Rroxscaffold_5G00386840

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0007978
Physical Location & Seq
Reverse (-)
65605781 .. 65608589
2809 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00386840.1

Sequence Viewer

Length: 1545 bp
ATGTCACACCTCTGTGATTTTCAAATCCACATTAATGGTCTGCAAACATTCTTTGTGAATGAGGAGGTTTTATCAACATATGCAGGGAGGTTGAAGAAGATTATCAAGCAAGAAAGGAGAAGATCCCAGATCAAGTACTCGGGAATTGAAATCGAAGACTTCCCTGGAGGCCCTGATGGGTTTGAGTTGATCTCAAGGTTCTGTTACAGCAATGGAAGAATCACAACAACAGTTTCAAATGTGTCCCTCCTCCATTGCTGTGCAGTCTTTCTTGGTATGACTGAGAAAGTCTCAACCAACAATCTCTTGAAACAAACAGAAACCTTTCTTGAGGGACTCTTTGACTGGTCATGGAAAGAAATACTAGTCTGCCTAAAAAGCTGTGAGTCATTCTTGAACTATGCAGATTCTTCTGGTCTTGTAGACAAGCTCATTTGTGCAGTTTTAGCAAAGATTGCTCAGAATTCAGACATAGGCAGCCTCATTGCTACTTCGTCTTCGTCGTCTTCATCTCCAGAAACTACATCTGGGTTCAGAGTGTCTTCTTCATTTAAGAACACCCCTGAGTCACTCAAGCCAAGTTCATCAAGTAGAGCTTGGTGGTTTGATGATGTGTCCATTTTACCCCCAAAGATCATTGAGAAACTCATCCAAAGCTTAGGGGCGTATGGTTCTGAAAACAACAGCTTGATCCTCACAAGAGCCTTGTTTCGGGTTTTGAGGATTGTGTCTGGTTTTGGAATCAGGAGAGAGTACAGACTTGGTTTGGAGAGATTGATTGGTGGGATGCTTGATGAAGCAACATTGGATGACTTGTTAGTATCTGGGCATGACAGGGGTGTTTATGATGTCAATCTTGTTATAAGGTTGATAAGAGTATTTGCTAAAAGTGAGGGGGTTTCTGTGCAACAGTTGAGGAGAGCTGGTAGGTTGATCGATAAGTACCTAGGTGAAATATCACCTGATCAGAATCTCAAGATTTCTAAATTTCTTGGAGTTGCAGAGAGTTTACCAGATTCTGCTAGGGAGTGCTTTGATGGGGCCTACATAGCCATTGATATCTATCTTGAGTCTCACCCGACTCTTTCATCCGAGGAGAGGTCAAGATTATGCAGATGCCTAAATTATGAAAAGCTGAGCCTCGAAGCGTGTAAAGAGCTCGCAAAGAACCCGAAAATCCCACCAAGAGTTGCAATTCAAGCACTCATTTCTCAGCAATCCAAAGTAACAACAACAGAAGACTTTGTACATGCCAGTCCAAGTAGTACTGCAACTGCAAGTGATCATTTTCATTCCCATTCACATTCCAATTCCCATTCCCAAATTGTTCTGTACAACAAGGGTGGTGTCGGTGTTGATAAAGATAGTTTTCCAGAAGAAAGCAGCTTAGATACGAAGCTAAATTTGCAGAGGATGCAATGGAGGGTGGTGGAGTTGGAGAAACTGTGCAGGGAAATGAAGGGTCAGATGTCAAGGATGGTTAAGAATAATGTCTTGAGTAGTAGTACCCCAACTCATGGTAGAGCTCTTCCTAGACTTTGTTGA
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
BTB NPH3

Protein Analysis

514

Amino Acids

57.28

Weight (kDa)

8.14

Isoelectric Point (pI)

49.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 229 - 384 1e-47 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 863
AccB7I CCANNNNNTGG 1 cut(s) 1517
AccI GTMKAC 1 cut(s) 423
AclWI GGATC 2 cut(s) 117, 685
AcsI RAATTY 3 cut(s) 463, 986, 1402
AfaI GTAC 7 cut(s) 137, 755, 944, 1248, 1267, 1334, 1507
AfiI CCNNNNNNNGG 3 cut(s) 711, 1098, 1517
AgsI TTSAA 7 cut(s) 23, 94, 149, 237, 310, 397, 1199
AhlI ACTAGT 1 cut(s) 364
AjnI CCWGG 1 cut(s) 163
AleI CACNNNNGTG 1 cut(s) 12
Alw21I GWGCWC 2 cut(s) 1161, 1528
Alw26I GTCTC 2 cut(s) 295, 1077
AlwI GGATC 2 cut(s) 117, 685
AlwNI CAGNNNCTG 1 cut(s) 1019
Ama87I CYCGRG 1 cut(s) 139
AoxI GGCC 2 cut(s) 169, 1041
ApeKI GCWGC 2 cut(s) 477, 1383
ApoI RAATTY 3 cut(s) 463, 986, 1402
AseI ATTAAT 1 cut(s) 33
Asp700I GAANNNNTTC 1 cut(s) 324
AspA2I CCTAGG 1 cut(s) 946
AspS9I GGNCC 2 cut(s) 170, 1041
AsuHPI GGTGA 3 cut(s) 951, 962, 1067
AvaI CYCGRG 1 cut(s) 139
AvrII CCTAGG 1 cut(s) 946
BanII GRGCYC 2 cut(s) 1161, 1528
BarI GAAGNNNNNNTAC 2 cut(s) 1230, 1262
BbsI GAAGAC 5 cut(s) 162, 489, 498, 534, 1245
Bbv12I GWGCWC 2 cut(s) 1161, 1528
BbvI GCAGC 2 cut(s) 489, 1395
BccI CCATC 3 cut(s) 170, 1031, 1471
BciT130I CCWGG 1 cut(s) 165
BclI TGATCA 2 cut(s) 964, 1282
BcoDI GTCTC 2 cut(s) 295, 1077
BcuI ACTAGT 1 cut(s) 364
BfaI CTAG 4 cut(s) 365, 947, 1023, 1533
BisI GCNGC 2 cut(s) 478, 1384
BlnI CCTAGG 1 cut(s) 946
BlpI GCTNAGC 1 cut(s) 1136
BlsI GCNGC 2 cut(s) 479, 1385
BmcAI AGTACT 2 cut(s) 137, 1267
Bme1390I CCNGG 1 cut(s) 165
BmeT110I CYCGRG 1 cut(s) 139
BmgT120I GGNCC 2 cut(s) 170, 1041
BmiI GGNNCC 1 cut(s) 1042
BmrFI CCNGG 1 cut(s) 165
BmsI GCATC 3 cut(s) 777, 1106, 1404
BpiI GAAGAC 5 cut(s) 162, 489, 498, 534, 1245
BplI GAGNNNNNCTC 4 cut(s) 176, 208, 275, 307
BpmI CTGGAG 2 cut(s) 186, 498
Bpu10I CCTNAGC 1 cut(s) 658
Bpu1102I GCTNAGC 1 cut(s) 1136
BpuEI CTTGAG 6 cut(s) 178, 350, 557, 959, 1088, 1516
Bsa29I ATCGAT 1 cut(s) 936
BsaBI GATNNNNATC 3 cut(s) 852, 969, 1062
BsaJI CCNNGG 3 cut(s) 163, 946, 1092
BsaXI ACNNNNNCTCC 4 cut(s) 910, 940, 1430, 1460
Bsc4I CCNNNNNNNGG 3 cut(s) 711, 1098, 1517
Bse1I ACTGG 2 cut(s) 350, 1254
Bse3DI GCAATG 4 cut(s) 217, 253, 483, 1424
Bse8I GATNNNNATC 3 cut(s) 852, 969, 1062
BseBI CCWGG 1 cut(s) 165
BseCI ATCGAT 1 cut(s) 936
BseDI CCNNGG 3 cut(s) 163, 946, 1092
BseGI GGATG 6 cut(s) 648, 792, 814, 1088, 1419, 1482
BseJI GATNNNNATC 3 cut(s) 852, 969, 1062
BseLI CCNNNNNNNGG 3 cut(s) 711, 1098, 1517
BseMI GCAATG 4 cut(s) 217, 253, 483, 1424
BseMII CTCAG 5 cut(s) 273, 473, 555, 1127, 1226
BseNI ACTGG 2 cut(s) 350, 1254
BseRI GAGGAG 4 cut(s) 77, 239, 931, 1109
BseXI GCAGC 2 cut(s) 489, 1395
BsgI GTGCAG 3 cut(s) 282, 459, 1468
BshFI GGCC 2 cut(s) 171, 1043
BshVI ATCGAT 1 cut(s) 936
BsiHKAI GWGCWC 2 cut(s) 1161, 1528
BsiHKCI CYCGRG 1 cut(s) 139
BslFI GGGAC 2 cut(s) 229, 348
BslI CCNNNNNNNGG 3 cut(s) 711, 1098, 1517
BsmAI GTCTC 2 cut(s) 295, 1077
BsmFI GGGAC 2 cut(s) 229, 348
BsnI GGCC 2 cut(s) 171, 1043
BsoBI CYCGRG 1 cut(s) 139
Bsp1286I GDGCHC 2 cut(s) 1161, 1528
Bsp1407I TGTACA 2 cut(s) 1246, 1332
Bsp143I GATC 8 cut(s) 122, 129, 189, 633, 690, 933, 964, 1282
Bsp1720I GCTNAGC 1 cut(s) 1136
BspANI GGCC 2 cut(s) 171, 1043
BspCNI CTCAG 5 cut(s) 274, 472, 556, 1128, 1225
BspDI ATCGAT 1 cut(s) 936
BspLI GGNNCC 1 cut(s) 1042
BspPI GGATC 2 cut(s) 117, 685
BspQI GCTCTTC 1 cut(s) 1533
BsrDI GCAATG 4 cut(s) 217, 253, 483, 1424
BsrGI TGTACA 2 cut(s) 1246, 1332
BsrI ACTGG 2 cut(s) 350, 1254
BssECI CCNNGG 3 cut(s) 163, 946, 1092
BssMI GATC 8 cut(s) 122, 129, 189, 633, 690, 933, 964, 1282
BssT1I CCWWGG 1 cut(s) 946
Bst2UI CCWGG 1 cut(s) 165
Bst4CI ACNGT 3 cut(s) 232, 912, 1446
Bst6I CTCTTC 1 cut(s) 1533
BstAPI GCANNNNNTGC 2 cut(s) 455, 1414
BstAUI TGTACA 2 cut(s) 1246, 1332
BstC8I GCNNGC 1 cut(s) 1161
BstDEI CTNAG 7 cut(s) 282, 459, 564, 658, 1136, 1212, 1387
BstF5I GGATG 6 cut(s) 648, 792, 814, 1088, 1419, 1482
BstKTI GATC 8 cut(s) 125, 132, 192, 636, 693, 936, 967, 1285
BstMAI GTCTC 2 cut(s) 295, 1077
BstMBI GATC 8 cut(s) 122, 129, 189, 633, 690, 933, 964, 1282
BstMWI GCNNNNNNNGC 7 cut(s) 378, 446, 455, 1049, 1199, 1405, 1414
BstNI CCWGG 1 cut(s) 165
BstNSI RCATGY 1 cut(s) 1253
BstSCI CCNGG 1 cut(s) 163
BstV1I GCAGC 2 cut(s) 489, 1395
BstV2I GAAGAC 5 cut(s) 162, 489, 498, 534, 1245
BstX2I RGATCY 1 cut(s) 122
BstXI CCANNNNNNTGG 1 cut(s) 35
BstYI RGATCY 1 cut(s) 122
Bsu15I ATCGAT 1 cut(s) 936
BsuRI GGCC 2 cut(s) 171, 1043
BsuTUI ATCGAT 1 cut(s) 936
BtsCI GGATG 6 cut(s) 648, 792, 814, 1088, 1419, 1482
Cac8I GCNNGC 1 cut(s) 1161
CaiI CAGNNNCTG 1 cut(s) 1019
Cfr13I GGNCC 2 cut(s) 170, 1041
ClaI ATCGAT 1 cut(s) 936
Csp6I GTAC 7 cut(s) 136, 754, 943, 1247, 1266, 1333, 1506
CspCI CAANNNNNGTGG 2 cut(s) 1324, 1359
CviAII CATG 4 cut(s) 351, 830, 1250, 1517
CviQI GTAC 7 cut(s) 136, 754, 943, 1247, 1266, 1333, 1506
DdeI CTNAG 7 cut(s) 282, 459, 564, 658, 1136, 1212, 1387
DpnI GATC 8 cut(s) 124, 131, 191, 635, 692, 935, 966, 1284
DpnII GATC 8 cut(s) 122, 129, 189, 633, 690, 933, 964, 1282
Eam1104I CTCTTC 1 cut(s) 1533
EarI CTCTTC 1 cut(s) 1533
Ecl136II GAGCTC 2 cut(s) 1159, 1526
Eco130I CCWWGG 1 cut(s) 946
Eco24I GRGCYC 2 cut(s) 1161, 1528
Eco32I GATATC 1 cut(s) 1060
Eco53kI GAGCTC 2 cut(s) 1159, 1526
Eco88I CYCGRG 1 cut(s) 139
EcoICRI GAGCTC 2 cut(s) 1159, 1526
EcoO109I RGGNCCY 2 cut(s) 170, 1041
EcoRI GAATTC 1 cut(s) 463
EcoRII CCWGG 1 cut(s) 163
EcoRV GATATC 1 cut(s) 1060
EcoT14I CCWWGG 1 cut(s) 946
EcoT38I GRGCYC 2 cut(s) 1161, 1528
ErhI CCWWGG 1 cut(s) 946
FaeI CATG 4 cut(s) 354, 833, 1253, 1520
FalI AAGNNNNNCTT 2 cut(s) 580, 612
FaqI GGGAC 2 cut(s) 229, 348
FatI CATG 4 cut(s) 350, 829, 1249, 1516
FauNDI CATATG 1 cut(s) 79
FbaI TGATCA 2 cut(s) 964, 1282
FblI GTMKAC 1 cut(s) 423
Fnu4HI GCNGC 2 cut(s) 478, 1384
FokI GGATG 6 cut(s) 635, 799, 821, 1075, 1426, 1489
FriOI GRGCYC 2 cut(s) 1161, 1528
Fsp4HI GCNGC 2 cut(s) 478, 1384
FspBI CTAG 4 cut(s) 365, 947, 1023, 1533
GluI GCNGC 2 cut(s) 478, 1384
GsuI CTGGAG 2 cut(s) 186, 498
HaeIII GGCC 2 cut(s) 171, 1043
Hin1II CATG 4 cut(s) 354, 833, 1253, 1520
HindIII AAGCTT 1 cut(s) 655
HphI GGTGA 3 cut(s) 951, 962, 1067
Hpy166II GTNNAC 2 cut(s) 424, 1010
Hpy188I TCNGA 7 cut(s) 462, 469, 536, 676, 969, 1093, 1467
Hpy8I GTNNAC 2 cut(s) 424, 1010
Hpy99I CGWCG 1 cut(s) 505
HpyAV CCTTC 1 cut(s) 1453
HpyCH4III ACNGT 3 cut(s) 232, 912, 1446
HpyF10VI GCNNNNNNNGC 7 cut(s) 378, 446, 455, 1049, 1199, 1405, 1414
HpyF3I CTNAG 7 cut(s) 282, 459, 564, 658, 1136, 1212, 1387
Hsp92II CATG 4 cut(s) 354, 833, 1253, 1520
Ksp22I TGATCA 2 cut(s) 964, 1282
Kzo9I GATC 8 cut(s) 122, 129, 189, 633, 690, 933, 964, 1282
LguI GCTCTTC 1 cut(s) 1533
Lsp1109I GCAGC 2 cut(s) 489, 1395
LweI GCATC 3 cut(s) 777, 1106, 1404
MaeI CTAG 4 cut(s) 365, 947, 1023, 1533
MaeIII GTNAC 4 cut(s) 3, 203, 567, 1225
MalI GATC 8 cut(s) 124, 131, 191, 635, 692, 935, 966, 1284
MboI GATC 8 cut(s) 122, 129, 189, 633, 690, 933, 964, 1282
MflI RGATCY 1 cut(s) 122
MhlI GDGCHC 2 cut(s) 1161, 1528
MluCI AATT 8 cut(s) 144, 463, 986, 1123, 1194, 1309, 1323, 1402
MlyI GAGTC 5 cut(s) 330, 395, 575, 1075, 1079
MmeI TCCRAC 1 cut(s) 1416
MroXI GAANNNNTTC 1 cut(s) 324
MseI TTAA 3 cut(s) 33, 552, 1482
MslI CAYNNNNRTG 3 cut(s) 12, 33, 258
MspR9I CCNGG 1 cut(s) 165
MvaI CCWGG 1 cut(s) 165
MwoI GCNNNNNNNGC 7 cut(s) 378, 446, 455, 1049, 1199, 1405, 1414
NdeI CATATG 1 cut(s) 79
NdeII GATC 8 cut(s) 122, 129, 189, 633, 690, 933, 964, 1282
NlaIII CATG 4 cut(s) 354, 833, 1253, 1520
NlaIV GGNNCC 1 cut(s) 1042
NmuCI GTSAC 2 cut(s) 3, 567
NspI RCATGY 1 cut(s) 1253
OliI CACNNNNGTG 1 cut(s) 12
PciSI GCTCTTC 1 cut(s) 1533
PcsI WCGNNNNNNNCGW 1 cut(s) 500
PdmI GAANNNNTTC 1 cut(s) 324
PfeI GAWTC 5 cut(s) 219, 407, 741, 970, 1016
PflMI CCANNNNNTGG 1 cut(s) 1517
PkrI GCNGC 2 cut(s) 479, 1385
PleI GAGTC 5 cut(s) 330, 394, 574, 1075, 1078
PpsI GAGTC 5 cut(s) 330, 394, 574, 1075, 1078
PshBI ATTAAT 1 cut(s) 33
PsiI TTATAA 1 cut(s) 863
Psp124BI GAGCTC 2 cut(s) 1161, 1528
Psp6I CCWGG 1 cut(s) 163
PspGI CCWGG 1 cut(s) 163
PspN4I GGNNCC 1 cut(s) 1042
PspPI GGNCC 2 cut(s) 170, 1041
PstNI CAGNNNCTG 1 cut(s) 1019
PsuI RGATCY 1 cut(s) 122
RsaI GTAC 7 cut(s) 137, 755, 944, 1248, 1267, 1334, 1507
RsaNI GTAC 7 cut(s) 136, 754, 943, 1247, 1266, 1333, 1506
RseI CAYNNNNRTG 3 cut(s) 12, 33, 258
SacI GAGCTC 2 cut(s) 1161, 1528
SapI GCTCTTC 1 cut(s) 1533
SaqAI TTAA 3 cut(s) 33, 552, 1482
SatI GCNGC 2 cut(s) 478, 1384
Sau3AI GATC 8 cut(s) 122, 129, 189, 633, 690, 933, 964, 1282
Sau96I GGNCC 2 cut(s) 170, 1041
ScaI AGTACT 2 cut(s) 137, 1267
SchI GAGTC 5 cut(s) 330, 395, 575, 1075, 1079
ScrFI CCNGG 1 cut(s) 165
SduI GDGCHC 2 cut(s) 1161, 1528
SfaNI GCATC 3 cut(s) 777, 1106, 1404
SmiMI CAYNNNNRTG 3 cut(s) 12, 33, 258
SmlI CTYRAG 6 cut(s) 193, 329, 572, 974, 1067, 1495
SmoI CTYRAG 6 cut(s) 193, 329, 572, 974, 1067, 1495
SpeI ACTAGT 1 cut(s) 364
Sse9I AATT 8 cut(s) 144, 463, 986, 1123, 1194, 1309, 1323, 1402
SspMI CTAG 4 cut(s) 365, 947, 1023, 1533
SstI GAGCTC 2 cut(s) 1161, 1528
StyD4I CCNGG 1 cut(s) 163
StyI CCWWGG 1 cut(s) 946
TaaI ACNGT 3 cut(s) 232, 912, 1446
TaqI TCGA 3 cut(s) 153, 936, 1143
TasI AATT 8 cut(s) 144, 463, 986, 1123, 1194, 1309, 1323, 1402
TatI WGTACW 5 cut(s) 135, 753, 1246, 1265, 1332
TfiI GAWTC 5 cut(s) 219, 407, 741, 970, 1016
Tru1I TTAA 3 cut(s) 33, 552, 1482
Tru9I TTAA 3 cut(s) 33, 552, 1482
TseFI GTSAC 2 cut(s) 3, 567
TseI GCWGC 2 cut(s) 477, 1383
Tsp45I GTSAC 2 cut(s) 3, 567
TspDTI ATGAA 8 cut(s) 498, 537, 573, 810, 1077, 1143, 1280, 1472
Van91I CCANNNNNTGG 1 cut(s) 1517
VspI ATTAAT 1 cut(s) 33
XapI RAATTY 3 cut(s) 463, 986, 1402
XceI RCATGY 1 cut(s) 1253
XmaJI CCTAGG 1 cut(s) 946
XmiI GTMKAC 1 cut(s) 423
XmnI GAANNNNTTC 1 cut(s) 324
XspI CTAG 4 cut(s) 365, 947, 1023, 1533
ZrmI AGTACT 2 cut(s) 137, 1267
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.