RLG00000025046

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0006676
Physical Location & Seq
Reverse (-)
41553751 .. 41556861
3111 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000025046

Sequence Viewer

Length: 1629 bp
ATGGTTGCAGATGCCAAGGATTCAGCTGCAAAATTGGAGCTCCACAACATACCAGGAGGACCACAGGCATTTGAACTTGCAATGAAATGTTGTTATGGCATGAACTTTGAGATCACAAGCGGAAATGTTGCCCATCTTCGCTGCGCTGCTGAATACTTGGAAATGTCTGAAGACTATACAGATGAAAACCTTATTGAGCGAACAGAGATTTACCTGAATGAGGTTGTAGTTCAAAGTCTTGAGAAGTCAGTGGAAGTCCTCACCACCTGCCAGACACTACCTCCTATAGCCGAGGAGGTTGGAATTCCAAGCAGATGTGTGGAGGCTATTGCCACCAATGCTTGTAAGGAACAATTGATGTCAGGGTTGTCTATGTTAAATTGTGATGGTGAATCTCCTGAGCTTAAGAGCGGTTGTCTTGAGTGGTGGGTTGAAGATCTCTCATTGCTAAGGATCGAATACTATCAGAGGGTTATTTTTGCCATGCAAAGAACAGGGGTTCGACCAGATAGCATTGTTGCATCTTTAATGCATTTTGCTCAAACATCCTTAAAGGGTATTGGAAAATGTCAAATTTGGAAAAAGCCAGATAGCTTACCAGAACATGACCAAAGGACTATTGTGGAAACCCTTATAAGCTTAATGCCAACAGAGAAAAGCTGTTCGGTGCCACTGAGTTTTATGTTTGGAATGCTGAGGATGTCAATCATGGTGGATGCTGCAATTGCCTGCAGGCTCGAGATTGAAAGGAGGATTGCTTACAGGTTGGAGATGGTTACACTAGATGATATCCTTATACCGTCCATTTACGCAGGGGGTTCACTGTATGATGTTGATACCGTTCATCGAATACTGGTGAACTTCCTACAGCGGATTGAAGAAGAAGAAGATGAAGACTGTGGATATGAGTCGGAAGGCATTGCTAATTCTCCGAGCCATGGTTCATTGTTGAAAGTTGGACGGCTTATTGACTCATATCTAGCTGAAATTGCTCCTGACCCATATCTCAGCTTGCAAAAGTTCGTTGCTATGATTGAAGTATTGCCTGATTATGCTCGAGTCATCGACGATGGACTTTACAGGGCGGTTGATATATATTTGAAGGTACATTCAATGCTAACTGAACAAGAATGCAAGAAGCTCTGCAAGTTTATAGACTGTCAAAAGCTCTCTCAAGAAGCCTGCAACCATGCTGCACAAAATGATCGGCTCCCAGTACAGATGACAGTGAGGGTTCTGTATTTCGAGCAGGTCCGATTGAAGACTGCACTGTCAGGAAACTCAGGAGATGGGTTTGTCTCGCAGAGAATAAGCAGTGGGGTACCAAGTGCAGCCATGTCCCCCCGAGATAACTATGCTTCATTGAGGAGAGAAAACCGAGAACTGAAGCTGGAGATCTCAAGAATGAGAGTGAGGCTGAGCGAGTTGGAGAAAGAGCAGTTGTTTATGAAACAAGGAATGATGGACAAGACAGGAAATGGCAAAACTTTCTTGACCTCAATCTCTAAGGGGATTGGAAAAATGGGAATTTTTAGTGGTCAAGCAGGAGTTAAACGACAGAAATCGAGTAGGAAGTCCCGGGGATCGGAGGGGAAAACTGGTAGGGGTAGGAGGCACTCTCTTTCCTAG
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

543

Amino Acids

60.72

Weight (kDa)

5.7

Isoelectric Point (pI)

47.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 141 - 395 3.1e-88 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) 635
AarI CACCTGC 1 cut(s) 275
AasI GACNNNNNNGTC 1 cut(s) 1270
Acc36I ACCTGC 2 cut(s) 275, 1240
Acc65I GGTACC 1 cut(s) 1321
AccB1I GGYRCC 2 cut(s) 667, 1321
AccBSI CCGCTC 1 cut(s) 411
AciI CCGC 4 cut(s) 120, 411, 871, 1085
AclWI GGATC 2 cut(s) 461, 1591
AcsI RAATTY 3 cut(s) 303, 573, 1527
AcuI CTGAAG 2 cut(s) 189, 1406
AfaI GTAC 3 cut(s) 1107, 1218, 1323
AfiI CCNNNNNNNGG 3 cut(s) 220, 938, 1585
AflII CTTAAG 1 cut(s) 404
AjnI CCWGG 1 cut(s) 52
Alw21I GWGCWC 1 cut(s) 42
Alw26I GTCTC 1 cut(s) 1303
AlwI GGATC 2 cut(s) 461, 1591
Ama87I CYCGRG 4 cut(s) 737, 1056, 1344, 1578
ApeKI GCWGC 6 cut(s) 26, 141, 146, 719, 1193, 1331
ApoI RAATTY 3 cut(s) 303, 573, 1527
Asp718I GGTACC 1 cut(s) 1321
AspLEI GCGC 1 cut(s) 146
AspS9I GGNCC 2 cut(s) 59, 1252
AsuC2I CCSGG 2 cut(s) 1579, 1580
AsuHPI GGTGA 3 cut(s) 253, 401, 868
AvaI CYCGRG 4 cut(s) 737, 1056, 1344, 1578
AvaII GGWCC 2 cut(s) 59, 1252
BanI GGYRCC 2 cut(s) 667, 1321
BanII GRGCYC 1 cut(s) 42
BbsI GAAGAC 3 cut(s) 177, 900, 1268
Bbv12I GWGCWC 1 cut(s) 42
BbvCI CCTCAGC 1 cut(s) 695
BbvI GCAGC 6 cut(s) 13, 128, 133, 706, 1180, 1343
BccI CCATC 6 cut(s) 141, 380, 766, 1064, 1283, 1456
BceAI ACGGC 1 cut(s) 977
BciT130I CCWGG 1 cut(s) 54
BcnI CCSGG 2 cut(s) 1579, 1580
BcoDI GTCTC 1 cut(s) 1303
BfaI CTAG 3 cut(s) 782, 980, 1627
BfmI CTRYAG 3 cut(s) 285, 730, 866
BfrI CTTAAG 1 cut(s) 404
BfuAI ACCTGC 2 cut(s) 275, 1240
BglII AGATCT 2 cut(s) 436, 1395
BisI GCNGC 6 cut(s) 27, 142, 147, 720, 1194, 1332
BlpI GCTNAGC 1 cut(s) 1418
BlsI GCNGC 6 cut(s) 28, 143, 148, 721, 1195, 1333
Bme1390I CCNGG 3 cut(s) 54, 1579, 1580
Bme18I GGWCC 2 cut(s) 59, 1252
BmeT110I CYCGRG 4 cut(s) 737, 1056, 1344, 1578
BmgT120I GGNCC 2 cut(s) 59, 1252
BmiI GGNNCC 3 cut(s) 669, 1211, 1323
BmrFI CCNGG 3 cut(s) 54, 1579, 1580
BmrI ACTGGG 1 cut(s) 1208
BmsI GCATC 2 cut(s) 530, 706
BmuI ACTGGG 1 cut(s) 1208
BpiI GAAGAC 3 cut(s) 177, 900, 1268
BplI GAGNNNNNCTC 1 cut(s) 1603
BpmI CTGGAG 1 cut(s) 1412
Bpu10I CCTNAGC 3 cut(s) 399, 449, 695
Bpu1102I GCTNAGC 1 cut(s) 1418
BpuEI CTTGAG 4 cut(s) 260, 440, 1158, 1384
BpuMI CCSGG 2 cut(s) 1579, 1580
BsaBI GATNNNNATC 1 cut(s) 704
BsaJI CCNNGG 5 cut(s) 15, 291, 937, 1578, 1579
BsaXI ACNNNNNCTCC 2 cut(s) 265, 295
Bsc4I CCNNNNNNNGG 3 cut(s) 220, 938, 1585
Bse1I ACTGG 3 cut(s) 858, 1214, 1603
Bse3DI GCAATG 3 cut(s) 87, 443, 918
Bse8I GATNNNNATC 1 cut(s) 704
BseBI CCWGG 1 cut(s) 54
BseDI CCNNGG 5 cut(s) 15, 291, 937, 1578, 1579
BseGI GGATG 3 cut(s) 545, 705, 721
BseJI GATNNNNATC 1 cut(s) 704
BseLI CCNNNNNNNGG 3 cut(s) 220, 938, 1585
BseMI GCAATG 3 cut(s) 87, 443, 918
BseMII CTCAG 6 cut(s) 390, 665, 686, 1021, 1296, 1409
BseNI ACTGG 3 cut(s) 858, 1214, 1603
BseRI GAGGAG 2 cut(s) 308, 1381
BseXI GCAGC 6 cut(s) 13, 128, 133, 706, 1180, 1343
BsgI GTGCAG 3 cut(s) 1179, 1251, 1350
BshNI GGYRCC 2 cut(s) 667, 1321
BsiHKAI GWGCWC 1 cut(s) 42
BsiHKCI CYCGRG 4 cut(s) 737, 1056, 1344, 1578
BsiSI CCGG 1 cut(s) 1579
BslFI GGGAC 2 cut(s) 1324, 1561
BslI CCNNNNNNNGG 3 cut(s) 220, 938, 1585
BsmAI GTCTC 1 cut(s) 1303
BsmFI GGGAC 2 cut(s) 1324, 1561
BsmI GAATGC 2 cut(s) 696, 1136
BsoBI CYCGRG 4 cut(s) 737, 1056, 1344, 1578
Bsp1286I GDGCHC 1 cut(s) 42
Bsp143I GATC 6 cut(s) 111, 436, 453, 1204, 1395, 1583
Bsp1720I GCTNAGC 1 cut(s) 1418
Bsp19I CCATGG 1 cut(s) 937
BspACI CCGC 4 cut(s) 120, 411, 871, 1085
BspCNI CTCAG 6 cut(s) 391, 666, 687, 1020, 1295, 1410
BspLI GGNNCC 3 cut(s) 669, 1211, 1323
BspMAI CTGCAG 1 cut(s) 734
BspMI ACCTGC 2 cut(s) 275, 1240
BspPI GGATC 2 cut(s) 461, 1591
BspT107I GGYRCC 2 cut(s) 667, 1321
BspTI CTTAAG 1 cut(s) 404
BsrBI CCGCTC 1 cut(s) 411
BsrDI GCAATG 3 cut(s) 87, 443, 918
BsrI ACTGG 3 cut(s) 858, 1214, 1603
BssECI CCNNGG 5 cut(s) 15, 291, 937, 1578, 1579
BssMI GATC 6 cut(s) 111, 436, 453, 1204, 1395, 1583
BssT1I CCWWGG 2 cut(s) 15, 937
Bst2UI CCWGG 1 cut(s) 54
Bst4CI ACNGT 7 cut(s) 801, 825, 841, 899, 1160, 1228, 1272
BstAFI CTTAAG 1 cut(s) 404
BstC8I GCNNGC 4 cut(s) 730, 734, 1013, 1183
BstDEI CTNAG 8 cut(s) 399, 449, 674, 695, 1007, 1282, 1418, 1506
BstDSI CCRYGG 1 cut(s) 937
BstENI CCTNNNNNAGG 1 cut(s) 218
BstF5I GGATG 3 cut(s) 545, 705, 721
BstHHI GCGC 1 cut(s) 146
BstKTI GATC 6 cut(s) 114, 439, 456, 1207, 1398, 1586
BstMAI GTCTC 1 cut(s) 1303
BstMBI GATC 6 cut(s) 111, 436, 453, 1204, 1395, 1583
BstMWI GCNNNNNNNGC 3 cut(s) 338, 725, 989
BstNI CCWGG 1 cut(s) 54
BstSCI CCNGG 3 cut(s) 52, 1577, 1578
BstSFI CTRYAG 3 cut(s) 285, 730, 866
BstV1I GCAGC 6 cut(s) 13, 128, 133, 706, 1180, 1343
BstV2I GAAGAC 3 cut(s) 177, 900, 1268
BstX2I RGATCY 2 cut(s) 436, 1395
BstYI RGATCY 2 cut(s) 436, 1395
BtgI CCRYGG 1 cut(s) 937
BtsCI GGATG 3 cut(s) 545, 705, 721
BtsI GCAGTG 1 cut(s) 1321
BtsIMutI CAGTG 6 cut(s) 255, 671, 821, 1233, 1268, 1321
BveI ACCTGC 2 cut(s) 275, 1240
Cac8I GCNNGC 4 cut(s) 730, 734, 1013, 1183
CfoI GCGC 1 cut(s) 146
Cfr13I GGNCC 2 cut(s) 59, 1252
Cfr9I CCCGGG 1 cut(s) 1578
Csp6I GTAC 3 cut(s) 1106, 1217, 1322
CspCI CAANNNNNGTGG 2 cut(s) 693, 728
CviAII CATG 7 cut(s) 100, 484, 605, 709, 938, 1190, 1336
CviQI GTAC 3 cut(s) 1106, 1217, 1322
DdeI CTNAG 8 cut(s) 399, 449, 674, 695, 1007, 1282, 1418, 1506
DpnI GATC 6 cut(s) 113, 438, 455, 1206, 1397, 1585
DpnII GATC 6 cut(s) 111, 436, 453, 1204, 1395, 1583
DrdI GACNNNNNNGTC 1 cut(s) 1270
DseDI GACNNNNNNGTC 1 cut(s) 1270
Ecl136II GAGCTC 1 cut(s) 40
Eco130I CCWWGG 2 cut(s) 15, 937
Eco24I GRGCYC 1 cut(s) 42
Eco32I GATATC 1 cut(s) 790
Eco47I GGWCC 2 cut(s) 59, 1252
Eco53kI GAGCTC 1 cut(s) 40
Eco57I CTGAAG 2 cut(s) 189, 1406
Eco88I CYCGRG 4 cut(s) 737, 1056, 1344, 1578
EcoICRI GAGCTC 1 cut(s) 40
EcoNI CCTNNNNNAGG 1 cut(s) 218
EcoRI GAATTC 1 cut(s) 303
EcoRII CCWGG 1 cut(s) 52
EcoRV GATATC 1 cut(s) 790
EcoT14I CCWWGG 2 cut(s) 15, 937
EcoT22I ATGCAT 1 cut(s) 534
EcoT38I GRGCYC 1 cut(s) 42
ErhI CCWWGG 2 cut(s) 15, 937
FaeI CATG 7 cut(s) 103, 487, 608, 712, 941, 1193, 1339
FaqI GGGAC 2 cut(s) 1324, 1561
FatI CATG 7 cut(s) 99, 483, 604, 708, 937, 1189, 1335
Fnu4HI GCNGC 6 cut(s) 27, 142, 147, 720, 1194, 1332
FokI GGATG 3 cut(s) 532, 712, 728
FriOI GRGCYC 1 cut(s) 42
Fsp4HI GCNGC 6 cut(s) 27, 142, 147, 720, 1194, 1332
FspBI CTAG 3 cut(s) 782, 980, 1627
GlaI GCGC 1 cut(s) 145
GluI GCNGC 6 cut(s) 27, 142, 147, 720, 1194, 1332
GsuI CTGGAG 1 cut(s) 1412
HapII CCGG 1 cut(s) 1579
HhaI GCGC 1 cut(s) 146
Hin1II CATG 7 cut(s) 103, 487, 608, 712, 941, 1193, 1339
Hin6I GCGC 1 cut(s) 144
HinP1I GCGC 1 cut(s) 144
HindIII AAGCTT 1 cut(s) 637
HinfI GANTC 5 cut(s) 20, 392, 908, 971, 1059
HpaII CCGG 1 cut(s) 1579
HphI GGTGA 3 cut(s) 253, 401, 868
Hpy166II GTNNAC 2 cut(s) 821, 859
Hpy188I TCNGA 6 cut(s) 169, 468, 913, 933, 1256, 1588
Hpy8I GTNNAC 2 cut(s) 821, 859
Hpy99I CGWCG 1 cut(s) 1070
HpyAV CCTTC 2 cut(s) 908, 1096
HpyCH4III ACNGT 7 cut(s) 801, 825, 841, 899, 1160, 1228, 1272
HpyF10VI GCNNNNNNNGC 3 cut(s) 338, 725, 989
HpyF3I CTNAG 8 cut(s) 399, 449, 674, 695, 1007, 1282, 1418, 1506
Hsp92II CATG 7 cut(s) 103, 487, 608, 712, 941, 1193, 1339
HspAI GCGC 1 cut(s) 144
KpnI GGTACC 1 cut(s) 1325
Kzo9I GATC 6 cut(s) 111, 436, 453, 1204, 1395, 1583
LmnI GCTCC 4 cut(s) 37, 45, 997, 1215
Lsp1109I GCAGC 6 cut(s) 13, 128, 133, 706, 1180, 1343
LweI GCATC 2 cut(s) 530, 706
MaeI CTAG 3 cut(s) 782, 980, 1627
MaeIII GTNAC 1 cut(s) 775
MalI GATC 6 cut(s) 113, 438, 455, 1206, 1397, 1585
MbiI CCGCTC 1 cut(s) 411
MboI GATC 6 cut(s) 111, 436, 453, 1204, 1395, 1583
MboII GAAGA 9 cut(s) 128, 182, 446, 890, 893, 896, 899, 905, 1273
MfeI CAATTG 2 cut(s) 353, 723
MflI RGATCY 2 cut(s) 436, 1395
MhlI GDGCHC 1 cut(s) 42
MluCI AATT 9 cut(s) 32, 303, 353, 379, 573, 723, 925, 987, 1527
MlyI GAGTC 3 cut(s) 917, 965, 1068
MmeI TCCRAC 5 cut(s) 280, 747, 891, 937, 1407
Mph1103I ATGCAT 1 cut(s) 534
MseI TTAA 6 cut(s) 377, 405, 527, 551, 641, 1551
MspA1I CMGCKG 2 cut(s) 26, 871
MspCI CTTAAG 1 cut(s) 404
MspI CCGG 1 cut(s) 1579
MspR9I CCNGG 3 cut(s) 54, 1579, 1580
MunI CAATTG 2 cut(s) 353, 723
Mva1269I GAATGC 2 cut(s) 696, 1136
MvaI CCWGG 1 cut(s) 54
MwoI GCNNNNNNNGC 3 cut(s) 338, 725, 989
NciI CCSGG 2 cut(s) 1579, 1580
NcoI CCATGG 1 cut(s) 937
NdeII GATC 6 cut(s) 111, 436, 453, 1204, 1395, 1583
NlaIII CATG 7 cut(s) 103, 487, 608, 712, 941, 1193, 1339
NlaIV GGNNCC 3 cut(s) 669, 1211, 1323
NmeAIII GCCGAG 1 cut(s) 316
NsiI ATGCAT 1 cut(s) 534
PaeR7I CTCGAG 2 cut(s) 737, 1056
PaqCI CACCTGC 1 cut(s) 275
PctI GAATGC 2 cut(s) 696, 1136
PfeI GAWTC 2 cut(s) 20, 392
PkrI GCNGC 6 cut(s) 28, 143, 148, 721, 1195, 1333
PleI GAGTC 3 cut(s) 916, 965, 1067
PpsI GAGTC 3 cut(s) 916, 965, 1067
PsiI TTATAA 1 cut(s) 635
Psp124BI GAGCTC 1 cut(s) 42
Psp6I CCWGG 1 cut(s) 52
PspGI CCWGG 1 cut(s) 52
PspN4I GGNNCC 3 cut(s) 669, 1211, 1323
PspPI GGNCC 2 cut(s) 59, 1252
PspXI VCTCGAGB 1 cut(s) 1056
PstI CTGCAG 1 cut(s) 734
PsuI RGATCY 2 cut(s) 436, 1395
PvuII CAGCTG 1 cut(s) 26
RsaI GTAC 3 cut(s) 1107, 1218, 1323
RsaNI GTAC 3 cut(s) 1106, 1217, 1322
SacI GAGCTC 1 cut(s) 42
SaqAI TTAA 6 cut(s) 377, 405, 527, 551, 641, 1551
SatI GCNGC 6 cut(s) 27, 142, 147, 720, 1194, 1332
Sau3AI GATC 6 cut(s) 111, 436, 453, 1204, 1395, 1583
Sau96I GGNCC 2 cut(s) 59, 1252
SbfI CCTGCAGG 1 cut(s) 734
SchI GAGTC 3 cut(s) 917, 965, 1068
ScrFI CCNGG 3 cut(s) 54, 1579, 1580
SdaI CCTGCAGG 1 cut(s) 734
SduI GDGCHC 1 cut(s) 42
SfaNI GCATC 2 cut(s) 530, 706
SfcI CTRYAG 3 cut(s) 285, 730, 866
Sfr274I CTCGAG 2 cut(s) 737, 1056
SinI GGWCC 2 cut(s) 59, 1252
SlaI CTCGAG 2 cut(s) 737, 1056
SmaI CCCGGG 1 cut(s) 1580
SmlI CTYRAG 7 cut(s) 239, 404, 419, 737, 1056, 1173, 1399
SmoI CTYRAG 7 cut(s) 239, 404, 419, 737, 1056, 1173, 1399
Sse8387I CCTGCAGG 1 cut(s) 734
Sse9I AATT 9 cut(s) 32, 303, 353, 379, 573, 723, 925, 987, 1527
SsiI CCGC 4 cut(s) 120, 411, 871, 1085
SspMI CTAG 3 cut(s) 782, 980, 1627
SstI GAGCTC 1 cut(s) 42
StyD4I CCNGG 3 cut(s) 52, 1577, 1578
StyI CCWWGG 2 cut(s) 15, 937
TaaI ACNGT 7 cut(s) 801, 825, 841, 899, 1160, 1228, 1272
TaqI TCGA 8 cut(s) 456, 502, 738, 847, 1057, 1065, 1245, 1565
TasI AATT 9 cut(s) 32, 303, 353, 379, 573, 723, 925, 987, 1527
TatI WGTACW 1 cut(s) 1216
TfiI GAWTC 2 cut(s) 20, 392
Tru1I TTAA 6 cut(s) 377, 405, 527, 551, 641, 1551
Tru9I TTAA 6 cut(s) 377, 405, 527, 551, 641, 1551
TscAI CASTG 6 cut(s) 255, 678, 828, 1233, 1275, 1321
TseI GCWGC 6 cut(s) 26, 141, 146, 719, 1193, 1331
TspDTI ATGAA 8 cut(s) 98, 116, 198, 833, 906, 933, 1350, 1463
TspMI CCCGGG 1 cut(s) 1578
TspRI CASTG 6 cut(s) 255, 678, 828, 1233, 1275, 1321
Vha464I CTTAAG 1 cut(s) 404
VpaK11BI GGWCC 2 cut(s) 59, 1252
XagI CCTNNNNNAGG 1 cut(s) 218
XapI RAATTY 3 cut(s) 303, 573, 1527
XhoI CTCGAG 2 cut(s) 737, 1056
XmaI CCCGGG 1 cut(s) 1578
XspI CTAG 3 cut(s) 782, 980, 1627
Zsp2I ATGCAT 1 cut(s) 534
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.