Rh1DG308300

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0002522
Physical Location & Seq
Reverse (-)
53538017 .. 53542421
4405 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG308300.1

Sequence Viewer

Length: 1557 bp
ATGAATGAAGACTATGGAGAAGGAAATCTCATCAGGCAAGCAGAGGATTTTCTAAATGATATACTTGGCAATTGGACTGACTCAATTAAAGTACTTGAAACCTGCGAAGAAGTCTTGCCTCATGCAGAAGAGCTTCATATTGTTTCAAGATGCATCAATTCATTGGCAATGACAGCTAGTGCTGATCCGAGTTTATTCAGTTGGCCTCTGTCGGGTAAAGGTGCAGTGAAGAGCCCAGAAGGCGTGGCATTCTGGAATGGAATAAGCACGACTGCCAAACCACATCCAGTTAATGAAGATTGGTGGTTTGAGGAAGTCTCCTTCCTGAAATTGCCTTTTTATAAAAGGCTGATTCGGGCTGTTGAATCAGGTGGTATGAATCTAGAGAAGGTTGCTGGTTCAATTATGCACTATGCAAAGAGGCATCTTTCCTTGTTGGGCAGGCAATCTAGTTTCCTAAATGGAAACCGTGCTGCCCCAGCATCAACTGTTTCTGCCCCATCTGATGTAGATCAAAGGAATCTTCTTGAGGAGATAGTGGAATTACTACCTGATCAGAAGGGCGTTACACCAACCAACTTCCTGCTTAGGCTTCTGCGGACATCTATGATTTTGCATGCTAGCCCATCATGTCGAGAGAATTTGGAAAAGCGAGTTGGGGCCCAGTTGGAACAAGCAGCTCTTGAAGATCTCTTGATACCAAACATGGGTTACACAGTCGAGACCCTCTATGATATTGATTGTGTTCAGCGGATTCTTGATCACTTCATGCTAATGGATCGCGATTCAATTGATTATTCTTCTAACTGTATAGTTGATGAAGGCCAGTTGAGTGATGGGTCTCATGCACTGACTCGAATGACCATGGTGGCTCATCTTGTGGATGGCTATCTTGCTGAGGTGGCACCTGATGTTAACTTGAAGTTACAGAAGTTTCAGTCACTAGCTGCTCTTATCCCTGAATATGCAAGACCATTAGACGATGGACTTTACCGTGCTATTGACATATACCTCAAGGCCCATCCCTGGCTAACAGACTCTGAGAAGGAGCAAATATGCAGGCTCATGAACTGCCAGAAGCTCTCATTGGAAGCGAGCACACATGCAGCCCAGAATGAGAGGTTACCACTCCGCGTCATTGTCCAAGTTCTATTCTTTGAACAGCTTCGGCTACGGACTTCAGTTGCCGGTTGGTTCTTTGTATCTGACAACCTTGAGAACTCACAGAATCTGAGTGGGAATCTCGCGCTTGTTAGAAATGAAGCACCTGGTCAAGCTGGCACCAGACGACTGGATCGTGTTGTAGCAGTCGATGACATGAAGGAGCGGGTTTCTGAGCTTGAGAAGGAATGCTTGAGCATGAAACAAGAGATTGAGAAGCTGGTGAAGACAAAAGGGAGTTGGAATTCCTTGTTGAAAAAGTTTGGTTTGAGGCTCAAGTCAAAGCCTGATGCTAAGAAACCATCCAAGCCTAGCTGCAATGGCTCCGAAGAATTACCAACATCAATAGGGCCACTTATGGATGGAAAAGAAATTAATAAAGAATTAAGAGATTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0016020
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
BTB NPH3

Protein Analysis

518

Amino Acids

58.06

Weight (kDa)

5.42

Isoelectric Point (pI)

38.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 100 - 366 1e-97 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) 342
Acc36I ACCTGC 1 cut(s) 110
AccB1I GGYRCC 2 cut(s) 904, 1280
AccBSI CCGCTC 1 cut(s) 1327
AccII CGCG 3 cut(s) 783, 1134, 1247
AciI CCGC 4 cut(s) 598, 751, 1132, 1327
AclWI GGATC 3 cut(s) 179, 786, 1302
AcsI RAATTY 2 cut(s) 640, 1405
AcuI CTGAAG 1 cut(s) 1164
AfaI GTAC 1 cut(s) 93
AfiI CCNNNNNNNGG 3 cut(s) 212, 707, 1026
AgsI TTSAA 9 cut(s) 98, 147, 365, 402, 686, 789, 922, 1160, 1417
AjnI CCWGG 2 cut(s) 1025, 1267
AjuI GAANNNNNNNTTGG 4 cut(s) 639, 671, 1070, 1102
Alw21I GWGCWC 1 cut(s) 1100
Alw26I GTCTC 3 cut(s) 322, 716, 846
AlwI GGATC 3 cut(s) 179, 786, 1302
AlwNI CAGNNNCTG 2 cut(s) 1040, 1231
AoxI GGCC 5 cut(s) 203, 660, 823, 1017, 1511
ApaI GGGCCC 1 cut(s) 664
ApeKI GCWGC 5 cut(s) 473, 677, 947, 1106, 1476
ApoI RAATTY 2 cut(s) 640, 1405
AseI ATTAAT 1 cut(s) 1536
Asp700I GAANNNNTTC 2 cut(s) 132, 1164
AspLEI GCGC 1 cut(s) 1249
AspS9I GGNCC 4 cut(s) 660, 661, 1018, 1511
AsuHPI GGTGA 1 cut(s) 1396
AsuNHI GCTAGC 1 cut(s) 620
BaeGI GKGCMC 1 cut(s) 664
BanI GGYRCC 2 cut(s) 904, 1280
BanII GRGCYC 2 cut(s) 236, 664
BbsI GAAGAC 2 cut(s) 15, 1394
Bbv12I GWGCWC 1 cut(s) 1100
BbvCI CCTCAGC 1 cut(s) 897
BbvI GCAGC 5 cut(s) 460, 689, 934, 1118, 1463
BccI CCATC 8 cut(s) 508, 634, 830, 878, 977, 1029, 1471, 1517
BciT130I CCWGG 2 cut(s) 1027, 1269
BclI TGATCA 2 cut(s) 553, 760
BcoDI GTCTC 3 cut(s) 322, 716, 846
BfaI CTAG 6 cut(s) 177, 383, 450, 621, 944, 1473
BfuAI ACCTGC 1 cut(s) 110
BglI GCCNNNNNGGC 1 cut(s) 240
BglII AGATCT 1 cut(s) 688
BisI GCNGC 5 cut(s) 474, 678, 948, 1107, 1477
BlsI GCNGC 5 cut(s) 475, 679, 949, 1108, 1478
BmcAI AGTACT 1 cut(s) 93
Bme1390I CCNGG 2 cut(s) 1027, 1269
BmgT120I GGNCC 4 cut(s) 660, 661, 1018, 1511
BmiI GGNNCC 5 cut(s) 661, 662, 906, 1282, 1486
BmrFI CCNGG 2 cut(s) 1027, 1269
BmrI ACTGGG 1 cut(s) 658
BmsI GCATC 5 cut(s) 140, 162, 433, 491, 1441
BmtI GCTAGC 1 cut(s) 624
BmuI ACTGGG 1 cut(s) 658
BpiI GAAGAC 2 cut(s) 15, 1394
BplI GAGNNNNNCTC 2 cut(s) 302, 334
Bpu10I CCTNAGC 2 cut(s) 587, 897
BpuEI CTTGAG 6 cut(s) 548, 998, 1235, 1361, 1375, 1421
BsaBI GATNNNNATC 2 cut(s) 510, 888
BsaI GGTCTC 2 cut(s) 716, 846
BsaJI CCNNGG 2 cut(s) 864, 1025
Bsc4I CCNNNNNNNGG 3 cut(s) 212, 707, 1026
Bse118I RCCGGY 1 cut(s) 1187
Bse1I ACTGG 4 cut(s) 287, 664, 826, 1296
Bse3DI GCAATG 2 cut(s) 174, 1486
Bse8I GATNNNNATC 2 cut(s) 510, 888
BseBI CCWGG 2 cut(s) 1027, 1269
BseDI CCNNGG 2 cut(s) 864, 1025
BseGI GGATG 5 cut(s) 283, 889, 1021, 1463, 1528
BseJI GATNNNNATC 2 cut(s) 510, 888
BseLI CCNNNNNNNGG 3 cut(s) 212, 707, 1026
BseMI GCAATG 2 cut(s) 174, 1486
BseMII CTCAG 4 cut(s) 888, 1032, 1223, 1326
BseNI ACTGG 4 cut(s) 287, 664, 826, 1296
BseRI GAGGAG 1 cut(s) 545
BseSI GKGCMC 1 cut(s) 664
BseXI GCAGC 5 cut(s) 460, 689, 934, 1118, 1463
BseYI CCCAGC 1 cut(s) 478
BsgI GTGCAG 1 cut(s) 243
Bsh1236I CGCG 3 cut(s) 783, 1134, 1247
BshFI GGCC 5 cut(s) 205, 662, 825, 1019, 1513
BshNI GGYRCC 2 cut(s) 904, 1280
BsiHKAI GWGCWC 1 cut(s) 1100
BsiSI CCGG 1 cut(s) 1188
BslI CCNNNNNNNGG 3 cut(s) 212, 707, 1026
BsmAI GTCTC 3 cut(s) 322, 716, 846
BsmI GAATGC 2 cut(s) 248, 1355
BsnI GGCC 5 cut(s) 205, 662, 825, 1019, 1513
Bso31I GGTCTC 2 cut(s) 716, 846
Bsp120I GGGCCC 1 cut(s) 660
Bsp1286I GDGCHC 3 cut(s) 236, 664, 1100
Bsp143I GATC 7 cut(s) 184, 511, 553, 688, 760, 778, 1294
Bsp19I CCATGG 1 cut(s) 864
Bsp68I TCGCGA 1 cut(s) 783
BspACI CCGC 4 cut(s) 598, 751, 1132, 1327
BspANI GGCC 5 cut(s) 205, 662, 825, 1019, 1513
BspCNI CTCAG 4 cut(s) 889, 1033, 1224, 1327
BspFNI CGCG 3 cut(s) 783, 1134, 1247
BspHI TCATGA 1 cut(s) 1065
BspLI GGNNCC 5 cut(s) 661, 662, 906, 1282, 1486
BspMI ACCTGC 1 cut(s) 110
BspOI GCTAGC 1 cut(s) 624
BspPI GGATC 3 cut(s) 179, 786, 1302
BspQI GCTCTTC 2 cut(s) 123, 224
BspT107I GGYRCC 2 cut(s) 904, 1280
BspTNI GGTCTC 2 cut(s) 716, 846
BsrBI CCGCTC 1 cut(s) 1327
BsrDI GCAATG 2 cut(s) 174, 1486
BsrFI RCCGGY 1 cut(s) 1187
BsrI ACTGG 4 cut(s) 287, 664, 826, 1296
BssAI RCCGGY 1 cut(s) 1187
BssECI CCNNGG 2 cut(s) 864, 1025
BssMI GATC 7 cut(s) 184, 511, 553, 688, 760, 778, 1294
BssT1I CCWWGG 1 cut(s) 864
Bst2UI CCWGG 2 cut(s) 1027, 1269
Bst4CI ACNGT 5 cut(s) 470, 490, 718, 809, 995
Bst6I CTCTTC 2 cut(s) 123, 224
BstC8I GCNNGC 7 cut(s) 39, 443, 618, 622, 1061, 1096, 1279
BstDEI CTNAG 6 cut(s) 587, 897, 1041, 1232, 1335, 1455
BstDSI CCRYGG 1 cut(s) 864
BstEII GGTNACC 1 cut(s) 1122
BstF5I GGATG 5 cut(s) 283, 889, 1021, 1463, 1528
BstFNI CGCG 3 cut(s) 783, 1134, 1247
BstHHI GCGC 1 cut(s) 1249
BstKTI GATC 7 cut(s) 187, 514, 556, 691, 763, 781, 1297
BstMAI GTCTC 3 cut(s) 322, 716, 846
BstMBI GATC 7 cut(s) 184, 511, 553, 688, 760, 778, 1294
BstMWI GCNNNNNNNGC 5 cut(s) 173, 240, 479, 902, 1482
BstNI CCWGG 2 cut(s) 1027, 1269
BstNSI RCATGY 2 cut(s) 620, 1106
BstPI GGTNACC 1 cut(s) 1122
BstSCI CCNGG 2 cut(s) 1025, 1267
BstSLI GKGCMC 1 cut(s) 664
BstUI CGCG 3 cut(s) 783, 1134, 1247
BstV1I GCAGC 5 cut(s) 460, 689, 934, 1118, 1463
BstV2I GAAGAC 2 cut(s) 15, 1394
BstX2I RGATCY 1 cut(s) 688
BstXI CCANNNNNNTGG 1 cut(s) 1291
BstYI RGATCY 1 cut(s) 688
BsuRI GGCC 5 cut(s) 205, 662, 825, 1019, 1513
BtgI CCRYGG 1 cut(s) 864
BtsCI GGATG 5 cut(s) 283, 889, 1021, 1463, 1528
BtsI GCAGTG 1 cut(s) 231
BtsIMutI CAGTG 2 cut(s) 231, 848
BtuMI TCGCGA 1 cut(s) 783
BveI ACCTGC 1 cut(s) 110
Cac8I GCNNGC 7 cut(s) 39, 443, 618, 622, 1061, 1096, 1279
CaiI CAGNNNCTG 2 cut(s) 1040, 1231
CciI TCATGA 1 cut(s) 1065
CfoI GCGC 1 cut(s) 1249
Cfr10I RCCGGY 1 cut(s) 1187
Cfr13I GGNCC 4 cut(s) 660, 661, 1018, 1511
CseI GACGC 1 cut(s) 1123
CsiI ACCWGGT 1 cut(s) 1267
Csp6I GTAC 1 cut(s) 92
CviQI GTAC 1 cut(s) 92
DdeI CTNAG 6 cut(s) 587, 897, 1041, 1232, 1335, 1455
DpnI GATC 7 cut(s) 186, 513, 555, 690, 762, 780, 1296
DpnII GATC 7 cut(s) 184, 511, 553, 688, 760, 778, 1294
Eam1104I CTCTTC 2 cut(s) 123, 224
EarI CTCTTC 2 cut(s) 123, 224
Eco130I CCWWGG 1 cut(s) 864
Eco24I GRGCYC 2 cut(s) 236, 664
Eco31I GGTCTC 2 cut(s) 716, 846
Eco57I CTGAAG 1 cut(s) 1164
Eco91I GGTNACC 1 cut(s) 1122
EcoO109I RGGNCCY 1 cut(s) 660
EcoO65I GGTNACC 1 cut(s) 1122
EcoRI GAATTC 1 cut(s) 1405
EcoRII CCWGG 2 cut(s) 1025, 1267
EcoT14I CCWWGG 1 cut(s) 864
EcoT22I ATGCAT 1 cut(s) 155
EcoT38I GRGCYC 2 cut(s) 236, 664
ErhI CCWWGG 1 cut(s) 864
FalI AAGNNNNNCTT 4 cut(s) 666, 698, 1337, 1369
FauI CCCGC 1 cut(s) 1320
FbaI TGATCA 2 cut(s) 553, 760
Fnu4HI GCNGC 5 cut(s) 474, 678, 948, 1107, 1477
FokI GGATG 5 cut(s) 270, 896, 1008, 1450, 1535
FriOI GRGCYC 2 cut(s) 236, 664
Fsp4HI GCNGC 5 cut(s) 474, 678, 948, 1107, 1477
FspBI CTAG 6 cut(s) 177, 383, 450, 621, 944, 1473
GlaI GCGC 1 cut(s) 1248
GluI GCNGC 5 cut(s) 474, 678, 948, 1107, 1477
GsaI CCCAGC 1 cut(s) 482
HaeIII GGCC 5 cut(s) 205, 662, 825, 1019, 1513
HapII CCGG 1 cut(s) 1188
HgaI GACGC 1 cut(s) 1123
HhaI GCGC 1 cut(s) 1249
Hin6I GCGC 1 cut(s) 1247
HinP1I GCGC 1 cut(s) 1247
HincII GTYRAC 1 cut(s) 916
HindII GTYRAC 1 cut(s) 916
HpaI GTTAAC 1 cut(s) 916
HpaII CCGG 1 cut(s) 1188
HphI GGTGA 1 cut(s) 1396
Hpy166II GTNNAC 1 cut(s) 916
Hpy188I TCNGA 8 cut(s) 189, 505, 558, 1042, 1207, 1233, 1336, 1489
Hpy8I GTNNAC 1 cut(s) 916
HpyAV CCTTC 9 cut(s) 14, 233, 331, 382, 553, 815, 1039, 1315, 1339
HpyCH4III ACNGT 5 cut(s) 470, 490, 718, 809, 995
HpyF10VI GCNNNNNNNGC 5 cut(s) 173, 240, 479, 902, 1482
HpyF3I CTNAG 6 cut(s) 587, 897, 1041, 1232, 1335, 1455
HspAI GCGC 1 cut(s) 1247
Ksp22I TGATCA 2 cut(s) 553, 760
KspAI GTTAAC 1 cut(s) 916
Kzo9I GATC 7 cut(s) 184, 511, 553, 688, 760, 778, 1294
LguI GCTCTTC 2 cut(s) 123, 224
LmnI GCTCC 3 cut(s) 1048, 1324, 1490
Lsp1109I GCAGC 5 cut(s) 460, 689, 934, 1118, 1463
LweI GCATC 5 cut(s) 140, 162, 433, 491, 1441
MabI ACCWGGT 1 cut(s) 1267
MaeI CTAG 6 cut(s) 177, 383, 450, 621, 944, 1473
MaeIII GTNAC 5 cut(s) 565, 710, 924, 939, 1122
MalI GATC 7 cut(s) 186, 513, 555, 690, 762, 780, 1296
MbiI CCGCTC 1 cut(s) 1327
MboI GATC 7 cut(s) 184, 511, 553, 688, 760, 778, 1294
MfeI CAATTG 2 cut(s) 70, 789
MflI RGATCY 1 cut(s) 688
MhlI GDGCHC 3 cut(s) 236, 664, 1100
MlyI GAGTC 3 cut(s) 74, 847, 1031
MmeI TCCRAC 2 cut(s) 648, 1382
Mph1103I ATGCAT 1 cut(s) 155
MroXI GAANNNNTTC 2 cut(s) 132, 1164
MseI TTAA 5 cut(s) 87, 291, 915, 1536, 1547
MslI CAYNNNNRTG 1 cut(s) 773
MspA1I CMGCKG 1 cut(s) 751
MspI CCGG 1 cut(s) 1188
MspR9I CCNGG 2 cut(s) 1027, 1269
MunI CAATTG 2 cut(s) 70, 789
Mva1269I GAATGC 2 cut(s) 248, 1355
MvaI CCWGG 2 cut(s) 1027, 1269
MvnI CGCG 3 cut(s) 783, 1134, 1247
MwoI GCNNNNNNNGC 5 cut(s) 173, 240, 479, 902, 1482
NcoI CCATGG 1 cut(s) 864
NdeII GATC 7 cut(s) 184, 511, 553, 688, 760, 778, 1294
NheI GCTAGC 1 cut(s) 620
NlaIV GGNNCC 5 cut(s) 661, 662, 906, 1282, 1486
NmuCI GTSAC 1 cut(s) 939
NruI TCGCGA 1 cut(s) 783
NsiI ATGCAT 1 cut(s) 155
NspI RCATGY 2 cut(s) 620, 1106
PaeI GCATGC 1 cut(s) 620
PagI TCATGA 1 cut(s) 1065
PciSI GCTCTTC 2 cut(s) 123, 224
PcsI WCGNNNNNNNCGW 1 cut(s) 1294
PctI GAATGC 2 cut(s) 248, 1355
PdmI GAANNNNTTC 2 cut(s) 132, 1164
PfeI GAWTC 8 cut(s) 352, 365, 379, 520, 754, 785, 1228, 1240
PkrI GCNGC 5 cut(s) 475, 679, 949, 1108, 1478
PleI GAGTC 3 cut(s) 74, 847, 1031
PpsI GAGTC 3 cut(s) 74, 847, 1031
PshBI ATTAAT 1 cut(s) 1536
PsiI TTATAA 1 cut(s) 342
Psp6I CCWGG 2 cut(s) 1025, 1267
PspEI GGTNACC 1 cut(s) 1122
PspFI CCCAGC 1 cut(s) 478
PspGI CCWGG 2 cut(s) 1025, 1267
PspN4I GGNNCC 5 cut(s) 661, 662, 906, 1282, 1486
PspOMI GGGCCC 1 cut(s) 660
PspPI GGNCC 4 cut(s) 660, 661, 1018, 1511
PstNI CAGNNNCTG 2 cut(s) 1040, 1231
PsuI RGATCY 1 cut(s) 688
RruI TCGCGA 1 cut(s) 783
RsaI GTAC 1 cut(s) 93
RsaNI GTAC 1 cut(s) 92
RseI CAYNNNNRTG 1 cut(s) 773
SapI GCTCTTC 2 cut(s) 123, 224
SaqAI TTAA 5 cut(s) 87, 291, 915, 1536, 1547
SatI GCNGC 5 cut(s) 474, 678, 948, 1107, 1477
Sau3AI GATC 7 cut(s) 184, 511, 553, 688, 760, 778, 1294
Sau96I GGNCC 4 cut(s) 660, 661, 1018, 1511
ScaI AGTACT 1 cut(s) 93
SchI GAGTC 3 cut(s) 74, 847, 1031
ScrFI CCNGG 2 cut(s) 1027, 1269
SduI GDGCHC 3 cut(s) 236, 664, 1100
SexAI ACCWGGT 1 cut(s) 1267
SfaNI GCATC 5 cut(s) 140, 162, 433, 491, 1441
SmiMI CAYNNNNRTG 1 cut(s) 773
SmlI CTYRAG 6 cut(s) 527, 1013, 1214, 1340, 1354, 1436
SmoI CTYRAG 6 cut(s) 527, 1013, 1214, 1340, 1354, 1436
SphI GCATGC 1 cut(s) 620
SsiI CCGC 4 cut(s) 598, 751, 1132, 1327
SspMI CTAG 6 cut(s) 177, 383, 450, 621, 944, 1473
StyD4I CCNGG 2 cut(s) 1025, 1267
StyI CCWWGG 1 cut(s) 864
TaaI ACNGT 5 cut(s) 470, 490, 718, 809, 995
TaqI TCGA 4 cut(s) 634, 720, 856, 1311
TatI WGTACW 1 cut(s) 91
TfiI GAWTC 8 cut(s) 352, 365, 379, 520, 754, 785, 1228, 1240
Tru1I TTAA 5 cut(s) 87, 291, 915, 1536, 1547
Tru9I TTAA 5 cut(s) 87, 291, 915, 1536, 1547
TscAI CASTG 2 cut(s) 231, 855
TseFI GTSAC 1 cut(s) 939
TseI GCWGC 5 cut(s) 473, 677, 947, 1106, 1476
Tsp45I GTSAC 1 cut(s) 939
TspGWI ACGGA 1 cut(s) 1189
TspRI CASTG 2 cut(s) 231, 855
VspI ATTAAT 1 cut(s) 1536
XapI RAATTY 2 cut(s) 640, 1405
XbaI TCTAGA 1 cut(s) 382
XceI RCATGY 2 cut(s) 620, 1106
XcmI CCANNNNNNNNNTGG 1 cut(s) 833
XmnI GAANNNNTTC 2 cut(s) 132, 1164
XspI CTAG 6 cut(s) 177, 383, 450, 621, 944, 1473
ZrmI AGTACT 1 cut(s) 93
Zsp2I ATGCAT 1 cut(s) 155
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.