Rroxscaffold_5G00347570

tRNA-specific 2-thiouridylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0009292
Physical Location & Seq
Reverse (-)
19082137 .. 19086317
4181 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00347570.1

Sequence Viewer

Length: 552 bp
ATGTTTCTGAAAAAAATTGCTCAAGAGAATATTTACAGAAATAATTCGGACCAGGCCTGGGCAGAAAACCGAAATGATCATAAAAACAGTTTGAACGGGACCGATTTTTCCGGTTCGATCAAATGGATAAGGATTCTACTTTGGAACTATCGAAGACATGGTGAAGGATCGACATACTTCCTTTCACATCTTTCTCGGGACCAGCTTAAGAGATTAATATTTCCACTTGGTTGTCCGTCAAAGGATAAAGTTCATAAACTTGCCACGAAGTTTGATCTGCCTAACAAAGAGAGAAAGGATTCACAAGGAATTTGCTTTCTTGGTAAGATAAGGTTCACCGATTTTATTGGAAGACACATAGGGGAAAAGGAAGATGTCCCGGTGGTTGTTGATTCGAAGACTATCATGTACTTGCTAGAATATCTTAAAGCGGACGGTGATGATCAACACTTCCGAAGAAACCTTGCGTGGAAGGCTTTTCAACTTCTTATGATTCTGCTGTTTCGAGTGGCTTTGGAGGCGAAATCGAAGATAAATTCCCTCCTACCTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00561 ko00564 ko01100 ko01110 ko04072 map00561 map00564 map01100 map01110 map04072
Pfam Domains
Protein Families
tRNA_Me_trans

Protein Analysis

183

Amino Acids

21.43

Weight (kDa)

9.67

Isoelectric Point (pI)

36.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
tRNA_Me_trans PF03054 57 - 109 1.4e-15 tRNA methyl transferase HUP 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 431
AclWI GGATC 1 cut(s) 175
AcsI RAATTY 2 cut(s) 309, 535
AfaI GTAC 1 cut(s) 410
AfiI CCNNNNNNNGG 1 cut(s) 58
AflII CTTAAG 1 cut(s) 206
AgsI TTSAA 2 cut(s) 94, 482
AjnI CCWGG 2 cut(s) 51, 56
AluBI AGCT 1 cut(s) 205
AluI AGCT 1 cut(s) 205
AlwI GGATC 1 cut(s) 175
Ama87I CYCGRG 1 cut(s) 195
AoxI GGCC 1 cut(s) 54
ApoI RAATTY 2 cut(s) 309, 535
AseI ATTAAT 1 cut(s) 215
Asp700I GAANNNNTTC 2 cut(s) 43, 298
AspS9I GGNCC 3 cut(s) 49, 99, 199
AsuC2I CCSGG 1 cut(s) 380
AsuHPI GGTGA 3 cut(s) 173, 328, 449
AsuII TTCGAA 1 cut(s) 395
AvaI CYCGRG 1 cut(s) 195
AvaII GGWCC 3 cut(s) 49, 99, 199
BbsI GAAGAC 3 cut(s) 160, 358, 404
BciT130I CCWGG 2 cut(s) 53, 58
BclI TGATCA 2 cut(s) 76, 442
BcnI CCSGG 1 cut(s) 380
BfaI CTAG 1 cut(s) 416
BfrI CTTAAG 1 cut(s) 206
Bme1390I CCNGG 3 cut(s) 53, 58, 380
Bme18I GGWCC 3 cut(s) 49, 99, 199
BmeT110I CYCGRG 1 cut(s) 195
BmgT120I GGNCC 3 cut(s) 49, 99, 199
BmiI GGNNCC 2 cut(s) 100, 200
BmrFI CCNGG 3 cut(s) 53, 58, 380
BpiI GAAGAC 3 cut(s) 160, 358, 404
Bpu14I TTCGAA 1 cut(s) 395
BpuEI CTTGAG 1 cut(s) 6
BpuMI CCSGG 1 cut(s) 380
BsaJI CCNNGG 1 cut(s) 57
BsaWI WCCGGW 1 cut(s) 110
Bsc4I CCNNNNNNNGG 1 cut(s) 58
BseBI CCWGG 2 cut(s) 53, 58
BseDI CCNNGG 1 cut(s) 57
BseLI CCNNNNNNNGG 1 cut(s) 58
BshFI GGCC 1 cut(s) 56
BsiHKCI CYCGRG 1 cut(s) 195
BsiSI CCGG 2 cut(s) 111, 380
BslFI GGGAC 3 cut(s) 112, 212, 362
BslI CCNNNNNNNGG 1 cut(s) 58
BsmFI GGGAC 3 cut(s) 112, 212, 362
BsnI GGCC 1 cut(s) 56
BsoBI CYCGRG 1 cut(s) 195
Bsp119I TTCGAA 1 cut(s) 395
Bsp143I GATC 5 cut(s) 76, 117, 167, 274, 442
BspACI CCGC 1 cut(s) 431
BspANI GGCC 1 cut(s) 56
BspLI GGNNCC 2 cut(s) 100, 200
BspPI GGATC 1 cut(s) 175
BspT104I TTCGAA 1 cut(s) 395
BspTI CTTAAG 1 cut(s) 206
BssECI CCNNGG 1 cut(s) 57
BssMI GATC 5 cut(s) 76, 117, 167, 274, 442
Bst2UI CCWGG 2 cut(s) 53, 58
Bst4CI ACNGT 2 cut(s) 89, 437
BstAFI CTTAAG 1 cut(s) 206
BstBI TTCGAA 1 cut(s) 395
BstKTI GATC 5 cut(s) 79, 120, 170, 277, 445
BstMBI GATC 5 cut(s) 76, 117, 167, 274, 442
BstMWI GCNNNNNNNGC 2 cut(s) 473, 518
BstNI CCWGG 2 cut(s) 53, 58
BstSCI CCNGG 3 cut(s) 51, 56, 378
BstV2I GAAGAC 3 cut(s) 160, 358, 404
BsuRI GGCC 1 cut(s) 56
Cfr13I GGNCC 3 cut(s) 49, 99, 199
Csp6I GTAC 1 cut(s) 409
CspCI CAANNNNNGTGG 2 cut(s) 253, 288
CviAII CATG 2 cut(s) 158, 406
CviJI RGCY 4 cut(s) 56, 205, 476, 512
CviKI_1 RGCY 4 cut(s) 56, 205, 476, 512
CviQI GTAC 1 cut(s) 409
DpnI GATC 5 cut(s) 78, 119, 169, 276, 444
DpnII GATC 5 cut(s) 76, 117, 167, 274, 442
Eco147I AGGCCT 1 cut(s) 56
Eco47I GGWCC 3 cut(s) 49, 99, 199
Eco88I CYCGRG 1 cut(s) 195
EcoRII CCWGG 2 cut(s) 51, 56
FaeI CATG 2 cut(s) 161, 409
FaiI YATR 7 cut(s) 81, 159, 175, 255, 359, 407, 491
FaqI GGGAC 3 cut(s) 112, 212, 362
FatI CATG 2 cut(s) 157, 405
FbaI TGATCA 2 cut(s) 76, 442
FspBI CTAG 1 cut(s) 416
HaeIII GGCC 1 cut(s) 56
HapII CCGG 2 cut(s) 111, 380
Hin1II CATG 2 cut(s) 161, 409
HinfI GANTC 4 cut(s) 133, 299, 392, 493
HpaII CCGG 2 cut(s) 111, 380
HphI GGTGA 3 cut(s) 173, 328, 449
Hpy166II GTNNAC 1 cut(s) 336
Hpy188I TCNGA 3 cut(s) 9, 49, 455
Hpy188III TCNNGA 2 cut(s) 23, 197
Hpy8I GTNNAC 1 cut(s) 336
HpyAV CCTTC 2 cut(s) 158, 466
HpyCH4III ACNGT 2 cut(s) 89, 437
HpyF10VI GCNNNNNNNGC 2 cut(s) 473, 518
Hsp92II CATG 2 cut(s) 161, 409
Ksp22I TGATCA 2 cut(s) 76, 442
Kzo9I GATC 5 cut(s) 76, 117, 167, 274, 442
LpnPI CCDG 7 cut(s) 38, 43, 65, 70, 124, 215, 393
MaeI CTAG 1 cut(s) 416
MalI GATC 5 cut(s) 78, 119, 169, 276, 444
MboI GATC 5 cut(s) 76, 117, 167, 274, 442
MboII GAAGA 6 cut(s) 165, 363, 383, 409, 468, 541
MluCI AATT 4 cut(s) 15, 43, 309, 535
MnlI CCTC 2 cut(s) 511, 551
MroXI GAANNNNTTC 2 cut(s) 43, 298
MseI TTAA 4 cut(s) 207, 215, 426, 550
MspCI CTTAAG 1 cut(s) 206
MspI CCGG 2 cut(s) 111, 380
MspR9I CCNGG 3 cut(s) 53, 58, 380
MvaI CCWGG 2 cut(s) 53, 58
MwoI GCNNNNNNNGC 2 cut(s) 473, 518
NciI CCSGG 1 cut(s) 380
NdeII GATC 5 cut(s) 76, 117, 167, 274, 442
NlaIII CATG 2 cut(s) 161, 409
NlaIV GGNNCC 2 cut(s) 100, 200
NspV TTCGAA 1 cut(s) 395
PceI AGGCCT 1 cut(s) 56
PdmI GAANNNNTTC 2 cut(s) 43, 298
PfeI GAWTC 4 cut(s) 133, 299, 392, 493
PshBI ATTAAT 1 cut(s) 215
Psp6I CCWGG 2 cut(s) 51, 56
PspGI CCWGG 2 cut(s) 51, 56
PspN4I GGNNCC 2 cut(s) 100, 200
PspPI GGNCC 3 cut(s) 49, 99, 199
RsaI GTAC 1 cut(s) 410
RsaNI GTAC 1 cut(s) 409
SaqAI TTAA 4 cut(s) 207, 215, 426, 550
Sau3AI GATC 5 cut(s) 76, 117, 167, 274, 442
Sau96I GGNCC 3 cut(s) 49, 99, 199
ScrFI CCNGG 3 cut(s) 53, 58, 380
SetI ASST 4 cut(s) 207, 335, 465, 550
SfuI TTCGAA 1 cut(s) 395
SinI GGWCC 3 cut(s) 49, 99, 199
SmlI CTYRAG 2 cut(s) 21, 206
SmoI CTYRAG 2 cut(s) 21, 206
Sse9I AATT 4 cut(s) 15, 43, 309, 535
SseBI AGGCCT 1 cut(s) 56
SsiI CCGC 1 cut(s) 431
SspI AATATT 2 cut(s) 31, 219
SspMI CTAG 1 cut(s) 416
StuI AGGCCT 1 cut(s) 56
StyD4I CCNGG 3 cut(s) 51, 56, 378
TaaI ACNGT 2 cut(s) 89, 437
TaqI TCGA 6 cut(s) 116, 151, 170, 395, 505, 527
TaqII GACCGA 1 cut(s) 116
TasI AATT 4 cut(s) 15, 43, 309, 535
TatI WGTACW 1 cut(s) 408
TfiI GAWTC 4 cut(s) 133, 299, 392, 493
Tru1I TTAA 4 cut(s) 207, 215, 426, 550
Tru9I TTAA 4 cut(s) 207, 215, 426, 550
TspDTI ATGAA 1 cut(s) 242
TspGWI ACGGA 1 cut(s) 225
Vha464I CTTAAG 1 cut(s) 206
VpaK11BI GGWCC 3 cut(s) 49, 99, 199
VspI ATTAAT 1 cut(s) 215
XapI RAATTY 2 cut(s) 309, 535
XmnI GAANNNNTTC 2 cut(s) 43, 298
XspI CTAG 1 cut(s) 416
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.