Rorug04G0219400

tRNA pseudouridine synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0006793
Physical Location & Seq
Reverse (-)
37845267 .. 37846493
1227 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0219400.1

Sequence Viewer

Length: 789 bp
ATGGCAATATCCAGGAGGAGACTTTGTCGACTAAACAATATACAGACAAAATTCAAGGTTGGGCCATTTGGATCAGAAACTGGAGGGGAAATTTTTGATGATGGTATTTACTCAACAGTGAGGCAGTTGGTGATAAATTATAGATCGTCCAATGTTGATTCCATCAGGATTGAATATGATGACAATGGGAGCTCATTTTGGTCGGACCAACATGGTTCCAGCCTGCTTTCTAGCAAAACAGACACGATCAAGCTTGATTATCCGGACGAATTTTTGACTTCAGTTCATGGACATTATGATAAGCTGTGGTACTTGCCGACCAATGTTTGCTCCCTTACTTTCAAGAGCAACAAGAAGAGTTATGGACCATATGGAAAGGAAGTAGGAAGATTGTTTTCAATTCAAGTGCCTGGGAGTAAGATTGTTGGCTTTCATGGCAGGTCTTCCACTTATATGGAAATTCGGGCAATAGGTGCTCACCTAAAGCCTCTTGATCATCACGAGAATGAAAAGTACCTCCAGTCAAAACCTCTCGAGCTTAAAGACTCTTCAGTGGTGGTACAAAATGTGTCGACGCCTCTACTTCTAGATGGATATCCTTCTCAGACTATGCTGATCAAGGAAGATTACGACAAAGTTAACAAACCGATATCATGCGTAATTTCCAATAACCAAGTTCAGGGAAACGAGGGCAACCACTGTGGAACTTACGCTGTTGGAAATACATATAATTTTCATATCAAGATTTTTCAACTGCGAATTCTCGGTTATCTCGATGGCCATGCATAA
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

262

Amino Acids

29.54

Weight (kDa)

8.22

Isoelectric Point (pI)

36.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Jacalin PF01419 20 - 160 7.2e-37 Jacalin-like lectin 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)
Acc36I ACCTGC 1 cut(s) 429
AccI GTMKAC 2 cut(s) 28, 572
AccIII TCCGGA 1 cut(s) 262
AclWI GGATC 1 cut(s) 79
AcoI YGGCCR 1 cut(s) 778
AcsI RAATTY 5 cut(s) 50, 90, 269, 459, 759
AcuI CTGAAG 2 cut(s) 264, 534
AcyI GRCGYC 1 cut(s) 575
AfaI GTAC 3 cut(s) 311, 515, 561
AfiI CCNNNNNNNGG 1 cut(s) 679
AgsI TTSAA 6 cut(s) 55, 173, 343, 399, 404, 752
AjnI CCWGG 2 cut(s) 11, 409
AluBI AGCT 4 cut(s) 192, 253, 304, 538
AluI AGCT 4 cut(s) 192, 253, 304, 538
Alw21I GWGCWC 2 cut(s) 194, 478
Alw26I GTCTC 1 cut(s) 13
AlwI GGATC 1 cut(s) 79
AlwNI CAGNNNCTG 1 cut(s) 80
Ama87I CYCGRG 1 cut(s) 533
Aor13HI TCCGGA 1 cut(s) 262
AoxI GGCC 2 cut(s) 62, 778
ApoI RAATTY 5 cut(s) 50, 90, 269, 459, 759
AspS9I GGNCC 3 cut(s) 62, 205, 365
AsuHPI GGTGA 2 cut(s) 142, 470
AvaI CYCGRG 1 cut(s) 533
AvaII GGWCC 2 cut(s) 205, 365
BalI TGGCCA 1 cut(s) 780
BanII GRGCYC 1 cut(s) 194
BauI CACGAG 1 cut(s) 500
BbsI GAAGAC 1 cut(s) 435
Bbv12I GWGCWC 2 cut(s) 194, 478
BccI CCATC 4 cut(s) 95, 170, 584, 770
BcgI CGANNNNNNTGC 1 cut(s) 764
BciT130I CCWGG 2 cut(s) 13, 411
BclI TGATCA 2 cut(s) 493, 615
BcoDI GTCTC 1 cut(s) 13
BfaI CTAG 2 cut(s) 231, 587
BfuAI ACCTGC 1 cut(s) 429
Bme1390I CCNGG 2 cut(s) 13, 411
Bme18I GGWCC 2 cut(s) 205, 365
BmeT110I CYCGRG 1 cut(s) 533
BmgT120I GGNCC 3 cut(s) 62, 205, 365
BmiI GGNNCC 1 cut(s) 217
BmrFI CCNGG 2 cut(s) 13, 411
BpiI GAAGAC 1 cut(s) 435
BpmI CTGGAG 2 cut(s) 102, 503
BsaBI GATNNNNATC 1 cut(s) 594
BsaHI GRCGYC 1 cut(s) 575
BsaJI CCNNGG 1 cut(s) 410
BsaWI WCCGGW 1 cut(s) 262
BsaXI ACNNNNNCTCC 2 cut(s) 10, 40
Bsc4I CCNNNNNNNGG 1 cut(s) 679
Bse1I ACTGG 2 cut(s) 85, 520
Bse8I GATNNNNATC 1 cut(s) 594
BseAI TCCGGA 1 cut(s) 262
BseBI CCWGG 2 cut(s) 13, 411
BseDI CCNNGG 1 cut(s) 410
BseJI GATNNNNATC 1 cut(s) 594
BseLI CCNNNNNNNGG 1 cut(s) 679
BseMII CTCAG 1 cut(s) 617
BseNI ACTGG 2 cut(s) 85, 520
BseRI GAGGAG 1 cut(s) 31
BshFI GGCC 2 cut(s) 64, 780
BsiHKAI GWGCWC 2 cut(s) 194, 478
BsiHKCI CYCGRG 1 cut(s) 533
BsiSI CCGG 1 cut(s) 263
BslI CCNNNNNNNGG 1 cut(s) 679
BsmAI GTCTC 1 cut(s) 13
BsnI GGCC 2 cut(s) 64, 780
BsoBI CYCGRG 1 cut(s) 533
Bsp1286I GDGCHC 2 cut(s) 194, 478
Bsp13I TCCGGA 1 cut(s) 262
Bsp143I GATC 5 cut(s) 71, 143, 246, 493, 615
BspANI GGCC 2 cut(s) 64, 780
BspCNI CTCAG 1 cut(s) 616
BspEI TCCGGA 1 cut(s) 262
BspLI GGNNCC 1 cut(s) 217
BspMI ACCTGC 1 cut(s) 429
BspPI GGATC 1 cut(s) 79
BsrI ACTGG 2 cut(s) 85, 520
BssECI CCNNGG 1 cut(s) 410
BssMI GATC 5 cut(s) 71, 143, 246, 493, 615
BssNI GRCGYC 1 cut(s) 575
BssSI CACGAG 1 cut(s) 500
Bst2BI CACGAG 1 cut(s) 500
Bst2UI CCWGG 2 cut(s) 13, 411
Bst4CI ACNGT 2 cut(s) 118, 701
Bst6I CTCTTC 2 cut(s) 350, 553
BstACI GRCGYC 1 cut(s) 575
BstAPI GCANNNNNTGC 1 cut(s) 473
BstC8I GCNNGC 1 cut(s) 224
BstDEI CTNAG 1 cut(s) 603
BstKTI GATC 5 cut(s) 74, 146, 249, 496, 618
BstMAI GTCTC 1 cut(s) 13
BstMBI GATC 5 cut(s) 71, 143, 246, 493, 615
BstMWI GCNNNNNNNGC 2 cut(s) 435, 473
BstNI CCWGG 2 cut(s) 13, 411
BstSCI CCNGG 2 cut(s) 11, 409
BstV2I GAAGAC 1 cut(s) 435
BstXI CCANNNNNNTGG 1 cut(s) 454
BsuRI GGCC 2 cut(s) 64, 780
BtsIMutI CAGTG 3 cut(s) 123, 558, 697
BveI ACCTGC 1 cut(s) 429
Cac8I GCNNGC 1 cut(s) 224
CaiI CAGNNNCTG 1 cut(s) 80
Cfr13I GGNCC 3 cut(s) 62, 205, 365
CseI GACGC 1 cut(s) 583
Csp6I GTAC 3 cut(s) 310, 514, 560
CspCI CAANNNNNGTGG 2 cut(s) 682, 717
CviAII CATG 5 cut(s) 212, 287, 434, 654, 782
CviJI RGCY 9 cut(s) 64, 192, 222, 253, 304, 429, 487, 538, 780
CviKI_1 RGCY 9 cut(s) 64, 192, 222, 253, 304, 429, 487, 538, 780
CviQI GTAC 3 cut(s) 310, 514, 560
DdeI CTNAG 1 cut(s) 603
DpnI GATC 5 cut(s) 73, 145, 248, 495, 617
DpnII GATC 5 cut(s) 71, 143, 246, 493, 615
EaeI YGGCCR 1 cut(s) 778
Eam1104I CTCTTC 2 cut(s) 350, 553
EarI CTCTTC 2 cut(s) 350, 553
Ecl136II GAGCTC 1 cut(s) 192
Eco24I GRGCYC 1 cut(s) 194
Eco32I GATATC 2 cut(s) 596, 651
Eco47I GGWCC 2 cut(s) 205, 365
Eco53kI GAGCTC 1 cut(s) 192
Eco57I CTGAAG 2 cut(s) 264, 534
Eco88I CYCGRG 1 cut(s) 533
EcoICRI GAGCTC 1 cut(s) 192
EcoRI GAATTC 1 cut(s) 759
EcoRII CCWGG 2 cut(s) 11, 409
EcoRV GATATC 2 cut(s) 596, 651
EcoT22I ATGCAT 1 cut(s) 787
EcoT38I GRGCYC 1 cut(s) 194
FaeI CATG 5 cut(s) 215, 290, 437, 657, 785
FatI CATG 5 cut(s) 211, 286, 433, 653, 781
FauNDI CATATG 1 cut(s) 370
FbaI TGATCA 2 cut(s) 493, 615
FblI GTMKAC 2 cut(s) 28, 572
FriOI GRGCYC 1 cut(s) 194
FspBI CTAG 2 cut(s) 231, 587
GsuI CTGGAG 2 cut(s) 102, 503
HaeIII GGCC 2 cut(s) 64, 780
HapII CCGG 1 cut(s) 263
HgaI GACGC 1 cut(s) 583
Hin1I GRCGYC 1 cut(s) 575
Hin1II CATG 5 cut(s) 215, 290, 437, 657, 785
HincII GTYRAC 3 cut(s) 29, 573, 640
HindII GTYRAC 3 cut(s) 29, 573, 640
HindIII AAGCTT 1 cut(s) 251
HinfI GANTC 2 cut(s) 158, 545
HpaI GTTAAC 1 cut(s) 640
HpaII CCGG 1 cut(s) 263
HphI GGTGA 2 cut(s) 142, 470
Hpy166II GTNNAC 3 cut(s) 29, 573, 640
Hpy188I TCNGA 3 cut(s) 76, 205, 606
Hpy188III TCNNGA 9 cut(s) 166, 263, 343, 491, 500, 533, 587, 742, 773
Hpy8I GTNNAC 3 cut(s) 29, 573, 640
Hpy99I CGWCG 1 cut(s) 577
HpyAV CCTTC 1 cut(s) 609
HpyCH4III ACNGT 2 cut(s) 118, 701
HpyCH4V TGCA 1 cut(s) 785
HpyF10VI GCNNNNNNNGC 2 cut(s) 435, 473
HpyF3I CTNAG 1 cut(s) 603
Hsp92I GRCGYC 1 cut(s) 575
Hsp92II CATG 5 cut(s) 215, 290, 437, 657, 785
Kpn2I TCCGGA 1 cut(s) 262
Ksp22I TGATCA 2 cut(s) 493, 615
KspAI GTTAAC 1 cut(s) 640
Kzo9I GATC 5 cut(s) 71, 143, 246, 493, 615
LmnI GCTCC 2 cut(s) 189, 335
MaeI CTAG 2 cut(s) 231, 587
MalI GATC 5 cut(s) 73, 145, 248, 495, 617
MboI GATC 5 cut(s) 71, 143, 246, 493, 615
MboII GAAGA 5 cut(s) 367, 399, 435, 540, 635
MhlI GDGCHC 2 cut(s) 194, 478
MlsI TGGCCA 1 cut(s) 780
MluCI AATT 9 cut(s) 50, 90, 136, 269, 399, 459, 660, 730, 759
MluNI TGGCCA 1 cut(s) 780
MlyI GAGTC 1 cut(s) 539
MmeI TCCRAC 2 cut(s) 183, 697
MnlI CCTC 8 cut(s) 9, 77, 114, 498, 527, 540, 588, 682
Mox20I TGGCCA 1 cut(s) 780
Mph1103I ATGCAT 1 cut(s) 787
MroI TCCGGA 1 cut(s) 262
MscI TGGCCA 1 cut(s) 780
MseI TTAA 2 cut(s) 540, 639
MslI CAYNNNNRTG 2 cut(s) 452, 504
Msp20I TGGCCA 1 cut(s) 780
MspI CCGG 1 cut(s) 263
MspR9I CCNGG 2 cut(s) 13, 411
MvaI CCWGG 2 cut(s) 13, 411
MwoI GCNNNNNNNGC 2 cut(s) 435, 473
NdeI CATATG 1 cut(s) 370
NdeII GATC 5 cut(s) 71, 143, 246, 493, 615
NlaIII CATG 5 cut(s) 215, 290, 437, 657, 785
NlaIV GGNNCC 1 cut(s) 217
NsiI ATGCAT 1 cut(s) 787
PaeR7I CTCGAG 1 cut(s) 533
PcsI WCGNNNNNNNCGW 1 cut(s) 771
PfeI GAWTC 1 cut(s) 158
PflFI GACNNNGTC 1 cut(s) 24
PfoI TCCNGGA 1 cut(s) 11
PleI GAGTC 1 cut(s) 539
PpsI GAGTC 1 cut(s) 539
Psp124BI GAGCTC 1 cut(s) 194
Psp6I CCWGG 2 cut(s) 11, 409
PspGI CCWGG 2 cut(s) 11, 409
PspN4I GGNNCC 1 cut(s) 217
PspPI GGNCC 3 cut(s) 62, 205, 365
PstNI CAGNNNCTG 1 cut(s) 80
PsyI GACNNNGTC 1 cut(s) 24
RsaI GTAC 3 cut(s) 311, 515, 561
RsaNI GTAC 3 cut(s) 310, 514, 560
RseI CAYNNNNRTG 2 cut(s) 452, 504
SacI GAGCTC 1 cut(s) 194
SalI GTCGAC 2 cut(s) 27, 571
SaqAI TTAA 2 cut(s) 540, 639
Sau3AI GATC 5 cut(s) 71, 143, 246, 493, 615
Sau96I GGNCC 3 cut(s) 62, 205, 365
SchI GAGTC 1 cut(s) 539
ScrFI CCNGG 2 cut(s) 13, 411
SduI GDGCHC 2 cut(s) 194, 478
Sfr274I CTCGAG 1 cut(s) 533
SinI GGWCC 2 cut(s) 205, 365
SlaI CTCGAG 1 cut(s) 533
SmiMI CAYNNNNRTG 2 cut(s) 452, 504
SmlI CTYRAG 1 cut(s) 533
SmoI CTYRAG 1 cut(s) 533
Sse9I AATT 9 cut(s) 50, 90, 136, 269, 399, 459, 660, 730, 759
SspMI CTAG 2 cut(s) 231, 587
SstI GAGCTC 1 cut(s) 194
StyD4I CCNGG 2 cut(s) 11, 409
TaaI ACNGT 2 cut(s) 118, 701
TaqI TCGA 4 cut(s) 28, 534, 572, 774
TasI AATT 9 cut(s) 50, 90, 136, 269, 399, 459, 660, 730, 759
TfiI GAWTC 1 cut(s) 158
Tru1I TTAA 2 cut(s) 540, 639
Tru9I TTAA 2 cut(s) 540, 639
TscAI CASTG 3 cut(s) 123, 558, 704
TspDTI ATGAA 4 cut(s) 275, 422, 522, 725
TspRI CASTG 3 cut(s) 123, 558, 704
Tth111I GACNNNGTC 1 cut(s) 24
VpaK11BI GGWCC 2 cut(s) 205, 365
XapI RAATTY 5 cut(s) 50, 90, 269, 459, 759
XbaI TCTAGA 1 cut(s) 586
XhoI CTCGAG 1 cut(s) 533
XmiI GTMKAC 2 cut(s) 28, 572
XspI CTAG 2 cut(s) 231, 587
Zsp2I ATGCAT 1 cut(s) 787
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.