Rh2AG200100

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2A
OG0017965
Physical Location & Seq
Reverse (-)
20233823 .. 20234977
1155 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2AG200100.1

Sequence Viewer

Length: 1155 bp
ATGAGGGAGTTGATTCGAAAGCAATACAAGAGCTGGACATCGAAGGAGGAAGAAGCCCTAGCAGCCGGGGTGCATAAGTACGGGAGCGGCAACTGGAAAACCGTCCTCAAATATTCCAAATTTGCTCGTTACCTCGCTCGGAAGTCATGCGGTGACCTGTGGAAGAAATGGAGGACAATGGCATTTAGGGTTTCCAATGAGAAACTGAAGACCATGTCTCCCAAGGTAAAGAAGGTTGTGGCTGCCCGCCTGGAGGCCATTAATGATGGGAAAAGCTCTGCTTTTGCTGAAAGAAAAGAGAGGGGTATAACGGGAAGCGGTTGGACGGTGGAGGAGGAAGAAGCCCTAGCCGCCGGGGTGGAAAAGTATGGGACGAACAAGTGGAAGCACATTCTCGAAGATCCCGAATTCGGCCCTGTCCTCGCTATCCACCCGTGTACATCTCTGGCGAATAAGTGGAGGAACTTGACTGATAGTGTTTCCGAGGAAAAGCTGAGGAGGATGTCTTGTAAGGTAAGGAAAGTTATGGATGCTTCGTTGCGCAGCAAGATTAATGATGATCAGGGGGAGGAGACCGAAAGGGTTTCAAAGATGGAAGAAGACACGGAAGAGAGCACTATGTCAACAAAGGTAAGGAAGGTTGTGGATGATGAGGTTCAGAACTCTGCTAATCCTAATGAGGCAGTGAAGGAGACGGAAAGGGTTCTGGATCATGAGATGGTAGAAGAAGATGAGACCCTAATGATGGATGTTGAAAGTTCTGCTGATCGTGCTGAAGCAGTTAGGGAGAATGAAAGGATTTTGAAAATGAAAGAAGATGCCAAGTCTATGCTACTGTTAGCGAAAGAGATTTGGGGACATTGCTCGACGGAAGAGACCAATCGAGTCTCTGCTCCTGCTTGTCCACAAGCAGTGAAGGAGAGCAAAAGGATTTCGGAGATTGCAGAAGACATTGATCGGTTTTCTGCTGCCCCTCCTCCACAGGCGGAGAAAAAGACCAAAATATTTTCAGAAATGGAAGAAGACACTGATCGAGGCCCTGCTCCTGCTCCTCCAAAAGCAGTTGAAGAGACCAAAAGGATTTCGGAGACGGCAGAAGATACCAAATCCATGCTGCTGTTCATGAATCAGATTTATGAAAGATTCACGCAGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005623 GO:0005886 GO:0016020 GO:0044464 GO:0071944
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
BTB NPH3

Protein Analysis

384

Amino Acids

43.77

Weight (kDa)

5.86

Isoelectric Point (pI)

50.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Myb_DNA-binding PF00249 11 - 57 6.3e-06 Myb-like DNA-binding domain
Myb_DNA-binding PF00249 108 - 133 3.5e-06 Myb-like DNA-binding domain
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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Orthologous Genes (Group: OG0017965)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g17810
rosa_laevigata RLG00000017651
rosa_multiflora Rmu_sc0007406.1_g000007 Rmu_sc0013358.1_g000003
rosa_roxburghii Rroxscaffold_2G00135440
rosa_rugosa Rorug02G0151700
rosa_samantha Rh2AG200100 Rh2BG212800 Rh2CG204800 Rh2DG207700
rosa_wichuraiana Rw2G015930

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 542
AccBSI CCGCTC 1 cut(s) 87
AciI CCGC 6 cut(s) 87, 150, 247, 318, 351, 986
AclWI GGATC 2 cut(s) 395, 717
AcsI RAATTY 2 cut(s) 119, 407
AcuI CTGAAG 2 cut(s) 227, 795
AfaI GTAC 2 cut(s) 80, 439
AfiI CCNNNNNNNGG 3 cut(s) 253, 410, 745
AgsI TTSAA 4 cut(s) 588, 755, 805, 1067
AjnI CCWGG 1 cut(s) 249
AluBI AGCT 3 cut(s) 33, 276, 493
AluI AGCT 3 cut(s) 33, 276, 493
Alw21I GWGCWC 1 cut(s) 617
Alw26I GTCTC 8 cut(s) 222, 566, 686, 728, 869, 892, 1064, 1082
AlwI GGATC 2 cut(s) 395, 717
AoxI GGCC 3 cut(s) 255, 412, 1036
ApeKI GCWGC 5 cut(s) 62, 242, 543, 968, 1114
ApoI RAATTY 2 cut(s) 119, 407
AseI ATTAAT 2 cut(s) 261, 552
Asp700I GAANNNNTTC 1 cut(s) 702
AspLEI GCGC 1 cut(s) 543
AspS9I GGNCC 2 cut(s) 413, 1037
AsuC2I CCSGG 2 cut(s) 67, 355
AsuHPI GGTGA 1 cut(s) 164
AsuII TTCGAA 1 cut(s) 16
BbsI GAAGAC 4 cut(s) 215, 606, 954, 1029
Bbv12I GWGCWC 1 cut(s) 617
BbvCI CCTCAGC 1 cut(s) 494
BbvI GCAGC 5 cut(s) 74, 229, 555, 955, 1101
BccI CCATC 4 cut(s) 260, 586, 712, 739
BceAI ACGGC 1 cut(s) 1107
BciT130I CCWGG 1 cut(s) 251
BclI TGATCA 1 cut(s) 559
BcnI CCSGG 2 cut(s) 67, 355
BcoDI GTCTC 8 cut(s) 222, 566, 686, 728, 869, 892, 1064, 1082
BfaI CTAG 2 cut(s) 59, 347
BisI GCNGC 7 cut(s) 63, 88, 243, 351, 544, 969, 1115
BlsI GCNGC 7 cut(s) 64, 89, 244, 352, 545, 970, 1116
Bme1390I CCNGG 3 cut(s) 67, 251, 355
BmgT120I GGNCC 2 cut(s) 413, 1037
BmrFI CCNGG 3 cut(s) 67, 251, 355
BmsI GCATC 2 cut(s) 520, 808
BpiI GAAGAC 4 cut(s) 215, 606, 954, 1029
BpmI CTGGAG 1 cut(s) 272
Bpu10I CCTNAGC 1 cut(s) 494
Bpu14I TTCGAA 1 cut(s) 16
BpuMI CCSGG 2 cut(s) 67, 355
BsaI GGTCTC 4 cut(s) 566, 728, 869, 1064
BsaJI CCNNGG 4 cut(s) 66, 222, 354, 483
BsaXI ACNNNNNCTCC 2 cut(s) 202, 232
Bsc4I CCNNNNNNNGG 3 cut(s) 253, 410, 745
Bse1I ACTGG 1 cut(s) 98
Bse3DI GCAATG 1 cut(s) 859
BseBI CCWGG 1 cut(s) 251
BseDI CCNNGG 4 cut(s) 66, 222, 354, 483
BseGI GGATG 4 cut(s) 507, 535, 652, 754
BseLI CCNNNNNNNGG 3 cut(s) 253, 410, 745
BseMI GCAATG 1 cut(s) 859
BseMII CTCAG 1 cut(s) 485
BseNI ACTGG 1 cut(s) 98
BseRI GAGGAG 5 cut(s) 347, 511, 584, 966, 1041
BseXI GCAGC 5 cut(s) 74, 229, 555, 955, 1101
BshFI GGCC 3 cut(s) 257, 414, 1038
BsiHKAI GWGCWC 1 cut(s) 617
BsiSI CCGG 2 cut(s) 66, 354
BslFI GGGAC 2 cut(s) 385, 870
BslI CCNNNNNNNGG 3 cut(s) 253, 410, 745
BsmAI GTCTC 8 cut(s) 222, 566, 686, 728, 869, 892, 1064, 1082
BsmBI CGTCTC 2 cut(s) 686, 1082
BsmFI GGGAC 2 cut(s) 385, 870
BsnI GGCC 3 cut(s) 257, 414, 1038
Bso31I GGTCTC 4 cut(s) 566, 728, 869, 1064
Bsp119I TTCGAA 1 cut(s) 16
Bsp1286I GDGCHC 1 cut(s) 617
Bsp1407I TGTACA 1 cut(s) 437
Bsp143I GATC 6 cut(s) 400, 559, 709, 766, 955, 1030
BspACI CCGC 6 cut(s) 87, 150, 247, 318, 351, 986
BspANI GGCC 3 cut(s) 257, 414, 1038
BspCNI CTCAG 1 cut(s) 486
BspHI TCATGA 2 cut(s) 712, 1122
BspPI GGATC 2 cut(s) 395, 717
BspT104I TTCGAA 1 cut(s) 16
BspTNI GGTCTC 4 cut(s) 566, 728, 869, 1064
BsrBI CCGCTC 1 cut(s) 87
BsrDI GCAATG 1 cut(s) 859
BsrGI TGTACA 1 cut(s) 437
BsrI ACTGG 1 cut(s) 98
BssECI CCNNGG 4 cut(s) 66, 222, 354, 483
BssMI GATC 6 cut(s) 400, 559, 709, 766, 955, 1030
BssT1I CCWWGG 1 cut(s) 222
Bst2UI CCWGG 1 cut(s) 251
Bst4CI ACNGT 3 cut(s) 103, 328, 837
Bst6I CTCTTC 3 cut(s) 603, 867, 1062
BstAUI TGTACA 1 cut(s) 437
BstBI TTCGAA 1 cut(s) 16
BstC8I GCNNGC 1 cut(s) 247
BstDEI CTNAG 1 cut(s) 494
BstEII GGTNACC 1 cut(s) 152
BstF5I GGATG 4 cut(s) 507, 535, 652, 754
BstHHI GCGC 1 cut(s) 543
BstKTI GATC 6 cut(s) 403, 562, 712, 769, 958, 1033
BstMAI GTCTC 8 cut(s) 222, 566, 686, 728, 869, 892, 1064, 1082
BstMBI GATC 6 cut(s) 400, 559, 709, 766, 955, 1030
BstMWI GCNNNNNNNGC 3 cut(s) 62, 350, 770
BstNI CCWGG 1 cut(s) 251
BstPI GGTNACC 1 cut(s) 152
BstSCI CCNGG 3 cut(s) 65, 249, 353
BstV1I GCAGC 5 cut(s) 74, 229, 555, 955, 1101
BstV2I GAAGAC 4 cut(s) 215, 606, 954, 1029
BstX2I RGATCY 1 cut(s) 400
BstYI RGATCY 1 cut(s) 400
BsuRI GGCC 3 cut(s) 257, 414, 1038
BtsCI GGATG 4 cut(s) 507, 535, 652, 754
BtsI GCAGTG 2 cut(s) 690, 918
BtsIMutI CAGTG 3 cut(s) 690, 918, 1026
Cac8I GCNNGC 1 cut(s) 247
CciI TCATGA 2 cut(s) 712, 1122
CfoI GCGC 1 cut(s) 543
Cfr13I GGNCC 2 cut(s) 413, 1037
Csp6I GTAC 2 cut(s) 79, 438
CviAII CATG 5 cut(s) 147, 214, 713, 1111, 1123
CviQI GTAC 2 cut(s) 79, 438
DdeI CTNAG 1 cut(s) 494
DpnI GATC 6 cut(s) 402, 561, 711, 768, 957, 1032
DpnII GATC 6 cut(s) 400, 559, 709, 766, 955, 1030
Eam1104I CTCTTC 3 cut(s) 603, 867, 1062
EarI CTCTTC 3 cut(s) 603, 867, 1062
EciI GGCGGA 1 cut(s) 1001
Eco130I CCWWGG 1 cut(s) 222
Eco31I GGTCTC 4 cut(s) 566, 728, 869, 1064
Eco57I CTGAAG 2 cut(s) 227, 795
Eco91I GGTNACC 1 cut(s) 152
EcoO109I RGGNCCY 1 cut(s) 1037
EcoO65I GGTNACC 1 cut(s) 152
EcoRI GAATTC 1 cut(s) 407
EcoRII CCWGG 1 cut(s) 249
EcoT14I CCWWGG 1 cut(s) 222
ErhI CCWWGG 1 cut(s) 222
Esp3I CGTCTC 2 cut(s) 686, 1082
FaeI CATG 5 cut(s) 150, 217, 716, 1114, 1126
FalI AAGNNNNNCTT 2 cut(s) 265, 297
FaqI GGGAC 2 cut(s) 385, 870
FatI CATG 5 cut(s) 146, 213, 712, 1110, 1122
FauI CCCGC 1 cut(s) 254
FbaI TGATCA 1 cut(s) 559
Fnu4HI GCNGC 7 cut(s) 63, 88, 243, 351, 544, 969, 1115
FokI GGATG 4 cut(s) 514, 542, 659, 761
Fsp4HI GCNGC 7 cut(s) 63, 88, 243, 351, 544, 969, 1115
FspBI CTAG 2 cut(s) 59, 347
FspI TGCGCA 1 cut(s) 542
GlaI GCGC 1 cut(s) 542
GluI GCNGC 7 cut(s) 63, 88, 243, 351, 544, 969, 1115
GsuI CTGGAG 1 cut(s) 272
HaeIII GGCC 3 cut(s) 257, 414, 1038
HapII CCGG 2 cut(s) 66, 354
HhaI GCGC 1 cut(s) 543
Hin1II CATG 5 cut(s) 150, 217, 716, 1114, 1126
Hin6I GCGC 1 cut(s) 541
HinP1I GCGC 1 cut(s) 541
HincII GTYRAC 1 cut(s) 624
HindII GTYRAC 1 cut(s) 624
HinfI GANTC 4 cut(s) 13, 885, 1126, 1143
HpaII CCGG 2 cut(s) 66, 354
HphI GGTGA 1 cut(s) 164
Hpy166II GTNNAC 3 cut(s) 438, 624, 905
Hpy188I TCNGA 7 cut(s) 141, 484, 660, 937, 1012, 1087, 1131
Hpy188III TCNNGA 5 cut(s) 395, 404, 707, 713, 1123
Hpy8I GTNNAC 3 cut(s) 438, 624, 905
Hpy99I CGWCG 1 cut(s) 871
HpyAV CCTTC 5 cut(s) 37, 226, 631, 682, 910
HpyCH4III ACNGT 3 cut(s) 103, 328, 837
HpyCH4V TGCA 2 cut(s) 73, 944
HpyF10VI GCNNNNNNNGC 3 cut(s) 62, 350, 770
HpyF3I CTNAG 1 cut(s) 494
Hsp92II CATG 5 cut(s) 150, 217, 716, 1114, 1126
HspAI GCGC 1 cut(s) 541
Ksp22I TGATCA 1 cut(s) 559
Kzo9I GATC 6 cut(s) 400, 559, 709, 766, 955, 1030
LmnI GCTCC 4 cut(s) 84, 898, 1048, 1054
Lsp1109I GCAGC 5 cut(s) 74, 229, 555, 955, 1101
LweI GCATC 2 cut(s) 520, 808
MaeI CTAG 2 cut(s) 59, 347
MaeIII GTNAC 2 cut(s) 128, 152
MalI GATC 6 cut(s) 402, 561, 711, 768, 957, 1032
MbiI CCGCTC 1 cut(s) 87
MboI GATC 6 cut(s) 400, 559, 709, 766, 955, 1030
MflI RGATCY 1 cut(s) 400
MhlI GDGCHC 1 cut(s) 617
MluCI AATT 2 cut(s) 119, 407
MlyI GAGTC 1 cut(s) 894
MmeI TCCRAC 1 cut(s) 302
MroXI GAANNNNTTC 1 cut(s) 702
MseI TTAA 2 cut(s) 261, 552
MspI CCGG 2 cut(s) 66, 354
MspR9I CCNGG 3 cut(s) 67, 251, 355
MvaI CCWGG 1 cut(s) 251
MwoI GCNNNNNNNGC 3 cut(s) 62, 350, 770
NciI CCSGG 2 cut(s) 67, 355
NdeII GATC 6 cut(s) 400, 559, 709, 766, 955, 1030
NlaIII CATG 5 cut(s) 150, 217, 716, 1114, 1126
NmuCI GTSAC 1 cut(s) 152
NsbI TGCGCA 1 cut(s) 542
NspV TTCGAA 1 cut(s) 16
PagI TCATGA 2 cut(s) 712, 1122
PcsI WCGNNNNNNNCGW 1 cut(s) 402
PdmI GAANNNNTTC 1 cut(s) 702
PfeI GAWTC 3 cut(s) 13, 1126, 1143
PflFI GACNNNGTC 1 cut(s) 214
PkrI GCNGC 7 cut(s) 64, 89, 244, 352, 545, 970, 1116
PleI GAGTC 1 cut(s) 893
PpsI GAGTC 1 cut(s) 893
PshBI ATTAAT 2 cut(s) 261, 552
Psp6I CCWGG 1 cut(s) 249
PspEI GGTNACC 1 cut(s) 152
PspGI CCWGG 1 cut(s) 249
PspPI GGNCC 2 cut(s) 413, 1037
PsuI RGATCY 1 cut(s) 400
PsyI GACNNNGTC 1 cut(s) 214
RsaI GTAC 2 cut(s) 80, 439
RsaNI GTAC 2 cut(s) 79, 438
SaqAI TTAA 2 cut(s) 261, 552
SatI GCNGC 7 cut(s) 63, 88, 243, 351, 544, 969, 1115
Sau3AI GATC 6 cut(s) 400, 559, 709, 766, 955, 1030
Sau96I GGNCC 2 cut(s) 413, 1037
SchI GAGTC 1 cut(s) 894
ScrFI CCNGG 3 cut(s) 67, 251, 355
SduI GDGCHC 1 cut(s) 617
SfaNI GCATC 2 cut(s) 520, 808
SfuI TTCGAA 1 cut(s) 16
Sse9I AATT 2 cut(s) 119, 407
SsiI CCGC 6 cut(s) 87, 150, 247, 318, 351, 986
SspI AATATT 2 cut(s) 113, 1005
SspMI CTAG 2 cut(s) 59, 347
StyD4I CCNGG 3 cut(s) 65, 249, 353
StyI CCWWGG 1 cut(s) 222
TaaI ACNGT 3 cut(s) 103, 328, 837
TaqI TCGA 6 cut(s) 16, 41, 396, 866, 883, 1033
TaqII GACCGA 1 cut(s) 590
TasI AATT 2 cut(s) 119, 407
TatI WGTACW 1 cut(s) 437
TauI GCSGC 2 cut(s) 90, 353
TfiI GAWTC 3 cut(s) 13, 1126, 1143
Tru1I TTAA 2 cut(s) 261, 552
Tru9I TTAA 2 cut(s) 261, 552
TscAI CASTG 3 cut(s) 690, 918, 1033
TseFI GTSAC 1 cut(s) 152
TseI GCWGC 5 cut(s) 62, 242, 543, 968, 1114
Tsp45I GTSAC 1 cut(s) 152
TspDTI ATGAA 5 cut(s) 807, 824, 1111, 1139, 1152
TspGWI ACGGA 3 cut(s) 620, 710, 884
TspRI CASTG 3 cut(s) 690, 918, 1033
Tth111I GACNNNGTC 1 cut(s) 214
VspI ATTAAT 2 cut(s) 261, 552
XapI RAATTY 2 cut(s) 119, 407
XmnI GAANNNNTTC 1 cut(s) 702
XspI CTAG 2 cut(s) 59, 347
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.