNGT 3 cut(s) 529, 1216, 1223
Bst6I CTCTTC 4 cut(s) 579, 653, 934, 976
BstAPI GCANNNNNTGC 1 cut(s) 1111
BstBI TTCGAA 1 cut(s) 1118
BstC8I GCNNGC 3 cut(s) 177, 314, 768
BstDEI CTNAG 6 cut(s) 118, 219, 892, 977, 1083, 1091
BstF5I GGATG 6 cut(s) 163, 1005, 1116, 1186, 1232, 1261
BstKTI GATC 5 cut(s) 291, 480, 600, 971, 1069
BstMAI GTCTC 1 cut(s) 777
BstMBI GATC 5 cut(s) 288, 477, 597, 968, 1066
BstMCI CGRYCG 1 cut(s) 480
BstMWI GCNNNNNNNGC 5 cut(s) 309, 710, 950, 973, 1111
BstNI CCWGG 2 cut(s) 42, 992
BstSCI CCNGG 2 cut(s) 40, 990
BstSFI CTRYAG 1 cut(s) 525
BstSLI GKGCMC 1 cut(s) 874
BstV1I GCAGC 1 cut(s) 758
BstV2I GAAGAC 1 cut(s) 456
BstXI CCANNNNNNTGG 2 cut(s) 148, 688
BstZ17I GTATAC 1 cut(s) 130
Bsu15I ATCGAT 1 cut(s) 476
BsuRI GGCC 1 cut(s) 806
BsuTUI ATCGAT 1 cut(s) 476
BtgZI GCGATG 1 cut(s) 121
BtrI CACGTC 1 cut(s) 213
BtsCI GGATG 6 cut(s) 163, 1005, 1116, 1186, 1232, 1261
BtsI GCAGTG 1 cut(s) 248
BtsIMutI CAGTG 3 cut(s) 248, 831, 872
Cac8I GCNNGC 3 cut(s) 177, 314, 768
CciI TCATGA 2 cut(s) 66, 787
Cfr13I GGNCC 1 cut(s) 899
ClaI ATCGAT 1 cut(s) 476
CseI GACGC 2 cut(s) 759, 1061
Csp6I GTAC 4 cut(s) 6, 592, 986, 1210
CviAII CATG 5 cut(s) 32, 67, 148, 295, 788
CviQI GTAC 4 cut(s) 6, 592, 986, 1210
DdeI CTNAG 6 cut(s) 118, 219, 892, 977, 1083, 1091
DpnI GATC 5 cut(s) 290, 479, 599, 970, 1068
DpnII GATC 5 cut(s) 288, 477, 597, 968, 1066
Eam1104I CTCTTC 4 cut(s) 579, 653, 934, 976
EarI CTCTTC 4 cut(s) 579, 653, 934, 976
Ecl136II GAGCTC 1 cut(s) 64
Eco130I CCWWGG 2 cut(s) 507, 1014
Eco24I GRGCYC 1 cut(s) 66
Eco32I GATATC 1 cut(s) 504
Eco47I GGWCC 1 cut(s) 899
Eco53kI GAGCTC 1 cut(s) 64
Eco57I CTGAAG 1 cut(s) 257
EcoICRI GAGCTC 1 cut(s) 64
EcoO109I RGGNCCY 1 cut(s) 899
EcoRII CCWGG 2 cut(s) 40, 990
EcoRV GATATC 1 cut(s) 504
EcoT14I CCWWGG 2 cut(s) 507, 1014
EcoT22I ATGCAT 1 cut(s) 1116
EcoT38I GRGCYC 1 cut(s) 66
ErhI CCWWGG 2 cut(s) 507, 1014
Esp3I CGTCTC 1 cut(s) 777
FaeI CATG 5 cut(s) 35, 70, 151, 298, 791
FalI AAGNNNNNCTT 4 cut(s) 240, 272, 650, 682
FaqI GGGAC 1 cut(s) 1162
FatI CATG 5 cut(s) 31, 66, 147, 294, 787
FblI GTMKAC 3 cut(s) 129, 524, 999
Fnu4HI GCNGC 2 cut(s) 747, 1290
FokI GGATG 6 cut(s) 170, 992, 1123, 1193, 1239, 1268
FriOI GRGCYC 1 cut(s) 66
Fsp4HI GCNGC 2 cut(s) 747, 1290
FspBI CTAG 3 cut(s) 12, 227, 387
GluI GCNGC 2 cut(s) 747, 1290
GsuI CTGGAG 3 cut(s) 63, 699, 974
HaeIII GGCC 1 cut(s) 806
HgaI GACGC 2 cut(s) 759, 1061
Hin1II CATG 5 cut(s) 35, 70, 151, 298, 791
HincII GTYRAC 1 cut(s) 1219
HindII GTYRAC 1 cut(s) 1219
HindIII AAGCTT 2 cut(s) 314, 951
HinfI GANTC 4 cut(s) 661, 782, 1037, 1060
HphI GGTGA 1 cut(s) 173
Hpy166II GTNNAC 6 cut(s) 130, 525, 872, 1000, 1212, 1219
Hpy188III TCNNGA 9 cut(s) 67, 191, 616, 635, 716, 788, 936, 958, 1064
Hpy8I GTNNAC 6 cut(s) 130, 525, 872, 1000, 1212, 1219
HpyAV CCTTC 7 cut(s) 120, 554, 632, 744, 942, 1114, 1132
HpyCH4III ACNGT 3 cut(s) 529, 1216, 1223
HpyCH4IV ACGT 2 cut(s) 212, 366
HpyF10VI GCNNNNNNNGC 5 cut(s) 309, 710, 950, 973, 1111
HpyF3I CTNAG 6 cut(s) 118, 219, 892, 977, 1083, 1091
HpySE526I ACGT 2 cut(s) 212, 366
Hsp92II CATG 5 cut(s) 35, 70, 151, 298, 791
Kzo9I GATC 5 cut(s) 288, 477, 597, 968, 1066
LguI GCTCTTC 1 cut(s) 934
LmnI GCTCC 2 cut(s) 399, 718
Lsp1109I GCAGC 1 cut(s) 758
LweI GCATC 3 cut(s) 144, 312, 1101
MaeI CTAG 3 cut(s) 12, 227, 387
MaeII ACGT 2 cut(s) 212, 366
MaeIII GTNAC 3 cut(s) 80, 662, 1165
MalI GATC 5 cut(s) 290, 479, 599, 970, 1068
MboI GATC 5 cut(s) 288, 477, 597, 968, 1066
MboII GAAGA 8 cut(s) 264, 461, 596, 620, 623, 670, 951, 993
MfeI CAATTG 1 cut(s) 421
MhlI GDGCHC 2 cut(s) 66, 874
MluCI AATT 6 cut(s) 142, 268, 421, 1032, 1130, 1175
MlyI GAGTC 3 cut(s) 670, 1046, 1069
MmeI TCCRAC 2 cut(s) 138, 359
Mph1103I ATGCAT 1 cut(s) 1116
MseI TTAA 3 cut(s) 464, 822, 1294
MslI CAYNNNNRTG 1 cut(s) 152
MspR9I CCNGG 2 cut(s) 42, 992
MunI CAATTG 1 cut(s) 421
Mva1269I GAATGC 1 cut(s) 1114
MvaI CCWGG 2 cut(s) 42, 992
MwoI GCNNNNNNNGC 5 cut(s) 309, 710, 950, 973, 1111
NdeII GATC 5 cut(s) 288, 477, 597, 968, 1066
NlaIII CATG 5 cut(s) 35, 70, 151, 298, 791
NlaIV GGNNCC 2 cut(s) 574, 714
NmuCI GTSAC 2 cut(s) 662, 1165
NsiI ATGCAT 1 cut(s) 1116
NspV TTCGAA 1 cut(s) 1118
PagI TCATGA 2 cut(s) 66, 787
PciSI GCTCTTC 1 cut(s) 934
PctI GAATGC 1 cut(s) 1114
PfeI GAWTC 1 cut(s) 782
PflFI GACNNNGTC 1 cut(s) 214
PfoI TCCNGGA 2 cut(s) 40, 990
PkrI GCNGC 2 cut(s) 748, 1291
Ple19I CGATCG 1 cut(s) 480
PleI GAGTC 3 cut(s) 669, 1045, 1068
PpsI GAGTC 3 cut(s) 669, 1045, 1068
PpuMI RGGWCCY 1 cut(s) 899
PsiI TTATAA 2 cut(s) 408, 491
Psp124BI GAGCTC 1 cut(s) 66
Psp5II RGGWCCY 1 cut(s) 899
Psp6I CCWGG 2 cut(s) 40, 990
PspGI CCWGG 2 cut(s) 40, 990
PspN4I GGNNCC 2 cut(s) 574, 714
PspPI GGNCC 1 cut(s) 899
PspPPI RGGWCCY 1 cut(s) 899
PsyI GACNNNGTC 1 cut(s) 214
PvuI CGATCG 1 cut(s) 480
RsaI GTAC 4 cut(s) 7, 593, 987, 1211
RsaNI GTAC 4 cut(s) 6, 592, 986, 1210
RseI CAYNNNNRTG 1 cut(s) 152
SacI GAGCTC 1 cut(s) 66
SapI GCTCTTC 1 cut(s) 934
SaqAI TTAA 3 cut(s) 464, 822, 1294
SatI GCNGC 2 cut(s) 747, 1290
Sau3AI GATC 5 cut(s) 288, 477, 597, 968, 1066
Sau96I GGNCC 1 cut(s) 899
ScaI AGTACT 1 cut(s) 987
SchI GAGTC 3 cut(s) 670, 1046, 1069
ScrFI CCNGG 2 cut(s) 42, 992
SduI GDGCHC 2 cut(s) 66, 874
SfaNI GCATC 3 cut(s) 144, 312, 1101
SfcI CTRYAG 1 cut(s) 525
SfuI TTCGAA 1 cut(s) 1118
SinI GGWCC 1 cut(s) 899
SmiMI CAYNNNNRTG 1 cut(s) 152
Sse9I AATT 6 cut(s) 142, 268, 421, 1032, 1130, 1175
SspMI CTAG 3 cut(s) 12, 227, 387
SstI GAGCTC 1 cut(s) 66
StyD4I CCNGG 2 cut(s) 40, 990
StyI CCWWGG 2 cut(s) 507, 1014
TaaI ACNGT 3 cut(s) 529, 1216, 1223
TaiI ACGT 2 cut(s) 215, 369
TaqI TCGA 5 cut(s) 395, 476, 480, 1118, 1198
TasI AATT 6 cut(s) 142, 268, 421, 1032, 1130, 1175
TatI WGTACW 3 cut(s) 591, 985, 1209
TfiI GAWTC 1 cut(s) 782
Tru1I TTAA 3 cut(s) 464, 822, 1294
Tru9I TTAA 3 cut(s) 464, 822, 1294
TscAI CASTG 3 cut(s) 248, 838, 879
TseFI GTSAC 2 cut(s) 662, 1165
TseI GCWGC 2 cut(s) 746, 1289
Tsp45I GTSAC 2 cut(s) 662, 1165
TspDTI ATGAA 5 cut(s) 136, 264, 345, 446, 713
TspRI CASTG 3 cut(s) 248, 838, 879
Tth111I GACNNNGTC 1 cut(s) 214
VneI GTGCAC 1 cut(s) 870
VpaK11BI GGWCC 1 cut(s) 899
XapI RAATTY 1 cut(s) 268
XcmI CCANNNNNNNNNTGG 2 cut(s) 38, 386
XmiI GTMKAC 3 cut(s) 129, 524, 999
XspI CTAG 3 cut(s) 12, 227, 387
ZrmI AGTACT 1 cut(s) 987
Zsp2I ATGCAT 1 cut(s) 1116
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.