Rh6DG127700

Catalyzes the synthesis of dihydrouridine, a modified base found in the D-loop of most tRNAs

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0019089
Physical Location & Seq
Reverse (-)
18028714 .. 18029533
820 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG127700.1

Sequence Viewer

Length: 342 bp
ATGAGTGGGAGTTCATTGCTGAGGAGGACGAATGATGTGGAGATAGGTGCCAAAAATTGGGAAGTTGTCACCGGTAAACATCGAATATCGGTGATTTGGGTATGGTCAATACTTCATAACTCTCTTCCTCCTTGGTTCAGTGTGGCTCCTATGATGGAATGGCCTGATGTTCATTACAGGACTTTGGCCCGCCTCATATCCAAGCATGCCTGGCTCTACTCTGAGATGCTTGCTGCCGAAACCATTGTTTATCAGAAGGACAATCTGTTTTGGATGTCCCAGTCAAGAGTAGCTGGACATAGGTGCTTTGGTTCTCGTCCTATGTTGGATCCAAAGGTTTGA
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
Dus

Protein Analysis

113

Amino Acids

13.15

Weight (kDa)

9.57

Isoelectric Point (pI)

42.76

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Dus PF01207 48 - 89 5.1e-06 Dihydrouridine synthase (Dus)
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: OG0019089)

Species Orthologous Gene IDs
rosa_multiflora Rmu_sc0000493.1_g000061 Rmu_sc0013338.1_g000001
rosa_roxburghii Rroxscaffold_3G00221180
rosa_rugosa Rorug06G0103000
rosa_samantha Rh2AG116600 Rh6AG143100 Rh6BG143400 Rh6CG140000 Rh6DG127700

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 47
AccB7I CCANNNNNTGG 1 cut(s) 57
AciI CCGC 1 cut(s) 190
AclWI GGATC 2 cut(s) 323, 336
AfiI CCNNNNNNNGG 1 cut(s) 57
AgeI ACCGGT 1 cut(s) 71
AjnI CCWGG 1 cut(s) 209
AluBI AGCT 1 cut(s) 293
AluI AGCT 1 cut(s) 293
AlwI GGATC 2 cut(s) 323, 336
AoxI GGCC 2 cut(s) 161, 186
ApeKI GCWGC 1 cut(s) 233
AsiGI ACCGGT 1 cut(s) 71
AspS9I GGNCC 1 cut(s) 187
AsuHPI GGTGA 2 cut(s) 61, 103
BamHI GGATCC 1 cut(s) 328
BanI GGYRCC 1 cut(s) 47
BbvCI CCTCAGC 1 cut(s) 20
BbvI GCAGC 1 cut(s) 220
BccI CCATC 1 cut(s) 148
BciT130I CCWGG 1 cut(s) 211
BisI GCNGC 1 cut(s) 234
BlsI GCNGC 1 cut(s) 235
Bme1390I CCNGG 1 cut(s) 211
BmgT120I GGNCC 1 cut(s) 187
BmiI GGNNCC 3 cut(s) 49, 147, 330
BmrFI CCNGG 1 cut(s) 211
BmrI ACTGGG 1 cut(s) 274
BmsI GCATC 1 cut(s) 216
BmuI ACTGGG 1 cut(s) 274
Bpu10I CCTNAGC 1 cut(s) 20
BsaJI CCNNGG 1 cut(s) 131
BsaWI WCCGGW 1 cut(s) 71
Bsc4I CCNNNNNNNGG 1 cut(s) 57
Bse118I RCCGGY 1 cut(s) 71
Bse1I ACTGG 1 cut(s) 280
Bse3DI GCAATG 1 cut(s) 14
BseBI CCWGG 1 cut(s) 211
BseDI CCNNGG 1 cut(s) 131
BseGI GGATG 1 cut(s) 279
BseLI CCNNNNNNNGG 1 cut(s) 57
BseMI GCAATG 1 cut(s) 14
BseMII CTCAG 2 cut(s) 11, 213
BseNI ACTGG 1 cut(s) 280
BseRI GAGGAG 1 cut(s) 37
BseXI GCAGC 1 cut(s) 220
BshFI GGCC 2 cut(s) 163, 188
BshNI GGYRCC 1 cut(s) 47
BshTI ACCGGT 1 cut(s) 71
BsiSI CCGG 1 cut(s) 72
BslFI GGGAC 1 cut(s) 262
BslI CCNNNNNNNGG 1 cut(s) 57
BsmFI GGGAC 1 cut(s) 262
BsnI GGCC 2 cut(s) 163, 188
Bsp143I GATC 1 cut(s) 328
BspACI CCGC 1 cut(s) 190
BspANI GGCC 2 cut(s) 163, 188
BspCNI CTCAG 2 cut(s) 12, 214
BspLI GGNNCC 3 cut(s) 49, 147, 330
BspPI GGATC 2 cut(s) 323, 336
BspT107I GGYRCC 1 cut(s) 47
BsrDI GCAATG 1 cut(s) 14
BsrFI RCCGGY 1 cut(s) 71
BsrI ACTGG 1 cut(s) 280
BssAI RCCGGY 1 cut(s) 71
BssECI CCNNGG 1 cut(s) 131
BssMI GATC 1 cut(s) 328
BssT1I CCWWGG 1 cut(s) 131
Bst2UI CCWGG 1 cut(s) 211
Bst6I CTCTTC 1 cut(s) 129
BstC8I GCNNGC 3 cut(s) 190, 207, 231
BstDEI CTNAG 2 cut(s) 20, 222
BstF5I GGATG 1 cut(s) 279
BstKTI GATC 1 cut(s) 331
BstMBI GATC 1 cut(s) 328
BstMWI GCNNNNNNNGC 1 cut(s) 211
BstNI CCWGG 1 cut(s) 211
BstNSI RCATGY 1 cut(s) 209
BstSCI CCNGG 1 cut(s) 209
BstV1I GCAGC 1 cut(s) 220
BstX2I RGATCY 1 cut(s) 328
BstYI RGATCY 1 cut(s) 328
BsuRI GGCC 2 cut(s) 163, 188
BtsCI GGATG 1 cut(s) 279
BtsIMutI CAGTG 1 cut(s) 145
Cac8I GCNNGC 3 cut(s) 190, 207, 231
Cfr10I RCCGGY 1 cut(s) 71
Cfr13I GGNCC 1 cut(s) 187
CspAI ACCGGT 1 cut(s) 71
CviAII CATG 1 cut(s) 206
CviJI RGCY 5 cut(s) 146, 163, 188, 214, 293
CviKI_1 RGCY 5 cut(s) 146, 163, 188, 214, 293
DdeI CTNAG 2 cut(s) 20, 222
DpnI GATC 1 cut(s) 330
DpnII GATC 1 cut(s) 328
Eam1104I CTCTTC 1 cut(s) 129
EarI CTCTTC 1 cut(s) 129
Eco130I CCWWGG 1 cut(s) 131
EcoRII CCWGG 1 cut(s) 209
EcoT14I CCWWGG 1 cut(s) 131
ErhI CCWWGG 1 cut(s) 131
FaeI CATG 1 cut(s) 209
FaiI YATR 7 cut(s) 103, 117, 152, 197, 207, 300, 323
FaqI GGGAC 1 cut(s) 262
FatI CATG 1 cut(s) 205
FauI CCCGC 1 cut(s) 197
Fnu4HI GCNGC 1 cut(s) 234
FokI GGATG 1 cut(s) 286
Fsp4HI GCNGC 1 cut(s) 234
GluI GCNGC 1 cut(s) 234
HaeIII GGCC 2 cut(s) 163, 188
HapII CCGG 1 cut(s) 72
Hin1II CATG 1 cut(s) 209
HpaII CCGG 1 cut(s) 72
HphI GGTGA 2 cut(s) 61, 103
Hpy166II GTNNAC 1 cut(s) 77
Hpy188I TCNGA 2 cut(s) 223, 255
Hpy188III TCNNGA 1 cut(s) 285
Hpy8I GTNNAC 1 cut(s) 77
HpyAV CCTTC 1 cut(s) 250
HpyF10VI GCNNNNNNNGC 1 cut(s) 211
HpyF3I CTNAG 2 cut(s) 20, 222
Hsp92II CATG 1 cut(s) 209
Kzo9I GATC 1 cut(s) 328
LmnI GCTCC 1 cut(s) 151
LpnPI CCDG 7 cut(s) 85, 163, 177, 196, 223, 279, 293
Lsp1109I GCAGC 1 cut(s) 220
LweI GCATC 1 cut(s) 216
MaeIII GTNAC 1 cut(s) 67
MalI GATC 1 cut(s) 330
MboI GATC 1 cut(s) 328
MboII GAAGA 1 cut(s) 116
MflI RGATCY 1 cut(s) 328
MluCI AATT 1 cut(s) 55
MmeI TCCRAC 1 cut(s) 306
MnlI CCTC 4 cut(s) 15, 18, 138, 203
MspI CCGG 1 cut(s) 72
MspR9I CCNGG 1 cut(s) 211
MvaI CCWGG 1 cut(s) 211
MwoI GCNNNNNNNGC 1 cut(s) 211
NdeII GATC 1 cut(s) 328
NlaIII CATG 1 cut(s) 209
NlaIV GGNNCC 3 cut(s) 49, 147, 330
NmuCI GTSAC 1 cut(s) 67
NspI RCATGY 1 cut(s) 209
PaeI GCATGC 1 cut(s) 209
PflMI CCANNNNNTGG 1 cut(s) 57
PinAI ACCGGT 1 cut(s) 71
PkrI GCNGC 1 cut(s) 235
Psp6I CCWGG 1 cut(s) 209
PspGI CCWGG 1 cut(s) 209
PspN4I GGNNCC 3 cut(s) 49, 147, 330
PspPI GGNCC 1 cut(s) 187
PsuI RGATCY 1 cut(s) 328
SatI GCNGC 1 cut(s) 234
Sau3AI GATC 1 cut(s) 328
Sau96I GGNCC 1 cut(s) 187
ScrFI CCNGG 1 cut(s) 211
SetI ASST 4 cut(s) 49, 295, 305, 339
SfaNI GCATC 1 cut(s) 216
SphI GCATGC 1 cut(s) 209
Sse9I AATT 1 cut(s) 55
SsiI CCGC 1 cut(s) 190
StyD4I CCNGG 1 cut(s) 209
StyI CCWWGG 1 cut(s) 131
TaqI TCGA 1 cut(s) 82
TasI AATT 1 cut(s) 55
TscAI CASTG 1 cut(s) 145
TseFI GTSAC 1 cut(s) 67
TseI GCWGC 1 cut(s) 233
Tsp45I GTSAC 1 cut(s) 67
TspDTI ATGAA 2 cut(s) 104, 161
TspRI CASTG 1 cut(s) 145
Van91I CCANNNNNTGG 1 cut(s) 57
XceI RCATGY 1 cut(s) 209
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.