Rroxscaffold_6G00392880

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0011600
Physical Location & Seq
Forward (+)
12667420 .. 12668674
1255 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00392880.1

Sequence Viewer

Length: 558 bp
ATGCTACGGTCGCCCGCGAGGCTTGAGATTGAAAGGAGGATTCCTTTTCGGCTGGAAATGGTTTCACTTGACGATCTCCTTATACCATCAATCCAAGTCGGCGGTTCATTATATGATGTTGATACTGTTCATCGAATACGGTCAATTTTCTGCGGCGAGAAGAAAATGAAGATTGTGGAATACGAAGGCACCGGTTCTCCGAGTCATGGTTCATTGTTGAAAGTTGGACGGCTTATTGACACATATTTAGCTGAAAGTGCTCCCGACCCTTACCCGAGCTTACAAAAGTTCATTGCTATGATTGAAATCCTGCCTTATTATGCTCGTGTCATCGATGATGGGCTTTACGGGCGGGCGGCTCACCTTCGGGGCCTCTCTACAACTTTTCTACGCATTTCGGCGGTTAGCTTGATTGGTTCGAATCCGAGAGGCATTGAAATCCCATTTTTTATACCGTCTCCCGGGCGTGCAATCAACGAGTTAAAGGGCTACTCCTTACTCTACTTGCAGCGCGCGGACGCGGTCTTGTCCACCGAGCATCGATGTGAGGAAGAGTAA
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

185

Amino Acids

20.74

Weight (kDa)

6.44

Isoelectric Point (pI)

50.8

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 6 - 116 3.2e-26 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)
AccB1I GGYRCC 1 cut(s) 188
AccII CGCG 4 cut(s) 17, 513, 515, 521
AciI CCGC 8 cut(s) 15, 102, 153, 352, 356, 401, 515, 521
AfiI CCNNNNNNNGG 2 cut(s) 206, 461
AgeI ACCGGT 1 cut(s) 191
AgsI TTSAA 4 cut(s) 32, 220, 305, 437
AluBI AGCT 3 cut(s) 251, 279, 408
AluI AGCT 3 cut(s) 251, 279, 408
Alw21I GWGCWC 1 cut(s) 262
Alw26I GTCTC 1 cut(s) 462
Ama87I CYCGRG 2 cut(s) 274, 461
AoxI GGCC 1 cut(s) 370
ApeKI GCWGC 1 cut(s) 508
AsiGI ACCGGT 1 cut(s) 191
AspLEI GCGC 2 cut(s) 513, 515
AspS9I GGNCC 1 cut(s) 370
AsuC2I CCSGG 2 cut(s) 462, 463
AsuHPI GGTGA 1 cut(s) 353
AsuII TTCGAA 1 cut(s) 419
AvaI CYCGRG 2 cut(s) 274, 461
BanI GGYRCC 1 cut(s) 188
BauI CACGAG 1 cut(s) 324
Bbv12I GWGCWC 1 cut(s) 262
BbvI GCAGC 1 cut(s) 520
BccI CCATC 2 cut(s) 94, 332
BceAI ACGGC 1 cut(s) 245
BcnI CCSGG 2 cut(s) 462, 463
BcoDI GTCTC 1 cut(s) 462
BglI GCCNNNNNGGC 1 cut(s) 19
BisI GCNGC 3 cut(s) 154, 357, 509
BlsI GCNGC 3 cut(s) 155, 358, 510
Bme1390I CCNGG 2 cut(s) 462, 463
BmeT110I CYCGRG 2 cut(s) 274, 461
BmgT120I GGNCC 1 cut(s) 370
BmiI GGNNCC 2 cut(s) 190, 371
BmrFI CCNGG 2 cut(s) 462, 463
BmsI GCATC 1 cut(s) 547
Bpu14I TTCGAA 1 cut(s) 419
BpuEI CTTGAG 1 cut(s) 44
BpuMI CCSGG 2 cut(s) 462, 463
Bsa29I ATCGAT 2 cut(s) 333, 541
BsaBI GATNNNNATC 1 cut(s) 305
BsaJI CCNNGG 1 cut(s) 461
BsaWI WCCGGW 1 cut(s) 191
BsaXI ACNNNNNCTCC 2 cut(s) 181, 211
Bsc4I CCNNNNNNNGG 2 cut(s) 206, 461
Bse118I RCCGGY 1 cut(s) 191
Bse3DI GCAATG 1 cut(s) 291
Bse8I GATNNNNATC 1 cut(s) 305
BseCI ATCGAT 2 cut(s) 333, 541
BseDI CCNNGG 1 cut(s) 461
BseJI GATNNNNATC 1 cut(s) 305
BseLI CCNNNNNNNGG 2 cut(s) 206, 461
BseMI GCAATG 1 cut(s) 291
BsePI GCGCGC 1 cut(s) 511
BseXI GCAGC 1 cut(s) 520
Bsh1236I CGCG 4 cut(s) 17, 513, 515, 521
Bsh1285I CGRYCG 1 cut(s) 11
BshFI GGCC 1 cut(s) 372
BshNI GGYRCC 1 cut(s) 188
BshTI ACCGGT 1 cut(s) 191
BshVI ATCGAT 2 cut(s) 333, 541
BsiEI CGRYCG 1 cut(s) 11
BsiHKAI GWGCWC 1 cut(s) 262
BsiHKCI CYCGRG 2 cut(s) 274, 461
BsiSI CCGG 2 cut(s) 192, 462
BslI CCNNNNNNNGG 2 cut(s) 206, 461
BsmAI GTCTC 1 cut(s) 462
BsmBI CGTCTC 1 cut(s) 462
BsnI GGCC 1 cut(s) 372
BsoBI CYCGRG 2 cut(s) 274, 461
Bsp119I TTCGAA 1 cut(s) 419
Bsp1286I GDGCHC 1 cut(s) 262
Bsp143I GATC 1 cut(s) 73
BspACI CCGC 8 cut(s) 15, 102, 153, 352, 356, 401, 515, 521
BspANI GGCC 1 cut(s) 372
BspDI ATCGAT 2 cut(s) 333, 541
BspFNI CGCG 4 cut(s) 17, 513, 515, 521
BspLI GGNNCC 2 cut(s) 190, 371
BspT104I TTCGAA 1 cut(s) 419
BspT107I GGYRCC 1 cut(s) 188
BsrDI GCAATG 1 cut(s) 291
BsrFI RCCGGY 1 cut(s) 191
BssAI RCCGGY 1 cut(s) 191
BssECI CCNNGG 1 cut(s) 461
BssHII GCGCGC 1 cut(s) 511
BssMI GATC 1 cut(s) 73
BssSI CACGAG 1 cut(s) 324
Bst2BI CACGAG 1 cut(s) 324
Bst4CI ACNGT 4 cut(s) 9, 127, 141, 456
Bst6I CTCTTC 1 cut(s) 546
BstBI TTCGAA 1 cut(s) 419
BstC8I GCNNGC 4 cut(s) 15, 354, 468, 513
BstFNI CGCG 4 cut(s) 17, 513, 515, 521
BstHHI GCGC 2 cut(s) 513, 515
BstKTI GATC 1 cut(s) 76
BstMAI GTCTC 1 cut(s) 462
BstMBI GATC 1 cut(s) 73
BstMCI CGRYCG 1 cut(s) 11
BstMWI GCNNNNNNNGC 4 cut(s) 10, 19, 257, 349
BstSCI CCNGG 2 cut(s) 460, 461
BstUI CGCG 4 cut(s) 17, 513, 515, 521
BstV1I GCAGC 1 cut(s) 520
Bsu15I ATCGAT 2 cut(s) 333, 541
BsuRI GGCC 1 cut(s) 372
BsuTUI ATCGAT 2 cut(s) 333, 541
Cac8I GCNNGC 4 cut(s) 15, 354, 468, 513
CfoI GCGC 2 cut(s) 513, 515
Cfr10I RCCGGY 1 cut(s) 191
Cfr13I GGNCC 1 cut(s) 370
Cfr9I CCCGGG 1 cut(s) 461
ClaI ATCGAT 2 cut(s) 333, 541
CseI GACGC 1 cut(s) 527
CspAI ACCGGT 1 cut(s) 191
CviAII CATG 1 cut(s) 206
DpnI GATC 1 cut(s) 75
DpnII GATC 1 cut(s) 73
Eam1104I CTCTTC 1 cut(s) 546
EarI CTCTTC 1 cut(s) 546
Eco88I CYCGRG 2 cut(s) 274, 461
EcoO109I RGGNCCY 1 cut(s) 370
Esp3I CGTCTC 1 cut(s) 462
FaeI CATG 1 cut(s) 209
FaiI YATR 8 cut(s) 83, 112, 114, 207, 244, 299, 321, 452
FatI CATG 1 cut(s) 205
FauI CCCGC 2 cut(s) 22, 345
Fnu4HI GCNGC 3 cut(s) 154, 357, 509
Fsp4HI GCNGC 3 cut(s) 154, 357, 509
GlaI GCGC 2 cut(s) 512, 514
GluI GCNGC 3 cut(s) 154, 357, 509
HaeIII GGCC 1 cut(s) 372
HapII CCGG 2 cut(s) 192, 462
HgaI GACGC 1 cut(s) 527
HhaI GCGC 2 cut(s) 513, 515
Hin1II CATG 1 cut(s) 209
Hin6I GCGC 2 cut(s) 511, 513
HinP1I GCGC 2 cut(s) 511, 513
HinfI GANTC 3 cut(s) 40, 202, 421
HpaII CCGG 2 cut(s) 192, 462
HphI GGTGA 1 cut(s) 353
Hpy166II GTNNAC 1 cut(s) 531
Hpy188I TCNGA 2 cut(s) 201, 426
Hpy188III TCNNGA 1 cut(s) 263
Hpy8I GTNNAC 1 cut(s) 531
HpyAV CCTTC 2 cut(s) 179, 374
HpyCH4III ACNGT 4 cut(s) 9, 127, 141, 456
HpyCH4V TGCA 2 cut(s) 470, 508
HpyF10VI GCNNNNNNNGC 4 cut(s) 10, 19, 257, 349
Hsp92II CATG 1 cut(s) 209
HspAI GCGC 2 cut(s) 511, 513
Kzo9I GATC 1 cut(s) 73
LmnI GCTCC 1 cut(s) 265
LpnPI CCDG 4 cut(s) 38, 205, 323, 475
Lsp1109I GCAGC 1 cut(s) 520
LweI GCATC 1 cut(s) 547
MalI GATC 1 cut(s) 75
MboI GATC 1 cut(s) 73
MboII GAAGA 2 cut(s) 172, 181
MhlI GDGCHC 1 cut(s) 262
MluCI AATT 1 cut(s) 144
MlyI GAGTC 1 cut(s) 211
MmeI TCCRAC 1 cut(s) 205
MnlI CCTC 5 cut(s) 12, 30, 383, 422, 541
MseI TTAA 1 cut(s) 482
MslI CAYNNNNRTG 2 cut(s) 296, 543
MspI CCGG 2 cut(s) 192, 462
MspR9I CCNGG 2 cut(s) 462, 463
MvnI CGCG 4 cut(s) 17, 513, 515, 521
MwoI GCNNNNNNNGC 4 cut(s) 10, 19, 257, 349
NciI CCSGG 2 cut(s) 462, 463
NdeII GATC 1 cut(s) 73
NlaIII CATG 1 cut(s) 209
NlaIV GGNNCC 2 cut(s) 190, 371
NspV TTCGAA 1 cut(s) 419
PauI GCGCGC 1 cut(s) 511
PfeI GAWTC 2 cut(s) 40, 421
PflFI GACNNNGTC 1 cut(s) 521
PinAI ACCGGT 1 cut(s) 191
PkrI GCNGC 3 cut(s) 155, 358, 510
PleI GAGTC 1 cut(s) 210
PpsI GAGTC 1 cut(s) 210
PspN4I GGNNCC 2 cut(s) 190, 371
PspPI GGNCC 1 cut(s) 370
PsyI GACNNNGTC 1 cut(s) 521
PteI GCGCGC 1 cut(s) 511
RseI CAYNNNNRTG 2 cut(s) 296, 543
SaqAI TTAA 1 cut(s) 482
SatI GCNGC 3 cut(s) 154, 357, 509
Sau3AI GATC 1 cut(s) 73
Sau96I GGNCC 1 cut(s) 370
SchI GAGTC 1 cut(s) 211
ScrFI CCNGG 2 cut(s) 462, 463
SduI GDGCHC 1 cut(s) 262
SetI ASST 4 cut(s) 253, 281, 366, 410
SfaNI GCATC 1 cut(s) 547
SfuI TTCGAA 1 cut(s) 419
SmaI CCCGGG 1 cut(s) 463
SmiMI CAYNNNNRTG 2 cut(s) 296, 543
SmlI CTYRAG 1 cut(s) 23
SmoI CTYRAG 1 cut(s) 23
Sse9I AATT 1 cut(s) 144
SsiI CCGC 8 cut(s) 15, 102, 153, 352, 356, 401, 515, 521
StyD4I CCNGG 2 cut(s) 460, 461
TaaI ACNGT 4 cut(s) 9, 127, 141, 456
TaqI TCGA 4 cut(s) 133, 333, 419, 541
TasI AATT 1 cut(s) 144
TauI GCSGC 2 cut(s) 156, 359
TfiI GAWTC 2 cut(s) 40, 421
Tru1I TTAA 1 cut(s) 482
Tru9I TTAA 1 cut(s) 482
TseI GCWGC 1 cut(s) 508
TspDTI ATGAA 5 cut(s) 96, 119, 182, 201, 280
TspMI CCCGGG 1 cut(s) 461
Tth111I GACNNNGTC 1 cut(s) 521
XmaI CCCGGG 1 cut(s) 461
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.