RchiOBHm_Chr5g0004691

NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0015568
Physical Location & Seq
Forward (+)
3085812 .. 3088648
2837 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1563 bp
ATGGCAATGTTCTGTGATCTCCAAGTCGATGTCAATGGCGAAGAAGTCTTCATGGTGAACAAGAAAACTTTGGCGTCTTTCTCTTGTCGATTAAGCAAACTATTTGGTAAATCAATGGGTACAACGAGCCTCAAAGTGATATTCCATGACTTTCCTGGAGGTGCAGAGGGTTTTGAGCTCATGACAAGGTTTTGTTACAACAATGGAACAATCGAAATAACTCCTTCCAACTTAGTCCTTGTATACTGCATTGCCAATTTCATGGAGATGGATGGTGATATACTATTGCAAGCTCAAAACACTCTTGATGGTATCAGCTCTTGGACGTGGTCTGAGCTTCTAGTAGCTCTGAAGCAGTGCCAAGATTTACTTGCCCCCTCAAATTCTTCATTGATATTGCAGATAGTCATGGACTGCATCATAGGTAAGCTTTCTTGTCCATTTTTTCCAACCCCCAATGATACTACTTCATCAGAGAACGTGAGTAGTTTCCAGTTTTCTAGTGGTTCGAGGAGCAGTTATAATCTGAAAAGCAATTGCTCTATGAAAACATGGTGGTTTGAAGACTTGATGTTCTTAAATACCAAATCGATCGAAATGGTTATAAGAAGCCTGATATCCAAGGAGATTGAACAGTCTACAGTTTTCAAGTTTCTCCTTCGTTATCATCAGTCAAAGTGTTTTGGTGCCAAACCAGAAGAGAAGTGCAAGATCACAGAGGTTGTTATCGGTCTACTTTCTCTGCTTGATAGGCGCTCCCTTTCTTTCAAGGGATTATTCAATATATATCAAGCGGCTTTGAACATGAAAGTAGGCAAGAAATACAAAAACAAGTTGGAGATTATGATAGGTTCACACCTGGATCAAGCAACAATCGATTATTTACTTGTTCCATCTCCCTGTGGGAAAAAGTATGTTTATGATGTGAATTTGATTTTGAGGTTAGGGAAATCATTTCTTCTTCAAGAAGGGGTTCATTTATCCCGGAAGAGTCGCTTCACAAAGGTCGCCAAGTTGATGGATTTATACCTTGCAGAAGTGGCTCCAGATTTTCATTTGAAACCTTCAAAGTTTGCAGCATTAGTTATGATGTTGCCAGCGTCTGTGCGAGAATCTCATGACAGACTTTACGAGGCCATTGCTGTATATTTTAAGTGCCACACTGGTCTATCTGAACAAGAGAAGCTGACAATCTGTTGTGCACTGAACTATAAGAAGCTCTCAGCAGGACCTTTGAAACAAGCCTCTCGCACAAAGTTCCCTTCCAGAAGAGCAGTAGAAGCTTTCAAGAAACAGCGATCCAAGCTCAGAAGCGTACACCAGGAAGTCTACTACATCCGAACCAAGGATAAGAAAGAGGAAATTGAGTCAGTCCTACTTGACGCAAAGAGTCTTGATCTCCCAACAGAGGCTCAGAAGCTCAGTGCAGATTTGATGCATTTGAAGGCATTGGAATTGGGGAAGGTTTTCGGGACAATGCAGATACGAGTGACAAGTGTAATCAAATCAAGATTGCCCTTTCAGGCAACCAATACTCGATACTTGTCAAAACTCTTTCCATAA
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

520

Amino Acids

58.92

Weight (kDa)

9.23

Isoelectric Point (pI)

41.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 184 - 409 2.6e-53 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 2 cut(s) 121, 1317
AfiI CCNNNNNNNGG 2 cut(s) 1345, 1408
AjiI CACGTC 1 cut(s) 327
AjnI CCWGG 3 cut(s) 154, 858, 1320
Alw21I GWGCWC 2 cut(s) 180, 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 2 cut(s) 972, 1466
AspLEI GCGC 1 cut(s) 756
AspS9I GGNCC 1 cut(s) 1229
AsuC2I CCSGG 1 cut(s) 985
AsuHPI GGTGA 2 cut(s) 67, 287
AvaII GGWCC 1 cut(s) 1229
BaeGI GKGCMC 1 cut(s) 1204
BanI GGYRCC 1 cut(s) 686
BanII GRGCYC 1 cut(s) 180
BbsI GAAGAC 2 cut(s) 40, 570
Bbv12I GWGCWC 2 cut(s) 180, 1204
BbvI GCAGC 1 cut(s) 1088
BccI CCATC 5 cut(s) 262, 266, 302, 901, 1012
BcgI CGANNNNNNTGC 2 cut(s) 1121, 1155
BciT130I CCWGG 3 cut(s) 156, 860, 1322
BcnI CCSGG 1 cut(s) 985
BfaI CTAG 2 cut(s) 341, 501
BfmI CTRYAG 1 cut(s) 639
BfoI RGCGCY 1 cut(s) 757
BisI GCNGC 2 cut(s) 795, 1077
BlsI GCNGC 2 cut(s) 796, 1078
Bme1390I CCNGG 4 cut(s) 156, 860, 985, 1322
Bme18I GGWCC 1 cut(s) 1229
BmgBI CACGTC 1 cut(s) 327
BmgT120I GGNCC 1 cut(s) 1229
BmiI GGNNCC 2 cut(s) 688, 1044
BmrFI CCNGG 4 cut(s) 156, 860, 985, 1322
BmsI GCATC 2 cut(s) 426, 1425
BpiI GAAGAC 2 cut(s) 40, 570
BpmI CTGGAG 2 cut(s) 177, 1029
BpuMI CCSGG 1 cut(s) 985
Bsa29I ATCGAT 2 cut(s) 590, 876
BsaHI GRCGYC 1 cut(s) 74
BsaJI CCNNGG 2 cut(s) 621, 1344
Bsc4I CCNNNNNNNGG 2 cut(s) 1345, 1408
Bse1I ACTGG 2 cut(s) 493, 1168
Bse3DI GCAATG 3 cut(s) 12, 249, 1137
BseBI CCWGG 3 cut(s) 156, 860, 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 3 cut(s) 12, 249, 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 2 cut(s) 180, 1204
BsiSI CCGG 1 cut(s) 985
BslFI GGGAC 1 cut(s) 1486
BslI CCNNNNNNNGG 2 cut(s) 1345, 1408
BsmFI GGGAC 1 cut(s) 1486
BsnI GGCC 1 cut(s) 1136
Bsp1286I GDGCHC 2 cut(s) 180, 1204
Bsp143I GATC 6 cut(s) 16, 591, 711, 862, 1298, 1396
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 3 cut(s) 12, 249, 1137
BsrI ACTGG 2 cut(s) 493, 1168
BssECI CCNNGG 2 cut(s) 621, 1344
BssMI GATC 6 cut(s) 16, 591, 711, 862, 1298, 1396
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 3 cut(s) 156, 860, 1322
Bst4CI ACNGT 2 cut(s) 636, 643
Bst6I CTCTTC 3 cut(s) 693, 983, 1264
BstACI GRCGYC 1 cut(s) 74
BstC8I GCNNGC 2 cut(s) 291, 1098
BstDEI CTNAG 6 cut(s) 232, 333, 1222, 1307, 1413, 1421
BstF5I GGATG 2 cut(s) 277, 1335
BstH2I RGCGCY 1 cut(s) 757
BstHHI GCGC 1 cut(s) 756
BstKTI GATC 6 cut(s) 19, 594, 714, 865, 1301, 1399
BstMBI GATC 6 cut(s) 16, 591, 711, 862, 1298, 1396
BstMCI CGRYCG 1 cut(s) 594
BstMWI GCNNNNNNNGC 4 cut(s) 751, 1040, 1280, 1303
BstNI CCWGG 3 cut(s) 156, 860, 1322
BstSCI CCNGG 4 cut(s) 154, 858, 983, 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 2 cut(s) 262, 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
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 2 cut(s) 291, 1098
CaiI CAGNNNCTG 1 cut(s) 1103
CciI TCATGA 2 cut(s) 180, 1117
CfoI GCGC 1 cut(s) 756
Cfr13I GGNCC 1 cut(s) 1229
ClaI ATCGAT 2 cut(s) 590, 876
CseI GACGC 3 cut(s) 63, 1089, 1391
Csp6I GTAC 2 cut(s) 120, 1316
CviAII CATG 8 cut(s) 52, 146, 181, 262, 409, 552, 805, 1118
CviQI GTAC 2 cut(s) 120, 1316
DdeI CTNAG 6 cut(s) 232, 333, 1222, 1307, 1413, 1421
DpnI GATC 6 cut(s) 18, 593, 713, 864, 1300, 1398
DpnII GATC 6 cut(s) 16, 591, 711, 862, 1298, 1396
Eam1104I CTCTTC 3 cut(s) 693, 983, 1264
EarI CTCTTC 3 cut(s) 693, 983, 1264
Ecl136II GAGCTC 1 cut(s) 178
Eco130I CCWWGG 2 cut(s) 621, 1344
Eco24I GRGCYC 1 cut(s) 180
Eco32I GATATC 1 cut(s) 618
Eco47I GGWCC 1 cut(s) 1229
Eco53kI GAGCTC 1 cut(s) 178
Eco57I CTGAAG 1 cut(s) 371
EcoICRI GAGCTC 1 cut(s) 178
EcoO109I RGGNCCY 1 cut(s) 1229
EcoRII CCWGG 3 cut(s) 154, 858, 1320
EcoRV GATATC 1 cut(s) 618
EcoT14I CCWWGG 2 cut(s) 621, 1344
EcoT22I ATGCAT 1 cut(s) 1440
EcoT38I GRGCYC 1 cut(s) 180
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) 1486
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 1 cut(s) 180
Fsp4HI GCNGC 2 cut(s) 795, 1077
FspBI CTAG 2 cut(s) 341, 501
GlaI GCGC 1 cut(s) 755
GluI GCNGC 2 cut(s) 795, 1077
GsuI CTGGAG 2 cut(s) 177, 1029
HaeII RGCGCY 1 cut(s) 757
HaeIII GGCC 1 cut(s) 1136
HapII CCGG 1 cut(s) 985
HgaI GACGC 3 cut(s) 63, 1089, 1391
HhaI GCGC 1 cut(s) 756
Hin1I GRCGYC 1 cut(s) 74
Hin1II CATG 8 cut(s) 55, 149, 184, 265, 412, 555, 808, 1121
Hin6I GCGC 1 cut(s) 754
HinP1I GCGC 1 cut(s) 754
HindIII AAGCTT 2 cut(s) 428, 1281
HinfI GANTC 4 cut(s) 991, 1112, 1367, 1390
HpaII CCGG 1 cut(s) 985
HphI GGTGA 2 cut(s) 67, 287
Hpy166II GTNNAC 8 cut(s) 58, 244, 639, 734, 854, 1202, 1318, 1330
Hpy188I TCNGA 8 cut(s) 334, 351, 475, 528, 1174, 1310, 1340, 1416
Hpy8I GTNNAC 8 cut(s) 58, 244, 639, 734, 854, 1202, 1318, 1330
HpyAV CCTTC 7 cut(s) 234, 668, 962, 1074, 1272, 1438, 1456
HpyCH4III ACNGT 2 cut(s) 636, 643
HpyCH4IV ACGT 2 cut(s) 326, 480
HpyF10VI GCNNNNNNNGC 4 cut(s) 751, 1040, 1280, 1303
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
HspAI GCGC 1 cut(s) 754
Kzo9I GATC 6 cut(s) 16, 591, 711, 862, 1298, 1396
LguI GCTCTTC 1 cut(s) 1264
LmnI GCTCC 3 cut(s) 513, 761, 1048
Lsp1109I GCAGC 1 cut(s) 1088
LweI GCATC 2 cut(s) 426, 1425
MaeI CTAG 2 cut(s) 341, 501
MaeII ACGT 2 cut(s) 326, 480
MaeIII GTNAC 2 cut(s) 194, 1489
MalI GATC 6 cut(s) 18, 593, 713, 864, 1300, 1398
MboI GATC 6 cut(s) 16, 591, 711, 862, 1298, 1396
MboII GAAGA 9 cut(s) 40, 53, 378, 575, 710, 950, 953, 1000, 1281
MfeI CAATTG 1 cut(s) 535
MhlI GDGCHC 2 cut(s) 180, 1204
MluCI AATT 6 cut(s) 256, 382, 535, 928, 1362, 1454
MlyI GAGTC 3 cut(s) 1000, 1376, 1399
MmeI TCCRAC 3 cut(s) 252, 473, 816
Mph1103I ATGCAT 1 cut(s) 1440
MroXI GAANNNNTTC 2 cut(s) 972, 1466
MseI TTAA 3 cut(s) 92, 578, 1152
MslI CAYNNNNRTG 1 cut(s) 266
MspI CCGG 1 cut(s) 985
MspR9I CCNGG 4 cut(s) 156, 860, 985, 1322
MunI CAATTG 1 cut(s) 535
MvaI CCWGG 3 cut(s) 156, 860, 1322
MwoI GCNNNNNNNGC 4 cut(s) 751, 1040, 1280, 1303
NciI CCSGG 1 cut(s) 985
NdeII GATC 6 cut(s) 16, 591, 711, 862, 1298, 1396
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) 1489
NsiI ATGCAT 1 cut(s) 1440
PagI TCATGA 2 cut(s) 180, 1117
PciSI GCTCTTC 1 cut(s) 1264
PdmI GAANNNNTTC 2 cut(s) 972, 1466
PfeI GAWTC 1 cut(s) 1112
PflFI GACNNNGTC 1 cut(s) 328
PfoI TCCNGGA 2 cut(s) 154, 983
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 1 cut(s) 180
Psp5II RGGWCCY 1 cut(s) 1229
Psp6I CCWGG 3 cut(s) 154, 858, 1320
PspGI CCWGG 3 cut(s) 154, 858, 1320
PspN4I GGNNCC 2 cut(s) 688, 1044
PspPI GGNCC 1 cut(s) 1229
PspPPI RGGWCCY 1 cut(s) 1229
PstNI CAGNNNCTG 1 cut(s) 1103
PsyI GACNNNGTC 1 cut(s) 328
PvuI CGATCG 1 cut(s) 594
RsaI GTAC 2 cut(s) 121, 1317
RsaNI GTAC 2 cut(s) 120, 1316
RseI CAYNNNNRTG 1 cut(s) 266
SacI GAGCTC 1 cut(s) 180
SapI GCTCTTC 1 cut(s) 1264
SaqAI TTAA 3 cut(s) 92, 578, 1152
SatI GCNGC 2 cut(s) 795, 1077
Sau3AI GATC 6 cut(s) 16, 591, 711, 862, 1298, 1396
Sau96I GGNCC 1 cut(s) 1229
SchI GAGTC 3 cut(s) 1000, 1376, 1399
ScrFI CCNGG 4 cut(s) 156, 860, 985, 1322
SduI GDGCHC 2 cut(s) 180, 1204
SfaNI GCATC 2 cut(s) 426, 1425
SfcI CTRYAG 1 cut(s) 639
SinI GGWCC 1 cut(s) 1229
SmiMI CAYNNNNRTG 1 cut(s) 266
Sse9I AATT 6 cut(s) 256, 382, 535, 928, 1362, 1454
SsiI CCGC 1 cut(s) 794
SspMI CTAG 2 cut(s) 341, 501
SstI GAGCTC 1 cut(s) 180
StyD4I CCNGG 4 cut(s) 154, 858, 983, 1320
StyI CCWWGG 2 cut(s) 621, 1344
TaaI ACNGT 2 cut(s) 636, 643
TaiI ACGT 2 cut(s) 329, 483
TaqI TCGA 8 cut(s) 27, 88, 213, 509, 590, 594, 876, 1537
TaqII GACCGA 1 cut(s) 719
TasI AATT 6 cut(s) 256, 382, 535, 928, 1362, 1454
TauI GCSGC 1 cut(s) 797
TfiI GAWTC 1 cut(s) 1112
Tru1I TTAA 3 cut(s) 92, 578, 1152
Tru9I TTAA 3 cut(s) 92, 578, 1152
TscAI CASTG 4 cut(s) 362, 1168, 1209, 1429
TseFI GTSAC 1 cut(s) 1489
TseI GCWGC 1 cut(s) 1076
Tsp45I GTSAC 1 cut(s) 1489
TspDTI ATGAA 8 cut(s) 40, 250, 378, 459, 560, 821, 965, 1043
TspRI CASTG 4 cut(s) 362, 1168, 1209, 1429
Tth111I GACNNNGTC 1 cut(s) 328
VneI GTGCAC 1 cut(s) 1200
VpaK11BI GGWCC 1 cut(s) 1229
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 2 cut(s) 972, 1466
XspI CTAG 2 cut(s) 341, 501
Zsp2I ATGCAT 1 cut(s) 1440
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.