Rroxscaffold_6G00407280

tRNA pseudouridine

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0017835
Physical Location & Seq
Forward (+)
29955783 .. 29964013
8231 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00407280.1

Sequence Viewer

Length: 567 bp
ATGTTCTGCTCAAGTCGCACTGATGCAGGAGTCCATGCCTTATCCAATGTTTGTCATGTAGATATTGAACGCATAAGCAAAAGAAGGCCTGGTGAAGTGTTACCACCTCATGAACCTACAGTGGTCCAAAAAGCTGTAAACCATTTCTTACAGGTATTTTGGATTAGAGAATTGAAAACTGTGGATTTGAAAACCAGGTTGACCTCTGAATCAATGGCTCCATTCCTTTCCCACTTTTCAGCAACATTTGTCTACTCAGAAGTGGTTTTACTAGGAATTTCTTTTCTTGAGCGAGAGCATAGACTAACAGAAACTGTCATCTTGTGGCTTTCCGAAGATCAAAGCTTTTGGGATGATATTGAGGATGGGCCAAGGCCTTTGGGTCCTTTTGGCTTACAACAGCTATTTGGCCAGAATTTACCTCGCAAGTTCAGAAATTCGAAGAACCCTAGATTCCCAATCTTCCAAATTCGAGCTCCACAGGCTAAATCGTTGCAAGCCGCTTGGAGGGAAGCATCTAAATCCCCAGAAGTGCAGAATCCCCTCAAGAATCACGGAAAAAGGTGA
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
PseudoU_synth_1

Protein Analysis

188

Amino Acids

21.63

Weight (kDa)

9.46

Isoelectric Point (pI)

52.49

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 252
AciI CCGC 1 cut(s) 501
AcoI YGGCCR 1 cut(s) 409
AcsI RAATTY 4 cut(s) 276, 415, 436, 468
AfiI CCNNNNNNNGG 1 cut(s) 507
AgsI TTSAA 3 cut(s) 68, 175, 190
AjnI CCWGG 2 cut(s) 88, 194
AluBI AGCT 4 cut(s) 134, 345, 403, 476
AluI AGCT 4 cut(s) 134, 345, 403, 476
Alw21I GWGCWC 1 cut(s) 478
AlwNI CAGNNNCTG 1 cut(s) 314
AoxI GGCC 4 cut(s) 86, 368, 374, 409
ApoI RAATTY 4 cut(s) 276, 415, 436, 468
AspS9I GGNCC 3 cut(s) 124, 368, 383
AsuHPI GGTGA 1 cut(s) 104
AsuII TTCGAA 1 cut(s) 440
AvaII GGWCC 2 cut(s) 124, 383
BalI TGGCCA 1 cut(s) 411
BanII GRGCYC 1 cut(s) 478
BarI GAAGNNNNNNTAC 2 cut(s) 252, 284
Bbv12I GWGCWC 1 cut(s) 478
BccI CCATC 1 cut(s) 359
BciT130I CCWGG 2 cut(s) 90, 196
BfaI CTAG 2 cut(s) 272, 450
BfmI CTRYAG 1 cut(s) 117
BisI GCNGC 1 cut(s) 501
BlsI GCNGC 1 cut(s) 502
Bme1390I CCNGG 2 cut(s) 90, 196
Bme18I GGWCC 2 cut(s) 124, 383
BmgT120I GGNCC 3 cut(s) 124, 368, 383
BmiI GGNNCC 2 cut(s) 219, 384
BmrFI CCNGG 2 cut(s) 90, 196
BmsI GCATC 2 cut(s) 13, 524
Bpu14I TTCGAA 1 cut(s) 440
BpuEI CTTGAG 2 cut(s) 308, 530
BsaJI CCNNGG 1 cut(s) 371
Bsc4I CCNNNNNNNGG 1 cut(s) 507
BseBI CCWGG 2 cut(s) 90, 196
BseDI CCNNGG 1 cut(s) 371
BseGI GGATG 2 cut(s) 358, 370
BseLI CCNNNNNNNGG 1 cut(s) 507
BseMII CTCAG 1 cut(s) 270
BsgI GTGCAG 1 cut(s) 554
BshFI GGCC 4 cut(s) 88, 370, 376, 411
BsiHKAI GWGCWC 1 cut(s) 478
BslI CCNNNNNNNGG 1 cut(s) 507
BsnI GGCC 4 cut(s) 88, 370, 376, 411
Bsp119I TTCGAA 1 cut(s) 440
Bsp1286I GDGCHC 1 cut(s) 478
Bsp143I GATC 1 cut(s) 337
BspACI CCGC 1 cut(s) 501
BspANI GGCC 4 cut(s) 88, 370, 376, 411
BspCNI CTCAG 1 cut(s) 269
BspHI TCATGA 1 cut(s) 109
BspLI GGNNCC 2 cut(s) 219, 384
BspT104I TTCGAA 1 cut(s) 440
BssECI CCNNGG 1 cut(s) 371
BssMI GATC 1 cut(s) 337
BssT1I CCWWGG 1 cut(s) 371
Bst2UI CCWGG 2 cut(s) 90, 196
Bst4CI ACNGT 3 cut(s) 121, 181, 316
BstBI TTCGAA 1 cut(s) 440
BstC8I GCNNGC 1 cut(s) 498
BstDEI CTNAG 1 cut(s) 256
BstF5I GGATG 2 cut(s) 358, 370
BstKTI GATC 1 cut(s) 340
BstMBI GATC 1 cut(s) 337
BstMWI GCNNNNNNNGC 2 cut(s) 15, 482
BstNI CCWGG 2 cut(s) 90, 196
BstSCI CCNGG 2 cut(s) 88, 194
BstSFI CTRYAG 1 cut(s) 117
BsuRI GGCC 4 cut(s) 88, 370, 376, 411
BtsCI GGATG 2 cut(s) 358, 370
BtsIMutI CAGTG 2 cut(s) 18, 126
Cac8I GCNNGC 1 cut(s) 498
CaiI CAGNNNCTG 1 cut(s) 314
CciI TCATGA 1 cut(s) 109
Cfr13I GGNCC 3 cut(s) 124, 368, 383
CsiI ACCWGGT 1 cut(s) 194
CviAII CATG 3 cut(s) 35, 56, 110
DdeI CTNAG 1 cut(s) 256
DpnI GATC 1 cut(s) 339
DpnII GATC 1 cut(s) 337
EaeI YGGCCR 1 cut(s) 409
Ecl136II GAGCTC 1 cut(s) 476
Eco130I CCWWGG 1 cut(s) 371
Eco147I AGGCCT 2 cut(s) 88, 376
Eco24I GRGCYC 1 cut(s) 478
Eco47I GGWCC 2 cut(s) 124, 383
Eco53kI GAGCTC 1 cut(s) 476
EcoICRI GAGCTC 1 cut(s) 476
EcoO109I RGGNCCY 1 cut(s) 383
EcoRII CCWGG 2 cut(s) 88, 194
EcoT14I CCWWGG 1 cut(s) 371
EcoT38I GRGCYC 1 cut(s) 478
ErhI CCWWGG 1 cut(s) 371
FaeI CATG 3 cut(s) 38, 59, 113
FaiI YATR 5 cut(s) 36, 57, 74, 111, 300
FatI CATG 3 cut(s) 34, 55, 109
FblI GTMKAC 1 cut(s) 252
Fnu4HI GCNGC 1 cut(s) 501
FokI GGATG 2 cut(s) 365, 377
FriOI GRGCYC 1 cut(s) 478
Fsp4HI GCNGC 1 cut(s) 501
FspBI CTAG 2 cut(s) 272, 450
GluI GCNGC 1 cut(s) 501
HaeIII GGCC 4 cut(s) 88, 370, 376, 411
Hin1II CATG 3 cut(s) 38, 59, 113
HincII GTYRAC 1 cut(s) 201
HindII GTYRAC 1 cut(s) 201
HindIII AAGCTT 1 cut(s) 343
HinfI GANTC 5 cut(s) 30, 209, 453, 538, 550
HphI GGTGA 1 cut(s) 104
Hpy166II GTNNAC 3 cut(s) 139, 201, 253
Hpy188I TCNGA 4 cut(s) 208, 259, 334, 434
Hpy188III TCNNGA 3 cut(s) 110, 287, 547
Hpy8I GTNNAC 3 cut(s) 139, 201, 253
HpyAV CCTTC 1 cut(s) 78
HpyCH4III ACNGT 3 cut(s) 121, 181, 316
HpyCH4V TGCA 3 cut(s) 26, 496, 535
HpyF10VI GCNNNNNNNGC 2 cut(s) 15, 482
HpyF3I CTNAG 1 cut(s) 256
Hsp92II CATG 3 cut(s) 38, 59, 113
Kzo9I GATC 1 cut(s) 337
LmnI GCTCC 2 cut(s) 223, 481
LpnPI CCDG 9 cut(s) 12, 75, 102, 137, 181, 208, 425, 467, 540
LweI GCATC 2 cut(s) 13, 524
MabI ACCWGGT 1 cut(s) 194
MaeI CTAG 2 cut(s) 272, 450
MaeIII GTNAC 1 cut(s) 99
MalI GATC 1 cut(s) 339
MboI GATC 1 cut(s) 337
MboII GAAGA 3 cut(s) 347, 454, 454
MhlI GDGCHC 1 cut(s) 478
MlsI TGGCCA 1 cut(s) 411
MluCI AATT 5 cut(s) 170, 276, 415, 436, 468
MluNI TGGCCA 1 cut(s) 411
MlyI GAGTC 1 cut(s) 39
MnlI CCTC 6 cut(s) 117, 214, 355, 432, 501, 554
Mox20I TGGCCA 1 cut(s) 411
MscI TGGCCA 1 cut(s) 411
Msp20I TGGCCA 1 cut(s) 411
MspR9I CCNGG 2 cut(s) 90, 196
MvaI CCWGG 2 cut(s) 90, 196
MwoI GCNNNNNNNGC 2 cut(s) 15, 482
NdeII GATC 1 cut(s) 337
NlaIII CATG 3 cut(s) 38, 59, 113
NlaIV GGNNCC 2 cut(s) 219, 384
NspV TTCGAA 1 cut(s) 440
PagI TCATGA 1 cut(s) 109
PceI AGGCCT 2 cut(s) 88, 376
PfeI GAWTC 4 cut(s) 209, 453, 538, 550
PkrI GCNGC 1 cut(s) 502
PleI GAGTC 1 cut(s) 38
PpsI GAGTC 1 cut(s) 38
PpuMI RGGWCCY 1 cut(s) 383
Psp124BI GAGCTC 1 cut(s) 478
Psp5II RGGWCCY 1 cut(s) 383
Psp6I CCWGG 2 cut(s) 88, 194
PspGI CCWGG 2 cut(s) 88, 194
PspN4I GGNNCC 2 cut(s) 219, 384
PspPI GGNCC 3 cut(s) 124, 368, 383
PspPPI RGGWCCY 1 cut(s) 383
PstNI CAGNNNCTG 1 cut(s) 314
SacI GAGCTC 1 cut(s) 478
SatI GCNGC 1 cut(s) 501
Sau3AI GATC 1 cut(s) 337
Sau96I GGNCC 3 cut(s) 124, 368, 383
SchI GAGTC 1 cut(s) 39
ScrFI CCNGG 2 cut(s) 90, 196
SduI GDGCHC 1 cut(s) 478
SexAI ACCWGGT 1 cut(s) 194
SfaNI GCATC 2 cut(s) 13, 524
SfcI CTRYAG 1 cut(s) 117
SfuI TTCGAA 1 cut(s) 440
SinI GGWCC 2 cut(s) 124, 383
SmlI CTYRAG 3 cut(s) 10, 287, 545
SmoI CTYRAG 3 cut(s) 10, 287, 545
Sse9I AATT 5 cut(s) 170, 276, 415, 436, 468
SseBI AGGCCT 2 cut(s) 88, 376
SsiI CCGC 1 cut(s) 501
SspMI CTAG 2 cut(s) 272, 450
SstI GAGCTC 1 cut(s) 478
StuI AGGCCT 2 cut(s) 88, 376
StyD4I CCNGG 2 cut(s) 88, 194
StyI CCWWGG 1 cut(s) 371
TaaI ACNGT 3 cut(s) 121, 181, 316
TaqI TCGA 2 cut(s) 440, 472
TasI AATT 5 cut(s) 170, 276, 415, 436, 468
TauI GCSGC 1 cut(s) 503
TfiI GAWTC 4 cut(s) 209, 453, 538, 550
TscAI CASTG 2 cut(s) 25, 126
TspDTI ATGAA 1 cut(s) 126
TspRI CASTG 2 cut(s) 25, 126
VpaK11BI GGWCC 2 cut(s) 124, 383
XapI RAATTY 4 cut(s) 276, 415, 436, 468
XmiI GTMKAC 1 cut(s) 252
XspI CTAG 2 cut(s) 272, 450
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.