Rw4G036950

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr4
OG0007978
Physical Location & Seq
Reverse (-)
63723005 .. 63725718
2714 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G036950.1

Sequence Viewer

Length: 1617 bp
ATGTCACACCTCTGTGATTTTCAAATCCACATTAATGGTCTGCAAACATTCTTTGTGAATGAGGAGGTTTTATCAACATATGCAGGGAGGTTGAAGAAGATTATCAAGCAAGAAAGGAGAAGATCCCAGATCAAGTACTCGGGGATTGAAATCGAAGACTTCCCTGGAGGCCCTGATGGGTTTGAGTTGATCTCAAGGTTCTGTTACAGCAATGGAAGAATCACAACAACAGTTTCAAATGTGTCCCTCCTCCATTGCTGTGCAGTCTTTCTTGGTATGACTGAGAAAGTCTCAACCAACAATCTCTTGAAACAAACAGAAACCTTTCTTGAGGGACTCTTTGACTGGTCATGGAAAGAAATACTAGTCTGCCTGAAAAGCTGTGAGTCATTCTTGAACTATGCAGATTCTTTTTTAGCAAAGATTGCTCAGAATTCAGACATAGGCAGCCTCATTGCTACTTCGTCTTCGTCGTCTTCATCTCCAGAAACTACATCTGCGTTCAGAGTGTCTTCCTCATTTAAGAACACCCCTGAGTCACTCAAGCCAAGTTCATCAAGTAGAGCTTGGTGGTTTGATGATGTGTCCATTTTACCCCCAAAGATCATTGAGAAACTCATCCAAAGCTTAGGGGCGTATGGTTCTGAAAACAACAGCTTGATCCTCACAAGGTTTCTCCTCCATTACCTGAAAATTTCAGCTCAAAGAAAGAAAGGCAATACTAGTCACAGATCATCCGAGTTTAGTGCTCTTGCAGACACAGCTATTCATGGGATTATTTTGGTGGGCAAAAAAGTCTTTTCCTGCAGAGCCTTGTTTTGGGTTTTGAGGATTGTGTCTGGTTTTGGAATCAGTAGAGAGTACAGACTTGGTTTGGAGAGATTGATTGGTGGGATGCTCGATGAAGCAACATTGGATGACTTGTTAGTATCTGGGCATGATAGGGGTGTTTATGATGTCAATCTTGTTATAAGGTTGATAAGAGTTTTTGCTAAAGGTGAGGGGGTTTCTGTGCAAAAGTTGAGGAAAGCTGGTAGGTTGATCGATAAGTACCTAGGTGAAATATCACCTGATCAGAATCTCAAGATTTCTAAATTTCTTGGAGTTGCAGAGAGTTTACCAGATTCTGCTAGGGAGTGCTTTGATGGGGCCTACAGAGCCATTGATATTTATCTTGAGTCTCACCCGACTCTTTCATTTGAGGAGAGGTCAAGATTATGCAGATGCCTAAATTATGAAAAGCTGAGCCTCGAAGCGTGTAAAGAGCTTGCAAAGAATCCGAAAATCCCACCAAGAGTTGCAATTCAAGCACTCATTTCTCAGCAATCCAAAGTAACACAACAGAAGACTTTTGATCATTTTCATTCCCATTCACATTCCAATTCCCATTCCCAAATTGTTCTGTACAACAAGGGTGGTGTCGGTGTTGATAAAGATAGTTTTCCGGAAGAAAGCAGCTTAGATACGAAGCTAAATTTGCAGAGGATGCAATGGAGGGTGGTGGAGTTGGAGAAACTGTGCAGGGAAATGAAGGGTCAGATGTCAAGGATGATTAAGAATAATGTCTTGAGTAGTAGTACCCCAACTCATGGTAGAGCTCTTCCTAGACTTTGTTGA
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

538

Amino Acids

60.42

Weight (kDa)

9.0

Isoelectric Point (pI)

43.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 190 - 420 7.7e-60 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) 971
AccB7I CCANNNNNTGG 1 cut(s) 1589
AccIII TCCGGA 1 cut(s) 1444
AclWI GGATC 2 cut(s) 117, 655
AcsI RAATTY 4 cut(s) 433, 693, 1094, 1474
AfaI GTAC 5 cut(s) 137, 863, 1052, 1406, 1579
AfiI CCNNNNNNNGG 2 cut(s) 819, 1589
AgsI TTSAA 7 cut(s) 23, 94, 149, 237, 310, 397, 1307
AhlI ACTAGT 2 cut(s) 364, 722
AjnI CCWGG 1 cut(s) 163
AleI CACNNNNGTG 1 cut(s) 12
Alw21I GWGCWC 2 cut(s) 751, 1600
Alw26I GTCTC 2 cut(s) 295, 1185
AlwI GGATC 2 cut(s) 117, 655
AlwNI CAGNNNCTG 1 cut(s) 1127
Ama87I CYCGRG 1 cut(s) 139
Aor13HI TCCGGA 1 cut(s) 1444
AoxI GGCC 2 cut(s) 169, 1149
ApeKI GCWGC 2 cut(s) 447, 1455
ApoI RAATTY 4 cut(s) 433, 693, 1094, 1474
AseI ATTAAT 1 cut(s) 33
Asp700I GAANNNNTTC 1 cut(s) 324
AspA2I CCTAGG 1 cut(s) 1054
AspS9I GGNCC 2 cut(s) 170, 1149
AsuHPI GGTGA 4 cut(s) 1010, 1059, 1070, 1175
AvaI CYCGRG 1 cut(s) 139
AvrII CCTAGG 1 cut(s) 1054
BanII GRGCYC 1 cut(s) 1600
BbsI GAAGAC 5 cut(s) 162, 459, 468, 504, 1352
Bbv12I GWGCWC 2 cut(s) 751, 1600
BbvI GCAGC 2 cut(s) 459, 1467
BccI CCATC 2 cut(s) 170, 1139
BcgI CGANNNNNNTGC 2 cut(s) 728, 762
BciT130I CCWGG 1 cut(s) 165
BclI TGATCA 2 cut(s) 1072, 1354
BcoDI GTCTC 2 cut(s) 295, 1185
BcuI ACTAGT 2 cut(s) 364, 722
BfaI CTAG 5 cut(s) 365, 723, 1055, 1131, 1605
BfmI CTRYAG 2 cut(s) 805, 1153
BisI GCNGC 2 cut(s) 448, 1456
BlnI CCTAGG 1 cut(s) 1054
BlpI GCTNAGC 1 cut(s) 1244
BlsI GCNGC 2 cut(s) 449, 1457
BmcAI AGTACT 1 cut(s) 137
Bme1390I CCNGG 1 cut(s) 165
BmeT110I CYCGRG 1 cut(s) 139
BmgT120I GGNCC 2 cut(s) 170, 1149
BmiI GGNNCC 1 cut(s) 1150
BmrFI CCNGG 1 cut(s) 165
BmsI GCATC 3 cut(s) 885, 1214, 1476
BpiI GAAGAC 5 cut(s) 162, 459, 468, 504, 1352
BplI GAGNNNNNCTC 4 cut(s) 176, 208, 275, 307
BpmI CTGGAG 2 cut(s) 186, 468
Bpu10I CCTNAGC 1 cut(s) 628
Bpu1102I GCTNAGC 1 cut(s) 1244
BpuEI CTTGAG 6 cut(s) 178, 350, 527, 1067, 1196, 1588
Bsa29I ATCGAT 1 cut(s) 1044
BsaBI GATNNNNATC 4 cut(s) 149, 960, 1077, 1170
BsaJI CCNNGG 2 cut(s) 163, 1054
BsaWI WCCGGW 1 cut(s) 1444
BsaXI ACNNNNNCTCC 2 cut(s) 1502, 1532
Bsc4I CCNNNNNNNGG 2 cut(s) 819, 1589
Bse1I ACTGG 1 cut(s) 350
Bse3DI GCAATG 4 cut(s) 217, 253, 453, 1496
Bse8I GATNNNNATC 4 cut(s) 149, 960, 1077, 1170
BseAI TCCGGA 1 cut(s) 1444
BseBI CCWGG 1 cut(s) 165
BseCI ATCGAT 1 cut(s) 1044
BseDI CCNNGG 2 cut(s) 163, 1054
BseGI GGATG 6 cut(s) 618, 734, 900, 922, 1491, 1554
BseJI GATNNNNATC 4 cut(s) 149, 960, 1077, 1170
BseLI CCNNNNNNNGG 2 cut(s) 819, 1589
BseMI GCAATG 4 cut(s) 217, 253, 453, 1496
BseMII CTCAG 5 cut(s) 273, 443, 525, 1235, 1334
BseNI ACTGG 1 cut(s) 350
BseRI GAGGAG 4 cut(s) 77, 239, 668, 1217
BseXI GCAGC 2 cut(s) 459, 1467
BsgI GTGCAG 2 cut(s) 282, 1540
BshFI GGCC 2 cut(s) 171, 1151
BshVI ATCGAT 1 cut(s) 1044
BsiHKAI GWGCWC 2 cut(s) 751, 1600
BsiHKCI CYCGRG 1 cut(s) 139
BsiSI CCGG 1 cut(s) 1445
BslFI GGGAC 2 cut(s) 229, 348
BslI CCNNNNNNNGG 2 cut(s) 819, 1589
BsmAI GTCTC 2 cut(s) 295, 1185
BsmFI GGGAC 2 cut(s) 229, 348
BsnI GGCC 2 cut(s) 171, 1151
BsoBI CYCGRG 1 cut(s) 139
Bsp1286I GDGCHC 2 cut(s) 751, 1600
Bsp13I TCCGGA 1 cut(s) 1444
Bsp1407I TGTACA 1 cut(s) 1404
Bsp143I GATC 9 cut(s) 122, 129, 189, 603, 660, 731, 1041, 1072, 1354
Bsp1720I GCTNAGC 1 cut(s) 1244
BspANI GGCC 2 cut(s) 171, 1151
BspCNI CTCAG 5 cut(s) 274, 442, 526, 1236, 1333
BspDI ATCGAT 1 cut(s) 1044
BspEI TCCGGA 1 cut(s) 1444
BspLI GGNNCC 1 cut(s) 1150
BspMAI CTGCAG 1 cut(s) 809
BspPI GGATC 2 cut(s) 117, 655
BspQI GCTCTTC 1 cut(s) 1605
BsrDI GCAATG 4 cut(s) 217, 253, 453, 1496
BsrGI TGTACA 1 cut(s) 1404
BsrI ACTGG 1 cut(s) 350
BssECI CCNNGG 2 cut(s) 163, 1054
BssMI GATC 9 cut(s) 122, 129, 189, 603, 660, 731, 1041, 1072, 1354
BssT1I CCWWGG 1 cut(s) 1054
Bst2UI CCWGG 1 cut(s) 165
Bst4CI ACNGT 2 cut(s) 232, 1518
Bst6I CTCTTC 1 cut(s) 1605
BstAPI GCANNNNNTGC 2 cut(s) 425, 1486
BstAUI TGTACA 1 cut(s) 1404
BstC8I GCNNGC 1 cut(s) 1269
BstDEI CTNAG 7 cut(s) 282, 429, 534, 628, 1244, 1320, 1459
BstF5I GGATG 6 cut(s) 618, 734, 900, 922, 1491, 1554
BstKTI GATC 9 cut(s) 125, 132, 192, 606, 663, 734, 1044, 1075, 1357
BstMAI GTCTC 2 cut(s) 295, 1185
BstMBI GATC 9 cut(s) 122, 129, 189, 603, 660, 731, 1041, 1072, 1354
BstMWI GCNNNNNNNGC 7 cut(s) 378, 425, 761, 1157, 1307, 1477, 1486
BstNI CCWGG 1 cut(s) 165
BstSCI CCNGG 1 cut(s) 163
BstSFI CTRYAG 2 cut(s) 805, 1153
BstV1I GCAGC 2 cut(s) 459, 1467
BstV2I GAAGAC 5 cut(s) 162, 459, 468, 504, 1352
BstX2I RGATCY 1 cut(s) 122
BstXI CCANNNNNNTGG 1 cut(s) 35
BstYI RGATCY 1 cut(s) 122
Bsu15I ATCGAT 1 cut(s) 1044
BsuRI GGCC 2 cut(s) 171, 1151
BsuTUI ATCGAT 1 cut(s) 1044
BtsCI GGATG 6 cut(s) 618, 734, 900, 922, 1491, 1554
Cac8I GCNNGC 1 cut(s) 1269
CaiI CAGNNNCTG 1 cut(s) 1127
Cfr13I GGNCC 2 cut(s) 170, 1149
ClaI ATCGAT 1 cut(s) 1044
Csp6I GTAC 5 cut(s) 136, 862, 1051, 1405, 1578
CspCI CAANNNNNGTGG 2 cut(s) 1396, 1431
CviAII CATG 4 cut(s) 351, 770, 938, 1589
CviQI GTAC 5 cut(s) 136, 862, 1051, 1405, 1578
DdeI CTNAG 7 cut(s) 282, 429, 534, 628, 1244, 1320, 1459
DpnI GATC 9 cut(s) 124, 131, 191, 605, 662, 733, 1043, 1074, 1356
DpnII GATC 9 cut(s) 122, 129, 189, 603, 660, 731, 1041, 1072, 1354
Eam1104I CTCTTC 1 cut(s) 1605
EarI CTCTTC 1 cut(s) 1605
Ecl136II GAGCTC 1 cut(s) 1598
Eco130I CCWWGG 1 cut(s) 1054
Eco24I GRGCYC 1 cut(s) 1600
Eco53kI GAGCTC 1 cut(s) 1598
Eco88I CYCGRG 1 cut(s) 139
EcoICRI GAGCTC 1 cut(s) 1598
EcoO109I RGGNCCY 2 cut(s) 170, 1149
EcoRI GAATTC 1 cut(s) 433
EcoRII CCWGG 1 cut(s) 163
EcoT14I CCWWGG 1 cut(s) 1054
EcoT38I GRGCYC 1 cut(s) 1600
ErhI CCWWGG 1 cut(s) 1054
FaeI CATG 4 cut(s) 354, 773, 941, 1592
FalI AAGNNNNNCTT 2 cut(s) 550, 582
FaqI GGGAC 2 cut(s) 229, 348
FatI CATG 4 cut(s) 350, 769, 937, 1588
FauNDI CATATG 1 cut(s) 79
FbaI TGATCA 2 cut(s) 1072, 1354
Fnu4HI GCNGC 2 cut(s) 448, 1456
FokI GGATG 6 cut(s) 605, 721, 907, 929, 1498, 1561
FriOI GRGCYC 1 cut(s) 1600
Fsp4HI GCNGC 2 cut(s) 448, 1456
FspBI CTAG 5 cut(s) 365, 723, 1055, 1131, 1605
GluI GCNGC 2 cut(s) 448, 1456
GsuI CTGGAG 2 cut(s) 186, 468
HaeIII GGCC 2 cut(s) 171, 1151
HapII CCGG 1 cut(s) 1445
Hin1II CATG 4 cut(s) 354, 773, 941, 1592
HindIII AAGCTT 1 cut(s) 625
HpaII CCGG 1 cut(s) 1445
HphI GGTGA 4 cut(s) 1010, 1059, 1070, 1175
Hpy166II GTNNAC 1 cut(s) 1118
Hpy188I TCNGA 8 cut(s) 432, 439, 506, 646, 739, 1077, 1281, 1539
Hpy188III TCNNGA 9 cut(s) 307, 329, 394, 485, 1084, 1175, 1212, 1445, 1567
Hpy8I GTNNAC 1 cut(s) 1118
Hpy99I CGWCG 1 cut(s) 475
HpyAV CCTTC 1 cut(s) 1525
HpyCH4III ACNGT 2 cut(s) 232, 1518
HpyF10VI GCNNNNNNNGC 7 cut(s) 378, 425, 761, 1157, 1307, 1477, 1486
HpyF3I CTNAG 7 cut(s) 282, 429, 534, 628, 1244, 1320, 1459
Hsp92II CATG 4 cut(s) 354, 773, 941, 1592
Kpn2I TCCGGA 1 cut(s) 1444
Ksp22I TGATCA 2 cut(s) 1072, 1354
Kzo9I GATC 9 cut(s) 122, 129, 189, 603, 660, 731, 1041, 1072, 1354
LguI GCTCTTC 1 cut(s) 1605
Lsp1109I GCAGC 2 cut(s) 459, 1467
LweI GCATC 3 cut(s) 885, 1214, 1476
MaeI CTAG 5 cut(s) 365, 723, 1055, 1131, 1605
MaeIII GTNAC 5 cut(s) 3, 203, 537, 725, 1333
MalI GATC 9 cut(s) 124, 131, 191, 605, 662, 733, 1043, 1074, 1356
MboI GATC 9 cut(s) 122, 129, 189, 603, 660, 731, 1041, 1072, 1354
MflI RGATCY 1 cut(s) 122
MhlI GDGCHC 2 cut(s) 751, 1600
MluCI AATT 8 cut(s) 433, 693, 1094, 1231, 1302, 1381, 1395, 1474
MlyI GAGTC 5 cut(s) 330, 395, 545, 1183, 1187
MmeI TCCRAC 1 cut(s) 1488
MroI TCCGGA 1 cut(s) 1444
MroXI GAANNNNTTC 1 cut(s) 324
MseI TTAA 3 cut(s) 33, 522, 1554
MslI CAYNNNNRTG 3 cut(s) 12, 33, 258
MspI CCGG 1 cut(s) 1445
MspR9I CCNGG 1 cut(s) 165
MvaI CCWGG 1 cut(s) 165
MwoI GCNNNNNNNGC 7 cut(s) 378, 425, 761, 1157, 1307, 1477, 1486
NdeI CATATG 1 cut(s) 79
NdeII GATC 9 cut(s) 122, 129, 189, 603, 660, 731, 1041, 1072, 1354
NlaIII CATG 4 cut(s) 354, 773, 941, 1592
NlaIV GGNNCC 1 cut(s) 1150
NmuCI GTSAC 3 cut(s) 3, 537, 725
OliI CACNNNNGTG 1 cut(s) 12
PciSI GCTCTTC 1 cut(s) 1605
PcsI WCGNNNNNNNCGW 1 cut(s) 470
PdmI GAANNNNTTC 1 cut(s) 324
PfeI GAWTC 6 cut(s) 219, 407, 849, 1078, 1124, 1276
PflMI CCANNNNNTGG 1 cut(s) 1589
PkrI GCNGC 2 cut(s) 449, 1457
PleI GAGTC 5 cut(s) 330, 394, 544, 1183, 1186
PpsI GAGTC 5 cut(s) 330, 394, 544, 1183, 1186
PshBI ATTAAT 1 cut(s) 33
PsiI TTATAA 1 cut(s) 971
Psp124BI GAGCTC 1 cut(s) 1600
Psp6I CCWGG 1 cut(s) 163
PspGI CCWGG 1 cut(s) 163
PspN4I GGNNCC 1 cut(s) 1150
PspPI GGNCC 2 cut(s) 170, 1149
PstI CTGCAG 1 cut(s) 809
PstNI CAGNNNCTG 1 cut(s) 1127
PsuI RGATCY 1 cut(s) 122
RsaI GTAC 5 cut(s) 137, 863, 1052, 1406, 1579
RsaNI GTAC 5 cut(s) 136, 862, 1051, 1405, 1578
RseI CAYNNNNRTG 3 cut(s) 12, 33, 258
SacI GAGCTC 1 cut(s) 1600
SapI GCTCTTC 1 cut(s) 1605
SaqAI TTAA 3 cut(s) 33, 522, 1554
SatI GCNGC 2 cut(s) 448, 1456
Sau3AI GATC 9 cut(s) 122, 129, 189, 603, 660, 731, 1041, 1072, 1354
Sau96I GGNCC 2 cut(s) 170, 1149
ScaI AGTACT 1 cut(s) 137
SchI GAGTC 5 cut(s) 330, 395, 545, 1183, 1187
ScrFI CCNGG 1 cut(s) 165
SduI GDGCHC 2 cut(s) 751, 1600
SfaNI GCATC 3 cut(s) 885, 1214, 1476
SfcI CTRYAG 2 cut(s) 805, 1153
SmiMI CAYNNNNRTG 3 cut(s) 12, 33, 258
SmlI CTYRAG 6 cut(s) 193, 329, 542, 1082, 1175, 1567
SmoI CTYRAG 6 cut(s) 193, 329, 542, 1082, 1175, 1567
SpeI ACTAGT 2 cut(s) 364, 722
Sse9I AATT 8 cut(s) 433, 693, 1094, 1231, 1302, 1381, 1395, 1474
SspMI CTAG 5 cut(s) 365, 723, 1055, 1131, 1605
SstI GAGCTC 1 cut(s) 1600
StyD4I CCNGG 1 cut(s) 163
StyI CCWWGG 1 cut(s) 1054
TaaI ACNGT 2 cut(s) 232, 1518
TaqI TCGA 4 cut(s) 153, 900, 1044, 1251
TasI AATT 8 cut(s) 433, 693, 1094, 1231, 1302, 1381, 1395, 1474
TatI WGTACW 3 cut(s) 135, 861, 1404
TfiI GAWTC 6 cut(s) 219, 407, 849, 1078, 1124, 1276
Tru1I TTAA 3 cut(s) 33, 522, 1554
Tru9I TTAA 3 cut(s) 33, 522, 1554
TseFI GTSAC 3 cut(s) 3, 537, 725
TseI GCWGC 2 cut(s) 447, 1455
Tsp45I GTSAC 3 cut(s) 3, 537, 725
TspDTI ATGAA 8 cut(s) 468, 543, 758, 918, 1185, 1251, 1352, 1544
Van91I CCANNNNNTGG 1 cut(s) 1589
VspI ATTAAT 1 cut(s) 33
XapI RAATTY 4 cut(s) 433, 693, 1094, 1474
XmaJI CCTAGG 1 cut(s) 1054
XmnI GAANNNNTTC 1 cut(s) 324
XspI CTAG 5 cut(s) 365, 723, 1055, 1131, 1605
ZrmI AGTACT 1 cut(s) 137
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.