RLG00000005664

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
OG0007978
Physical Location & Seq
Forward (+)
697239 .. 699943
2705 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000005664

Sequence Viewer

Length: 1686 bp
ATGTCACACCTCTGTGATTTTCAAATCCACATTAACGGTCTGCAAACATTCTTTGTGAATGAGGAGGTTTTATCAACATATGCAGGGAGGTTGAAGAAGATTATCAAGCAAGAAAGGAGAAGATCCCAGATCAAGTACTCGGGGATTGAAATCGAAGACTTCCCTGGAGGCCCTGAAGGGTTTGAGTTGATCTCAAGGTTCTGTTACAGCAATGGAAGAATCACAACAACAGTTTCAAATGTGTCCCTCCTCCATTGCTGTGCAGTCTTTCTTGGTATGACTGAGAAAGTCTCAAACAACAATCTCTTGAAACAAACAGAAACCTTTCTCGAGGGACTGTTTGACTGGTCATGGAAAGAAATACTAGTCTGCCTGAAAAGCTGTGAGTCATTCTTGACCTATGCAGATTCTTCTGGTCTTGTAGACAAGCTCATTTGTGCAGTTTTAGCAAAGATTGCTCAGAATTCAGACATAGGCTGCCTCATTGCTACTTCGTCTTCGTCGTCTTCATCTCCAGAAACTACATCTGGGTTCAGAGCGTCTTCCTCATTTAAGAACACCCCTGAGTCACTCAAGCCAAGTTCATCAAGTAGAGCTTGGTGGTTTGATGATGTGTCCATTTTACCCCCAAAGATCGTTGAGAAACTCATCCAAAGTTTAGGGGCGTATGGTTCTGAAAACAACAGCTTGATCCTCACAAGGTTTCTCCTCCATTACCTGAAAATTTCAGCTCAAAGAAAGAATAGTACTAATCACACATCATCCGAGTTTAGTGGTCTTGCAGACACAGCTATTCATGGGGTTATTTTGGTGGGTAAAAAAGTCTTTTCCTGCAGAGCCCTGTTTTGGGTTTTGAGGATTGTGTCTGGTTTTGGAATCAGTAGAGAGTACAGACTTGGTTTGGAGAGATTGATAGGTGGGATGCTTGATGAAGCAACATTGGATGACTTGTTAGTATCTGGGCATGATAGGGGTGTTTATGATGTCAATCTTGTTATACGGTTGATAAGAGTATTTGCTAAAAGTGAGGGGGTTTCTGTGCAAAAGTTGAGGAAAGCTGGTAGGTTGATCGACAAGTACCTAGGTGAAATATCACCTGATCAGAATCTCAAGATTTCTAAATTTCTTGGAGTTGCAGAGAGTTTACCAGATTCTGCTCGGGAGTGCTTTGATGGGGCCTACAGAGCCATTGATATCTATCTTGAGTCTCACCCGACTCTTTCATTTGAGGAAAGGTCAAGATTATGCAGATGCCTAAATTATGAAAAGCTGAGCCTCGAAGCGTGTAAAGAGCTTGCAAAGAATCCGAAAATCCCACCAAGAGTTGCAATTCAAGCTCTCATTTCTCAGCAATCCAAAGTAACAACAACAGAAGAATTTGTACATGCCAGTCCAAGTAGTACTGCAACTGCAAGTGATCATTTTCATTCCCATTCCCATTCACATTCCAATTCCCATTCCCAAATTGTTCTGTACGACAAGGGTGGTGTCGGTGTTGATAAAGATAGTTTTCCGGAAGAAAGCAGCTTAGATACGAAGCTTAATTTGCAGAGGATGCAATGGAGGGTGGTGGAGTTGGAGAAACTGTGCAGGGAAATGAAGGGTCAGATGTCAAGGATGGTTAAGAATAATGTCTTGAGTAGTAGTACCCCAACTCATGGTAGAGCTCTTCCTAGACTTTGTTGA
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

562

Amino Acids

62.5

Weight (kDa)

8.5

Isoelectric Point (pI)

44.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 200 - 429 1.7e-59 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)
AccB7I CCANNNNNTGG 1 cut(s) 1658
AccI GTMKAC 1 cut(s) 423
AccIII TCCGGA 1 cut(s) 1513
AclWI GGATC 2 cut(s) 117, 685
AcsI RAATTY 4 cut(s) 463, 723, 1121, 1376
AcuI CTGAAG 1 cut(s) 195
AfaI GTAC 8 cut(s) 137, 748, 890, 1079, 1383, 1402, 1475, 1648
AfiI CCNNNNNNNGG 3 cut(s) 846, 847, 1658
AgsI TTSAA 6 cut(s) 23, 94, 149, 237, 310, 1334
AhlI ACTAGT 1 cut(s) 364
AjnI CCWGG 1 cut(s) 163
AleI CACNNNNGTG 1 cut(s) 12
Alw21I GWGCWC 1 cut(s) 1669
Alw26I GTCTC 2 cut(s) 295, 1212
AlwI GGATC 2 cut(s) 117, 685
AlwNI CAGNNNCTG 1 cut(s) 1154
Ama87I CYCGRG 3 cut(s) 139, 329, 1158
Aor13HI TCCGGA 1 cut(s) 1513
AoxI GGCC 2 cut(s) 169, 1176
ApeKI GCWGC 2 cut(s) 477, 1524
ApoI RAATTY 4 cut(s) 463, 723, 1121, 1376
Asp700I GAANNNNTTC 1 cut(s) 324
AspA2I CCTAGG 1 cut(s) 1081
AspS9I GGNCC 2 cut(s) 170, 1176
AsuHPI GGTGA 3 cut(s) 1086, 1097, 1202
AvaI CYCGRG 3 cut(s) 139, 329, 1158
AvrII CCTAGG 1 cut(s) 1081
BanII GRGCYC 2 cut(s) 841, 1669
BarI GAAGNNNNNNTAC 2 cut(s) 1365, 1397
BbsI GAAGAC 4 cut(s) 162, 489, 498, 534
Bbv12I GWGCWC 1 cut(s) 1669
BbvI GCAGC 2 cut(s) 464, 1536
BccI CCATC 2 cut(s) 1166, 1612
BciT130I CCWGG 1 cut(s) 165
BclI TGATCA 2 cut(s) 1099, 1417
BcoDI GTCTC 2 cut(s) 295, 1212
BcuI ACTAGT 1 cut(s) 364
BfaI CTAG 3 cut(s) 365, 1082, 1674
BfmI CTRYAG 2 cut(s) 832, 1180
BisI GCNGC 2 cut(s) 478, 1525
BlnI CCTAGG 1 cut(s) 1081
BlpI GCTNAGC 1 cut(s) 1271
BlsI GCNGC 2 cut(s) 479, 1526
BmcAI AGTACT 3 cut(s) 137, 748, 1402
Bme1390I CCNGG 1 cut(s) 165
BmeT110I CYCGRG 3 cut(s) 139, 329, 1158
BmgT120I GGNCC 2 cut(s) 170, 1176
BmiI GGNNCC 1 cut(s) 1177
BmrFI CCNGG 1 cut(s) 165
BmsI GCATC 3 cut(s) 912, 1241, 1545
BpiI GAAGAC 4 cut(s) 162, 489, 498, 534
BplI GAGNNNNNCTC 4 cut(s) 176, 208, 275, 307
BpmI CTGGAG 2 cut(s) 186, 498
Bpu1102I GCTNAGC 1 cut(s) 1271
BpuEI CTTGAG 5 cut(s) 178, 557, 1094, 1223, 1657
BsaBI GATNNNNATC 4 cut(s) 149, 987, 1104, 1197
BsaJI CCNNGG 2 cut(s) 163, 1081
BsaWI WCCGGW 1 cut(s) 1513
BsaXI ACNNNNNCTCC 2 cut(s) 1571, 1601
Bsc4I CCNNNNNNNGG 3 cut(s) 846, 847, 1658
Bse1I ACTGG 2 cut(s) 350, 1389
Bse3DI GCAATG 4 cut(s) 217, 253, 483, 1565
Bse8I GATNNNNATC 4 cut(s) 149, 987, 1104, 1197
BseAI TCCGGA 1 cut(s) 1513
BseBI CCWGG 1 cut(s) 165
BseDI CCNNGG 2 cut(s) 163, 1081
BseGI GGATG 6 cut(s) 648, 761, 927, 949, 1560, 1623
BseJI GATNNNNATC 4 cut(s) 149, 987, 1104, 1197
BseLI CCNNNNNNNGG 3 cut(s) 846, 847, 1658
BseMI GCAATG 4 cut(s) 217, 253, 483, 1565
BseMII CTCAG 5 cut(s) 273, 473, 555, 1262, 1361
BseNI ACTGG 2 cut(s) 350, 1389
BseRI GAGGAG 3 cut(s) 77, 239, 698
BseXI GCAGC 2 cut(s) 464, 1536
BsgI GTGCAG 3 cut(s) 282, 459, 1609
BshFI GGCC 2 cut(s) 171, 1178
BsiHKAI GWGCWC 1 cut(s) 1669
BsiHKCI CYCGRG 3 cut(s) 139, 329, 1158
BsiSI CCGG 1 cut(s) 1514
BslFI GGGAC 2 cut(s) 229, 348
BslI CCNNNNNNNGG 3 cut(s) 846, 847, 1658
BsmAI GTCTC 2 cut(s) 295, 1212
BsmFI GGGAC 2 cut(s) 229, 348
BsnI GGCC 2 cut(s) 171, 1178
BsoBI CYCGRG 3 cut(s) 139, 329, 1158
Bsp1286I GDGCHC 2 cut(s) 841, 1669
Bsp13I TCCGGA 1 cut(s) 1513
Bsp1407I TGTACA 1 cut(s) 1381
Bsp143I GATC 8 cut(s) 122, 129, 189, 633, 690, 1068, 1099, 1417
Bsp1720I GCTNAGC 1 cut(s) 1271
BspANI GGCC 2 cut(s) 171, 1178
BspCNI CTCAG 5 cut(s) 274, 472, 556, 1263, 1360
BspEI TCCGGA 1 cut(s) 1513
BspLI GGNNCC 1 cut(s) 1177
BspMAI CTGCAG 1 cut(s) 836
BspPI GGATC 2 cut(s) 117, 685
BspQI GCTCTTC 1 cut(s) 1674
BsrDI GCAATG 4 cut(s) 217, 253, 483, 1565
BsrGI TGTACA 1 cut(s) 1381
BsrI ACTGG 2 cut(s) 350, 1389
BssECI CCNNGG 2 cut(s) 163, 1081
BssMI GATC 8 cut(s) 122, 129, 189, 633, 690, 1068, 1099, 1417
BssT1I CCWWGG 1 cut(s) 1081
Bst2UI CCWGG 1 cut(s) 165
Bst4CI ACNGT 5 cut(s) 38, 232, 339, 1002, 1587
Bst6I CTCTTC 1 cut(s) 1674
BstAPI GCANNNNNTGC 2 cut(s) 455, 1555
BstAUI TGTACA 1 cut(s) 1381
BstC8I GCNNGC 1 cut(s) 1296
BstDEI CTNAG 6 cut(s) 282, 459, 564, 1271, 1347, 1528
BstF5I GGATG 6 cut(s) 648, 761, 927, 949, 1560, 1623
BstKTI GATC 8 cut(s) 125, 132, 192, 636, 693, 1071, 1102, 1420
BstMAI GTCTC 2 cut(s) 295, 1212
BstMBI GATC 8 cut(s) 122, 129, 189, 633, 690, 1068, 1099, 1417
BstMWI GCNNNNNNNGC 8 cut(s) 378, 446, 455, 788, 1184, 1334, 1546, 1555
BstNI CCWGG 1 cut(s) 165
BstNSI RCATGY 1 cut(s) 1388
BstSCI CCNGG 1 cut(s) 163
BstSFI CTRYAG 2 cut(s) 832, 1180
BstV1I GCAGC 2 cut(s) 464, 1536
BstV2I GAAGAC 4 cut(s) 162, 489, 498, 534
BstX2I RGATCY 1 cut(s) 122
BstYI RGATCY 1 cut(s) 122
BsuRI GGCC 2 cut(s) 171, 1178
BtsCI GGATG 6 cut(s) 648, 761, 927, 949, 1560, 1623
Cac8I GCNNGC 1 cut(s) 1296
CaiI CAGNNNCTG 1 cut(s) 1154
Cfr13I GGNCC 2 cut(s) 170, 1176
CseI GACGC 1 cut(s) 528
Csp6I GTAC 8 cut(s) 136, 747, 889, 1078, 1382, 1401, 1474, 1647
CviAII CATG 5 cut(s) 351, 797, 965, 1385, 1658
CviQI GTAC 8 cut(s) 136, 747, 889, 1078, 1382, 1401, 1474, 1647
DdeI CTNAG 6 cut(s) 282, 459, 564, 1271, 1347, 1528
DpnI GATC 8 cut(s) 124, 131, 191, 635, 692, 1070, 1101, 1419
DpnII GATC 8 cut(s) 122, 129, 189, 633, 690, 1068, 1099, 1417
Eam1104I CTCTTC 1 cut(s) 1674
EarI CTCTTC 1 cut(s) 1674
Ecl136II GAGCTC 1 cut(s) 1667
Eco130I CCWWGG 1 cut(s) 1081
Eco24I GRGCYC 2 cut(s) 841, 1669
Eco32I GATATC 1 cut(s) 1195
Eco53kI GAGCTC 1 cut(s) 1667
Eco57I CTGAAG 1 cut(s) 195
Eco88I CYCGRG 3 cut(s) 139, 329, 1158
EcoICRI GAGCTC 1 cut(s) 1667
EcoO109I RGGNCCY 2 cut(s) 170, 1176
EcoRI GAATTC 1 cut(s) 463
EcoRII CCWGG 1 cut(s) 163
EcoRV GATATC 1 cut(s) 1195
EcoT14I CCWWGG 1 cut(s) 1081
EcoT38I GRGCYC 2 cut(s) 841, 1669
ErhI CCWWGG 1 cut(s) 1081
FaeI CATG 5 cut(s) 354, 800, 968, 1388, 1661
FalI AAGNNNNNCTT 2 cut(s) 580, 612
FaqI GGGAC 2 cut(s) 229, 348
FatI CATG 5 cut(s) 350, 796, 964, 1384, 1657
FauNDI CATATG 1 cut(s) 79
FbaI TGATCA 2 cut(s) 1099, 1417
FblI GTMKAC 1 cut(s) 423
Fnu4HI GCNGC 2 cut(s) 478, 1525
FokI GGATG 6 cut(s) 635, 748, 934, 956, 1567, 1630
FriOI GRGCYC 2 cut(s) 841, 1669
Fsp4HI GCNGC 2 cut(s) 478, 1525
FspBI CTAG 3 cut(s) 365, 1082, 1674
GluI GCNGC 2 cut(s) 478, 1525
GsuI CTGGAG 2 cut(s) 186, 498
HaeIII GGCC 2 cut(s) 171, 1178
HapII CCGG 1 cut(s) 1514
HgaI GACGC 1 cut(s) 528
Hin1II CATG 5 cut(s) 354, 800, 968, 1388, 1661
HindIII AAGCTT 1 cut(s) 1538
HpaII CCGG 1 cut(s) 1514
HphI GGTGA 3 cut(s) 1086, 1097, 1202
Hpy166II GTNNAC 2 cut(s) 424, 1145
Hpy188I TCNGA 8 cut(s) 462, 469, 536, 676, 766, 1104, 1308, 1608
Hpy8I GTNNAC 2 cut(s) 424, 1145
Hpy99I CGWCG 1 cut(s) 505
HpyAV CCTTC 2 cut(s) 170, 1594
HpyCH4III ACNGT 5 cut(s) 38, 232, 339, 1002, 1587
HpyF10VI GCNNNNNNNGC 8 cut(s) 378, 446, 455, 788, 1184, 1334, 1546, 1555
HpyF3I CTNAG 6 cut(s) 282, 459, 564, 1271, 1347, 1528
Hsp92II CATG 5 cut(s) 354, 800, 968, 1388, 1661
Kpn2I TCCGGA 1 cut(s) 1513
Ksp22I TGATCA 2 cut(s) 1099, 1417
Kzo9I GATC 8 cut(s) 122, 129, 189, 633, 690, 1068, 1099, 1417
LguI GCTCTTC 1 cut(s) 1674
Lsp1109I GCAGC 2 cut(s) 464, 1536
LweI GCATC 3 cut(s) 912, 1241, 1545
MaeI CTAG 3 cut(s) 365, 1082, 1674
MaeIII GTNAC 4 cut(s) 3, 203, 567, 1360
MalI GATC 8 cut(s) 124, 131, 191, 635, 692, 1070, 1101, 1419
MboI GATC 8 cut(s) 122, 129, 189, 633, 690, 1068, 1099, 1417
MflI RGATCY 1 cut(s) 122
MhlI GDGCHC 2 cut(s) 841, 1669
MluCI AATT 9 cut(s) 463, 723, 1121, 1258, 1329, 1376, 1450, 1464, 1543
MlyI GAGTC 4 cut(s) 395, 575, 1210, 1214
MmeI TCCRAC 1 cut(s) 1557
MroI TCCGGA 1 cut(s) 1513
MroXI GAANNNNTTC 1 cut(s) 324
MseI TTAA 4 cut(s) 33, 552, 1542, 1623
MslI CAYNNNNRTG 2 cut(s) 12, 258
MspI CCGG 1 cut(s) 1514
MspR9I CCNGG 1 cut(s) 165
MvaI CCWGG 1 cut(s) 165
MwoI GCNNNNNNNGC 8 cut(s) 378, 446, 455, 788, 1184, 1334, 1546, 1555
NdeI CATATG 1 cut(s) 79
NdeII GATC 8 cut(s) 122, 129, 189, 633, 690, 1068, 1099, 1417
NlaIII CATG 5 cut(s) 354, 800, 968, 1388, 1661
NlaIV GGNNCC 1 cut(s) 1177
NmuCI GTSAC 2 cut(s) 3, 567
NspI RCATGY 1 cut(s) 1388
OliI CACNNNNGTG 1 cut(s) 12
PaeR7I CTCGAG 1 cut(s) 329
PciSI GCTCTTC 1 cut(s) 1674
PcsI WCGNNNNNNNCGW 1 cut(s) 500
PdmI GAANNNNTTC 1 cut(s) 324
PfeI GAWTC 6 cut(s) 219, 407, 876, 1105, 1151, 1303
PflMI CCANNNNNTGG 1 cut(s) 1658
PkrI GCNGC 2 cut(s) 479, 1526
PleI GAGTC 4 cut(s) 394, 574, 1210, 1213
PpsI GAGTC 4 cut(s) 394, 574, 1210, 1213
Psp124BI GAGCTC 1 cut(s) 1669
Psp6I CCWGG 1 cut(s) 163
PspGI CCWGG 1 cut(s) 163
PspN4I GGNNCC 1 cut(s) 1177
PspPI GGNCC 2 cut(s) 170, 1176
PstI CTGCAG 1 cut(s) 836
PstNI CAGNNNCTG 1 cut(s) 1154
PsuI RGATCY 1 cut(s) 122
RsaI GTAC 8 cut(s) 137, 748, 890, 1079, 1383, 1402, 1475, 1648
RsaNI GTAC 8 cut(s) 136, 747, 889, 1078, 1382, 1401, 1474, 1647
RseI CAYNNNNRTG 2 cut(s) 12, 258
SacI GAGCTC 1 cut(s) 1669
SapI GCTCTTC 1 cut(s) 1674
SaqAI TTAA 4 cut(s) 33, 552, 1542, 1623
SatI GCNGC 2 cut(s) 478, 1525
Sau3AI GATC 8 cut(s) 122, 129, 189, 633, 690, 1068, 1099, 1417
Sau96I GGNCC 2 cut(s) 170, 1176
ScaI AGTACT 3 cut(s) 137, 748, 1402
SchI GAGTC 4 cut(s) 395, 575, 1210, 1214
ScrFI CCNGG 1 cut(s) 165
SduI GDGCHC 2 cut(s) 841, 1669
SfaNI GCATC 3 cut(s) 912, 1241, 1545
SfcI CTRYAG 2 cut(s) 832, 1180
Sfr274I CTCGAG 1 cut(s) 329
SlaI CTCGAG 1 cut(s) 329
SmiMI CAYNNNNRTG 2 cut(s) 12, 258
SmlI CTYRAG 6 cut(s) 193, 329, 572, 1109, 1202, 1636
SmoI CTYRAG 6 cut(s) 193, 329, 572, 1109, 1202, 1636
SpeI ACTAGT 1 cut(s) 364
Sse9I AATT 9 cut(s) 463, 723, 1121, 1258, 1329, 1376, 1450, 1464, 1543
SspMI CTAG 3 cut(s) 365, 1082, 1674
SstI GAGCTC 1 cut(s) 1669
StyD4I CCNGG 1 cut(s) 163
StyI CCWWGG 1 cut(s) 1081
TaaI ACNGT 5 cut(s) 38, 232, 339, 1002, 1587
TaqI TCGA 4 cut(s) 153, 330, 1071, 1278
TasI AATT 9 cut(s) 463, 723, 1121, 1258, 1329, 1376, 1450, 1464, 1543
TatI WGTACW 5 cut(s) 135, 746, 888, 1381, 1400
TfiI GAWTC 6 cut(s) 219, 407, 876, 1105, 1151, 1303
Tru1I TTAA 4 cut(s) 33, 552, 1542, 1623
Tru9I TTAA 4 cut(s) 33, 552, 1542, 1623
TseFI GTSAC 2 cut(s) 3, 567
TseI GCWGC 2 cut(s) 477, 1524
Tsp45I GTSAC 2 cut(s) 3, 567
TspDTI ATGAA 8 cut(s) 498, 573, 785, 945, 1212, 1278, 1415, 1613
Van91I CCANNNNNTGG 1 cut(s) 1658
XapI RAATTY 4 cut(s) 463, 723, 1121, 1376
XceI RCATGY 1 cut(s) 1388
XhoI CTCGAG 1 cut(s) 329
XmaJI CCTAGG 1 cut(s) 1081
XmiI GTMKAC 1 cut(s) 423
XmnI GAANNNNTTC 1 cut(s) 324
XspI CTAG 3 cut(s) 365, 1082, 1674
ZrmI AGTACT 3 cut(s) 137, 748, 1402
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.