Rw4G023920

tRNA pseudouridine synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr4
OG0006793
Physical Location & Seq
Forward (+)
49687243 .. 49689517
2275 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G023920.1

Sequence Viewer

Length: 987 bp
ATGAGTGGCACTAGTGTATTAGTTGCAGGCCTTCCCTGTCATCCAAACCTTAACGCCACTCTTTCTTCTCCAACTCCAACTCCAACTAATACATCAAACGCAAAGGATGGAGACAATTTGGTAATGAAGGTTGATGGGTTTAAGTGGCGTTTGGTTATAGCGTACGACGGCACCCGTTATTCAGGATGGCAATATCAGAGTTCACCACCTACTATACAGCGCTATGTGGAGAAAGCTCTAATGGGAGCAACGAACCTGGAAAGGAAGGATCTTCATTTGGTTGGTGCAAGTAGGACAGATAAGGGTGTGCATGCTTGGGGTCAGGTTGCACACTTTGTCACACCGTTCAACTATGACAGAATAGAAAGCATTCATGCAGCTCTCAATGGTACTCTTCCGGAGGATATCCGTGTTAGGGAAATTAGTCCTGCTGTGCCTGAATTCCATGCTCGTTTTTCAGCCCAAAGGAAGGTGTATCATTACAGAATATATAATGACACATTCATGGACCCATTTCAGCGTCACAATGCTTACCATAGTGCTCATAAGTTGAACCCTGCTGTTATGAGAGAAGCTGCGAAGTATTTTATTGGAAAGCATGATTTCTCTGCTTTTGTAAATGCATCCCAGAAGGAGCGAGTGCGGGATCCAGTAAAGGATATATTCCGTTTTGATGTTGTCCAAATGGGGGCTCTTTTACAGCTTGAAGTTGAAGGCTCGGGATTCTTATATAGACAAGTCCGGAACATGGTCGCTCTGCTACTTCAAATCGGAAGGGAAGCAGTTCCCCCTGACATCATACCCAAGATATTGGCAACACGAAATCGAAGGGAGCTTGCTAAATATTCCTTGTTGGCTCCACCTCAAGGGCTTTGTCTTATGGCAGTCGAGTATAACGAGGACCATCTACGGCTTCCACCTGGTTCCCCTAACCCCAGTTTTGGTAGGCATTATACTATAAAATCTTGTAAGCTTCCATTCTACTAA
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

328

Amino Acids

37.09

Weight (kDa)

9.44

Isoelectric Point (pI)

42.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PseudoU_synth_1 PF01416 53 - 152 1.1e-08 tRNA pseudouridine synthase
PseudoU_synth_1 PF01416 192 - 299 2.2e-26 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) 170
AccIII TCCGGA 2 cut(s) 397, 741
AciI CCGC 1 cut(s) 643
AclWI GGATC 3 cut(s) 276, 641, 654
AcsI RAATTY 1 cut(s) 440
AfaI GTAC 2 cut(s) 164, 391
AfeI AGCGCT 1 cut(s) 221
AfiI CCNNNNNNNGG 6 cut(s) 415, 469, 688, 748, 866, 941
AgsI TTSAA 5 cut(s) 349, 553, 707, 713, 767
AhlI ACTAGT 1 cut(s) 11
AjnI CCWGG 2 cut(s) 255, 919
AluBI AGCT 6 cut(s) 236, 380, 575, 703, 835, 973
AluI AGCT 6 cut(s) 236, 380, 575, 703, 835, 973
Alw21I GWGCWC 1 cut(s) 544
Alw26I GTCTC 1 cut(s) 105
AlwI GGATC 3 cut(s) 276, 641, 654
Ama87I CYCGRG 1 cut(s) 718
Aor13HI TCCGGA 2 cut(s) 397, 741
Aor51HI AGCGCT 1 cut(s) 221
AoxI GGCC 1 cut(s) 28
ApeKI GCWGC 2 cut(s) 377, 575
ApoI RAATTY 1 cut(s) 440
Asp700I GAANNNNTTC 2 cut(s) 369, 783
AspLEI GCGC 1 cut(s) 222
AspS9I GGNCC 2 cut(s) 508, 901
AsuHPI GGTGA 1 cut(s) 195
AvaI CYCGRG 1 cut(s) 718
AvaII GGWCC 2 cut(s) 508, 901
BamHI GGATCC 1 cut(s) 646
BanI GGYRCC 1 cut(s) 170
BanII GRGCYC 1 cut(s) 694
Bbv12I GWGCWC 1 cut(s) 544
BbvI GCAGC 2 cut(s) 389, 562
BccI CCATC 4 cut(s) 101, 128, 180, 912
BceAI ACGGC 2 cut(s) 184, 926
BciT130I CCWGG 2 cut(s) 257, 921
BcoDI GTCTC 1 cut(s) 105
BcuI ACTAGT 1 cut(s) 11
BfaI CTAG 1 cut(s) 12
BfoI RGCGCY 1 cut(s) 223
BisI GCNGC 2 cut(s) 378, 576
BlsI GCNGC 2 cut(s) 379, 577
Bme1390I CCNGG 2 cut(s) 257, 921
Bme18I GGWCC 2 cut(s) 508, 901
BmeT110I CYCGRG 1 cut(s) 718
BmgT120I GGNCC 2 cut(s) 508, 901
BmiI GGNNCC 5 cut(s) 172, 510, 648, 858, 925
BmrFI CCNGG 2 cut(s) 257, 921
BmrI ACTGGG 1 cut(s) 930
BmsI GCATC 1 cut(s) 632
BmuI ACTGGG 1 cut(s) 930
BpuEI CTTGAG 1 cut(s) 849
BsaWI WCCGGW 2 cut(s) 397, 741
BsaXI ACNNNNNCTCC 2 cut(s) 64, 94
Bsc4I CCNNNNNNNGG 6 cut(s) 415, 469, 688, 748, 866, 941
Bse1I ACTGG 2 cut(s) 650, 936
BseAI TCCGGA 2 cut(s) 397, 741
BseBI CCWGG 2 cut(s) 257, 921
BseGI GGATG 4 cut(s) 40, 112, 191, 623
BseLI CCNNNNNNNGG 6 cut(s) 415, 469, 688, 748, 866, 941
BseNI ACTGG 2 cut(s) 650, 936
BseXI GCAGC 2 cut(s) 389, 562
BshFI GGCC 1 cut(s) 30
BshNI GGYRCC 1 cut(s) 170
BsiHKAI GWGCWC 1 cut(s) 544
BsiHKCI CYCGRG 1 cut(s) 718
BsiSI CCGG 2 cut(s) 398, 742
BsiWI CGTACG 1 cut(s) 162
BslI CCNNNNNNNGG 6 cut(s) 415, 469, 688, 748, 866, 941
BsmAI GTCTC 1 cut(s) 105
BsmI GAATGC 1 cut(s) 369
BsnI GGCC 1 cut(s) 30
BsoBI CYCGRG 1 cut(s) 718
Bsp1286I GDGCHC 2 cut(s) 544, 694
Bsp13I TCCGGA 2 cut(s) 397, 741
Bsp143I GATC 2 cut(s) 268, 646
BspACI CCGC 1 cut(s) 643
BspANI GGCC 1 cut(s) 30
BspEI TCCGGA 2 cut(s) 397, 741
BspLI GGNNCC 5 cut(s) 172, 510, 648, 858, 925
BspPI GGATC 3 cut(s) 276, 641, 654
BspT107I GGYRCC 1 cut(s) 170
BsrI ACTGG 2 cut(s) 650, 936
BssMI GATC 2 cut(s) 268, 646
Bst2UI CCWGG 2 cut(s) 257, 921
Bst4CI ACNGT 1 cut(s) 345
Bst6I CTCTTC 1 cut(s) 399
BstC8I GCNNGC 3 cut(s) 28, 312, 837
BstF5I GGATG 4 cut(s) 40, 112, 191, 623
BstH2I RGCGCY 1 cut(s) 223
BstHHI GCGC 1 cut(s) 222
BstKTI GATC 2 cut(s) 271, 649
BstMAI GTCTC 1 cut(s) 105
BstMBI GATC 2 cut(s) 268, 646
BstNI CCWGG 2 cut(s) 257, 921
BstNSI RCATGY 1 cut(s) 314
BstSCI CCNGG 2 cut(s) 255, 919
BstV1I GCAGC 2 cut(s) 389, 562
BstX2I RGATCY 2 cut(s) 268, 646
BstXI CCANNNNNNTGG 1 cut(s) 811
BstYI RGATCY 2 cut(s) 268, 646
BsuRI GGCC 1 cut(s) 30
BtsCI GGATG 4 cut(s) 40, 112, 191, 623
Cac8I GCNNGC 3 cut(s) 28, 312, 837
CfoI GCGC 1 cut(s) 222
Cfr13I GGNCC 2 cut(s) 508, 901
CseI GACGC 1 cut(s) 509
CsiI ACCWGGT 1 cut(s) 919
Csp6I GTAC 2 cut(s) 163, 390
CviAII CATG 6 cut(s) 311, 374, 446, 505, 599, 748
CviQI GTAC 2 cut(s) 163, 390
DpnI GATC 2 cut(s) 270, 648
DpnII GATC 2 cut(s) 268, 646
Eam1104I CTCTTC 1 cut(s) 399
EarI CTCTTC 1 cut(s) 399
Eco147I AGGCCT 1 cut(s) 30
Eco24I GRGCYC 1 cut(s) 694
Eco32I GATATC 1 cut(s) 406
Eco47I GGWCC 2 cut(s) 508, 901
Eco47III AGCGCT 1 cut(s) 221
Eco88I CYCGRG 1 cut(s) 718
EcoRI GAATTC 1 cut(s) 440
EcoRII CCWGG 2 cut(s) 255, 919
EcoRV GATATC 1 cut(s) 406
EcoT22I ATGCAT 1 cut(s) 625
EcoT38I GRGCYC 1 cut(s) 694
FaeI CATG 6 cut(s) 314, 377, 449, 508, 602, 751
FatI CATG 6 cut(s) 310, 373, 445, 504, 598, 747
FauI CCCGC 1 cut(s) 636
Fnu4HI GCNGC 2 cut(s) 378, 576
FokI GGATG 4 cut(s) 27, 119, 198, 610
FriOI GRGCYC 1 cut(s) 694
Fsp4HI GCNGC 2 cut(s) 378, 576
FspBI CTAG 1 cut(s) 12
GlaI GCGC 1 cut(s) 221
GluI GCNGC 2 cut(s) 378, 576
HaeII RGCGCY 1 cut(s) 223
HaeIII GGCC 1 cut(s) 30
HapII CCGG 2 cut(s) 398, 742
HgaI GACGC 1 cut(s) 509
HhaI GCGC 1 cut(s) 222
Hin1II CATG 6 cut(s) 314, 377, 449, 508, 602, 751
Hin6I GCGC 1 cut(s) 220
HinP1I GCGC 1 cut(s) 220
HindIII AAGCTT 1 cut(s) 971
HinfI GANTC 1 cut(s) 723
HpaII CCGG 2 cut(s) 398, 742
HphI GGTGA 1 cut(s) 195
Hpy166II GTNNAC 1 cut(s) 203
Hpy188I TCNGA 2 cut(s) 198, 773
Hpy188III TCNNGA 4 cut(s) 183, 398, 720, 742
Hpy8I GTNNAC 1 cut(s) 203
Hpy99I CGWCG 1 cut(s) 170
HpyAV CCTTC 8 cut(s) 41, 121, 259, 463, 625, 707, 768, 822
HpyCH4III ACNGT 1 cut(s) 345
HpyCH4V TGCA 6 cut(s) 26, 287, 310, 329, 377, 623
Hsp92II CATG 6 cut(s) 314, 377, 449, 508, 602, 751
HspAI GCGC 1 cut(s) 220
Kpn2I TCCGGA 2 cut(s) 397, 741
Kzo9I GATC 2 cut(s) 268, 646
LmnI GCTCC 4 cut(s) 245, 634, 832, 862
Lsp1109I GCAGC 2 cut(s) 389, 562
LweI GCATC 1 cut(s) 632
MabI ACCWGGT 1 cut(s) 919
MaeI CTAG 1 cut(s) 12
MaeIII GTNAC 2 cut(s) 337, 521
MalI GATC 2 cut(s) 270, 648
MboI GATC 2 cut(s) 268, 646
MboII GAAGA 3 cut(s) 57, 263, 386
MflI RGATCY 2 cut(s) 268, 646
MhlI GDGCHC 2 cut(s) 544, 694
MluCI AATT 3 cut(s) 115, 420, 440
MmeI TCCRAC 3 cut(s) 95, 101, 107
MnlI CCTC 3 cut(s) 394, 873, 892
Mph1103I ATGCAT 1 cut(s) 625
MroI TCCGGA 2 cut(s) 397, 741
MroXI GAANNNNTTC 2 cut(s) 369, 783
MseI TTAA 2 cut(s) 51, 141
MslI CAYNNNNRTG 1 cut(s) 503
MspI CCGG 2 cut(s) 398, 742
MspR9I CCNGG 2 cut(s) 257, 921
Mva1269I GAATGC 1 cut(s) 369
MvaI CCWGG 2 cut(s) 257, 921
NdeII GATC 2 cut(s) 268, 646
NlaIII CATG 6 cut(s) 314, 377, 449, 508, 602, 751
NlaIV GGNNCC 5 cut(s) 172, 510, 648, 858, 925
NmuCI GTSAC 2 cut(s) 337, 521
NsiI ATGCAT 1 cut(s) 625
NspI RCATGY 1 cut(s) 314
PaeI GCATGC 1 cut(s) 314
PceI AGGCCT 1 cut(s) 30
PcsI WCGNNNNNNNCGW 1 cut(s) 894
PctI GAATGC 1 cut(s) 369
PdmI GAANNNNTTC 2 cut(s) 369, 783
PfeI GAWTC 1 cut(s) 723
Pfl23II CGTACG 1 cut(s) 162
PkrI GCNGC 2 cut(s) 379, 577
Psp6I CCWGG 2 cut(s) 255, 919
PspGI CCWGG 2 cut(s) 255, 919
PspLI CGTACG 1 cut(s) 162
PspN4I GGNNCC 5 cut(s) 172, 510, 648, 858, 925
PspPI GGNCC 2 cut(s) 508, 901
PsuI RGATCY 2 cut(s) 268, 646
RsaI GTAC 2 cut(s) 164, 391
RsaNI GTAC 2 cut(s) 163, 390
RseI CAYNNNNRTG 1 cut(s) 503
SaqAI TTAA 2 cut(s) 51, 141
SatI GCNGC 2 cut(s) 378, 576
Sau3AI GATC 2 cut(s) 268, 646
Sau96I GGNCC 2 cut(s) 508, 901
ScrFI CCNGG 2 cut(s) 257, 921
SduI GDGCHC 2 cut(s) 544, 694
SexAI ACCWGGT 1 cut(s) 919
SfaNI GCATC 1 cut(s) 632
SinI GGWCC 2 cut(s) 508, 901
SmiMI CAYNNNNRTG 1 cut(s) 503
SmlI CTYRAG 1 cut(s) 864
SmoI CTYRAG 1 cut(s) 864
SpeI ACTAGT 1 cut(s) 11
SphI GCATGC 1 cut(s) 314
Sse9I AATT 3 cut(s) 115, 420, 440
SseBI AGGCCT 1 cut(s) 30
SsiI CCGC 1 cut(s) 643
SspI AATATT 1 cut(s) 845
SspMI CTAG 1 cut(s) 12
StuI AGGCCT 1 cut(s) 30
StyD4I CCNGG 2 cut(s) 255, 919
TaaI ACNGT 1 cut(s) 345
TaqI TCGA 2 cut(s) 826, 888
TasI AATT 3 cut(s) 115, 420, 440
TfiI GAWTC 1 cut(s) 723
Tru1I TTAA 2 cut(s) 51, 141
Tru9I TTAA 2 cut(s) 51, 141
TseFI GTSAC 2 cut(s) 337, 521
TseI GCWGC 2 cut(s) 377, 575
Tsp45I GTSAC 2 cut(s) 337, 521
TspDTI ATGAA 4 cut(s) 140, 263, 362, 493
TspGWI ACGGA 2 cut(s) 398, 656
VpaK11BI GGWCC 2 cut(s) 508, 901
XapI RAATTY 1 cut(s) 440
XceI RCATGY 1 cut(s) 314
XmnI GAANNNNTTC 2 cut(s) 369, 783
XspI CTAG 1 cut(s) 12
Zsp2I ATGCAT 1 cut(s) 625
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.