RchiOBHm_Chr4g0427681

tRNA pseudouridine synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0006793
Physical Location & Seq
Forward (+)
52870989 .. 52873409
2421 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ39659

Sequence Viewer

Length: 981 bp
ATGAGTAGCACTAGTGTATTAGTTGCAGGCCTTCCCTGTCATCCAAACCTTAACGCCACTCTTTCTTCTCCAACTCCAACTAATACATCAAACGCAAAGGATGGAGACAATTTGGTAATGAAGGTTGATGGGTTTAAGTGGCGTTTGGTTATAGCTTACGACGGCACCCGTTATGCAGGATGGCAATATCAGAGTTCACCACCTACCATACAGCGCTATGTGGAGAAAGCTCTAATGGGAGCAACGAAGCTGGAAAGGAAGGATCTTCATTTGGTTGGTGCAAGTAGGACAGATAAGGGTGTGCATGCATGGGGTCAGGTTGCACACTTTGTCACACCGTTCAACTATGACAGAATAGAAAGCATTCATGCAGCTCTCAATGGTACTCTTCCGGAGGATATCCGTGTTAGGGAAATTAGTCCTGCTGTGCCTGAATTCCATGCTCGTTTTTCAGCCCAAAGGAAGGTGTATCATTACAGAATATATAATGACACATTCATGGACCCATTTCAGCGTCACAATGCTTACCATAGTGCTCATAAGCTGAACCCTGCTGTTATGAGAGAAGCTGCGAAGTATTTTATTGGAAAGCATGATTTCTCTGCTTTTGTAAATGCATCCCAGAAGGAGCGAGTGCGGGATCCAGTAAAGGATATATTCCGTTTTGATGTTGTCCAAATGGGGGCTCTTTTACAGCTTGAAGTTGAAGGCTCGGGATTCTTATATAGACAAGTCCGGAACATGGTCGCTCTGCTACTTCAAATCGGAAGGGAAGCAGTTCCCACTGACATCATACCCAAGATATTGGCAACACGAAATCGAAGGGAGCTTGCTAAATATTCCTTGTTGGCTCCACCCCAAGGGCTTTGTCTTATGGCAGTGGAGTATAACGAGGACCATCTACGGCTTCCACCTGGTTCCCCTAACCCCAGTTTTGGTAGGCATTATACTATAAAATCTTGTAAGCTTCCATTCTACTAA
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

326

Amino Acids

36.93

Weight (kDa)

9.5

Isoelectric Point (pI)

44.26

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PseudoU_synth_1 PF01416 51 - 150 2.2e-08 tRNA pseudouridine synthase
PseudoU_synth_1 PF01416 190 - 297 1e-25 tRNA pseudouridine synthase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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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) 164
AccIII TCCGGA 2 cut(s) 391, 735
AciI CCGC 1 cut(s) 637
AclWI GGATC 3 cut(s) 270, 635, 648
AcsI RAATTY 1 cut(s) 434
AfaI GTAC 1 cut(s) 385
AfeI AGCGCT 1 cut(s) 215
AfiI CCNNNNNNNGG 6 cut(s) 409, 463, 682, 742, 860, 935
AgsI TTSAA 4 cut(s) 343, 701, 707, 761
AhlI ACTAGT 1 cut(s) 11
AjnI CCWGG 1 cut(s) 913
AluBI AGCT 9 cut(s) 155, 230, 250, 374, 544, 569, 697, 829, 967
AluI AGCT 9 cut(s) 155, 230, 250, 374, 544, 569, 697, 829, 967
Alw21I GWGCWC 1 cut(s) 538
Alw26I GTCTC 1 cut(s) 99
AlwI GGATC 3 cut(s) 270, 635, 648
Ama87I CYCGRG 1 cut(s) 712
Aor13HI TCCGGA 2 cut(s) 391, 735
Aor51HI AGCGCT 1 cut(s) 215
AoxI GGCC 1 cut(s) 28
ApeKI GCWGC 2 cut(s) 371, 569
ApoI RAATTY 1 cut(s) 434
Asp700I GAANNNNTTC 2 cut(s) 363, 777
AspLEI GCGC 1 cut(s) 216
AspS9I GGNCC 2 cut(s) 502, 895
AsuHPI GGTGA 1 cut(s) 189
AvaI CYCGRG 1 cut(s) 712
AvaII GGWCC 2 cut(s) 502, 895
BamHI GGATCC 1 cut(s) 640
BanI GGYRCC 1 cut(s) 164
BanII GRGCYC 1 cut(s) 688
Bbv12I GWGCWC 1 cut(s) 538
BbvI GCAGC 2 cut(s) 383, 556
BccI CCATC 4 cut(s) 95, 122, 174, 906
BceAI ACGGC 2 cut(s) 178, 920
BciT130I CCWGG 1 cut(s) 915
BcoDI GTCTC 1 cut(s) 99
BcuI ACTAGT 1 cut(s) 11
BfaI CTAG 1 cut(s) 12
BfoI RGCGCY 1 cut(s) 217
BisI GCNGC 2 cut(s) 372, 570
BlsI GCNGC 2 cut(s) 373, 571
Bme1390I CCNGG 1 cut(s) 915
Bme18I GGWCC 2 cut(s) 502, 895
BmeT110I CYCGRG 1 cut(s) 712
BmgT120I GGNCC 2 cut(s) 502, 895
BmiI GGNNCC 5 cut(s) 166, 504, 642, 852, 919
BmrFI CCNGG 1 cut(s) 915
BmrI ACTGGG 1 cut(s) 924
BmsI GCATC 1 cut(s) 626
BmuI ACTGGG 1 cut(s) 924
BsaJI CCNNGG 1 cut(s) 859
BsaWI WCCGGW 2 cut(s) 391, 735
Bsc4I CCNNNNNNNGG 6 cut(s) 409, 463, 682, 742, 860, 935
Bse1I ACTGG 2 cut(s) 644, 930
BseAI TCCGGA 2 cut(s) 391, 735
BseBI CCWGG 1 cut(s) 915
BseDI CCNNGG 1 cut(s) 859
BseGI GGATG 4 cut(s) 40, 106, 185, 617
BseLI CCNNNNNNNGG 6 cut(s) 409, 463, 682, 742, 860, 935
BseNI ACTGG 2 cut(s) 644, 930
BseXI GCAGC 2 cut(s) 383, 556
BshFI GGCC 1 cut(s) 30
BshNI GGYRCC 1 cut(s) 164
BsiHKAI GWGCWC 1 cut(s) 538
BsiHKCI CYCGRG 1 cut(s) 712
BsiSI CCGG 2 cut(s) 392, 736
BslI CCNNNNNNNGG 6 cut(s) 409, 463, 682, 742, 860, 935
BsmAI GTCTC 1 cut(s) 99
BsmI GAATGC 1 cut(s) 363
BsnI GGCC 1 cut(s) 30
BsoBI CYCGRG 1 cut(s) 712
Bsp1286I GDGCHC 2 cut(s) 538, 688
Bsp13I TCCGGA 2 cut(s) 391, 735
Bsp143I GATC 2 cut(s) 262, 640
BspACI CCGC 1 cut(s) 637
BspANI GGCC 1 cut(s) 30
BspEI TCCGGA 2 cut(s) 391, 735
BspLI GGNNCC 5 cut(s) 166, 504, 642, 852, 919
BspPI GGATC 3 cut(s) 270, 635, 648
BspT107I GGYRCC 1 cut(s) 164
BsrI ACTGG 2 cut(s) 644, 930
BssECI CCNNGG 1 cut(s) 859
BssMI GATC 2 cut(s) 262, 640
BssT1I CCWWGG 1 cut(s) 859
Bst2UI CCWGG 1 cut(s) 915
Bst4CI ACNGT 1 cut(s) 339
Bst6I CTCTTC 1 cut(s) 393
BstC8I GCNNGC 3 cut(s) 28, 306, 831
BstF5I GGATG 4 cut(s) 40, 106, 185, 617
BstH2I RGCGCY 1 cut(s) 217
BstHHI GCGC 1 cut(s) 216
BstKTI GATC 2 cut(s) 265, 643
BstMAI GTCTC 1 cut(s) 99
BstMBI GATC 2 cut(s) 262, 640
BstNI CCWGG 1 cut(s) 915
BstNSI RCATGY 1 cut(s) 308
BstSCI CCNGG 1 cut(s) 913
BstV1I GCAGC 2 cut(s) 383, 556
BstX2I RGATCY 2 cut(s) 262, 640
BstXI CCANNNNNNTGG 1 cut(s) 805
BstYI RGATCY 2 cut(s) 262, 640
BsuRI GGCC 1 cut(s) 30
BtsCI GGATG 4 cut(s) 40, 106, 185, 617
BtsI GCAGTG 1 cut(s) 885
BtsIMutI CAGTG 2 cut(s) 783, 885
Cac8I GCNNGC 3 cut(s) 28, 306, 831
CfoI GCGC 1 cut(s) 216
Cfr13I GGNCC 2 cut(s) 502, 895
CseI GACGC 1 cut(s) 503
CsiI ACCWGGT 1 cut(s) 913
Csp6I GTAC 1 cut(s) 384
CviAII CATG 7 cut(s) 305, 309, 368, 440, 499, 593, 742
CviQI GTAC 1 cut(s) 384
DpnI GATC 2 cut(s) 264, 642
DpnII GATC 2 cut(s) 262, 640
Eam1104I CTCTTC 1 cut(s) 393
EarI CTCTTC 1 cut(s) 393
Eco130I CCWWGG 1 cut(s) 859
Eco147I AGGCCT 1 cut(s) 30
Eco24I GRGCYC 1 cut(s) 688
Eco32I GATATC 1 cut(s) 400
Eco47I GGWCC 2 cut(s) 502, 895
Eco47III AGCGCT 1 cut(s) 215
Eco88I CYCGRG 1 cut(s) 712
EcoRI GAATTC 1 cut(s) 434
EcoRII CCWGG 1 cut(s) 913
EcoRV GATATC 1 cut(s) 400
EcoT14I CCWWGG 1 cut(s) 859
EcoT22I ATGCAT 2 cut(s) 310, 619
EcoT38I GRGCYC 1 cut(s) 688
ErhI CCWWGG 1 cut(s) 859
FaeI CATG 7 cut(s) 308, 312, 371, 443, 502, 596, 745
FatI CATG 7 cut(s) 304, 308, 367, 439, 498, 592, 741
FauI CCCGC 1 cut(s) 630
Fnu4HI GCNGC 2 cut(s) 372, 570
FokI GGATG 4 cut(s) 27, 113, 192, 604
FriOI GRGCYC 1 cut(s) 688
Fsp4HI GCNGC 2 cut(s) 372, 570
FspBI CTAG 1 cut(s) 12
GlaI GCGC 1 cut(s) 215
GluI GCNGC 2 cut(s) 372, 570
HaeII RGCGCY 1 cut(s) 217
HaeIII GGCC 1 cut(s) 30
HapII CCGG 2 cut(s) 392, 736
HgaI GACGC 1 cut(s) 503
HhaI GCGC 1 cut(s) 216
Hin1II CATG 7 cut(s) 308, 312, 371, 443, 502, 596, 745
Hin6I GCGC 1 cut(s) 214
HinP1I GCGC 1 cut(s) 214
HindIII AAGCTT 1 cut(s) 965
HinfI GANTC 1 cut(s) 717
HpaII CCGG 2 cut(s) 392, 736
HphI GGTGA 1 cut(s) 189
Hpy166II GTNNAC 1 cut(s) 197
Hpy188I TCNGA 2 cut(s) 192, 767
Hpy188III TCNNGA 3 cut(s) 392, 714, 736
Hpy8I GTNNAC 1 cut(s) 197
Hpy99I CGWCG 1 cut(s) 164
HpyAV CCTTC 8 cut(s) 41, 115, 253, 457, 619, 701, 762, 816
HpyCH4III ACNGT 1 cut(s) 339
HpyCH4V TGCA 8 cut(s) 26, 176, 281, 304, 308, 323, 371, 617
Hsp92II CATG 7 cut(s) 308, 312, 371, 443, 502, 596, 745
HspAI GCGC 1 cut(s) 214
Kpn2I TCCGGA 2 cut(s) 391, 735
Kzo9I GATC 2 cut(s) 262, 640
LmnI GCTCC 4 cut(s) 239, 628, 826, 856
Lsp1109I GCAGC 2 cut(s) 383, 556
LweI GCATC 1 cut(s) 626
MabI ACCWGGT 1 cut(s) 913
MaeI CTAG 1 cut(s) 12
MaeIII GTNAC 2 cut(s) 331, 515
MalI GATC 2 cut(s) 264, 642
MboI GATC 2 cut(s) 262, 640
MboII GAAGA 3 cut(s) 57, 257, 380
MflI RGATCY 2 cut(s) 262, 640
MhlI GDGCHC 2 cut(s) 538, 688
MluCI AATT 3 cut(s) 109, 414, 434
MmeI TCCRAC 2 cut(s) 95, 101
MnlI CCTC 2 cut(s) 388, 886
Mph1103I ATGCAT 2 cut(s) 310, 619
MroI TCCGGA 2 cut(s) 391, 735
MroXI GAANNNNTTC 2 cut(s) 363, 777
MseI TTAA 2 cut(s) 51, 135
MslI CAYNNNNRTG 1 cut(s) 497
MspI CCGG 2 cut(s) 392, 736
MspR9I CCNGG 1 cut(s) 915
Mva1269I GAATGC 1 cut(s) 363
MvaI CCWGG 1 cut(s) 915
NdeII GATC 2 cut(s) 262, 640
NlaIII CATG 7 cut(s) 308, 312, 371, 443, 502, 596, 745
NlaIV GGNNCC 5 cut(s) 166, 504, 642, 852, 919
NmuCI GTSAC 2 cut(s) 331, 515
NsiI ATGCAT 2 cut(s) 310, 619
NspI RCATGY 1 cut(s) 308
PaeI GCATGC 1 cut(s) 308
PceI AGGCCT 1 cut(s) 30
PctI GAATGC 1 cut(s) 363
PdmI GAANNNNTTC 2 cut(s) 363, 777
PfeI GAWTC 1 cut(s) 717
PkrI GCNGC 2 cut(s) 373, 571
Psp6I CCWGG 1 cut(s) 913
PspGI CCWGG 1 cut(s) 913
PspN4I GGNNCC 5 cut(s) 166, 504, 642, 852, 919
PspPI GGNCC 2 cut(s) 502, 895
PsuI RGATCY 2 cut(s) 262, 640
RsaI GTAC 1 cut(s) 385
RsaNI GTAC 1 cut(s) 384
RseI CAYNNNNRTG 1 cut(s) 497
SaqAI TTAA 2 cut(s) 51, 135
SatI GCNGC 2 cut(s) 372, 570
Sau3AI GATC 2 cut(s) 262, 640
Sau96I GGNCC 2 cut(s) 502, 895
ScrFI CCNGG 1 cut(s) 915
SduI GDGCHC 2 cut(s) 538, 688
SexAI ACCWGGT 1 cut(s) 913
SfaNI GCATC 1 cut(s) 626
SinI GGWCC 2 cut(s) 502, 895
SmiMI CAYNNNNRTG 1 cut(s) 497
SpeI ACTAGT 1 cut(s) 11
SphI GCATGC 1 cut(s) 308
Sse9I AATT 3 cut(s) 109, 414, 434
SseBI AGGCCT 1 cut(s) 30
SsiI CCGC 1 cut(s) 637
SspI AATATT 1 cut(s) 839
SspMI CTAG 1 cut(s) 12
StuI AGGCCT 1 cut(s) 30
StyD4I CCNGG 1 cut(s) 913
StyI CCWWGG 1 cut(s) 859
TaaI ACNGT 1 cut(s) 339
TaqI TCGA 1 cut(s) 820
TasI AATT 3 cut(s) 109, 414, 434
TfiI GAWTC 1 cut(s) 717
Tru1I TTAA 2 cut(s) 51, 135
Tru9I TTAA 2 cut(s) 51, 135
TscAI CASTG 2 cut(s) 790, 885
TseFI GTSAC 2 cut(s) 331, 515
TseI GCWGC 2 cut(s) 371, 569
Tsp45I GTSAC 2 cut(s) 331, 515
TspDTI ATGAA 4 cut(s) 134, 257, 356, 487
TspGWI ACGGA 2 cut(s) 392, 650
TspRI CASTG 2 cut(s) 790, 885
VpaK11BI GGWCC 2 cut(s) 502, 895
XapI RAATTY 1 cut(s) 434
XceI RCATGY 1 cut(s) 308
XmnI GAANNNNTTC 2 cut(s) 363, 777
XspI CTAG 1 cut(s) 12
Zsp2I ATGCAT 2 cut(s) 310, 619
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.