Rorug06G0325800

tRNA pseudouridine synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0006609
Physical Location & Seq
Forward (+)
47776413 .. 47777266
854 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0325800.1

Sequence Viewer

Length: 687 bp
ATGGAGATAAAGAAAGCTTATGATATCGAACATATGTGCTCGACGCATGGTATTCAGCATGAGTTGTGGCCTCTTGATGACGTTGATGCAAAGAAGGCAAAGTTTCCCTGTTATTTAGTTTGGACTCCTCTTCCTGTCGTCTCTTGGTTGGCACCTTTCATTGGACATGTTGGCATTTGCAGGGAGGATGGAGTTATTTTAGATTTTGCAGGCTCCAATTTTGTGAATATTGATGATTTTGCATTTGGTGCTGTTGCTAGATATCTTCAACTTGATAGAAAACAGTGTTGTTTTACCCCAAATCTGGGTGGCCACACTTGCAAGCATGGCTACAAGCATGCAGAGTTTGGGACTGCAATCACCTGGGATGATGCCCTGCAATCGAGCACGCGCTACATTGAGCACAAAACCTACAACCTTTTCACTTGCAACAGCCACTCGTTCGTAGCAAACTTTCTGAATCGGATATGCTACGGTGGATCAATGCATTGGAACATGATAAATGTGGCGGCTTTAGTACTGCTCAAAGGGCATTGGGTTGATGCCATGTCTGTCTTGAAGTCATTCCTCCCTTTTCTTCTGGTGCTCTGTCTAGGTATTTACATGGTTGGGTGGCCATTCGTGGTGGCGCTTTTCTCCTTCTCTTGCTGTGGTTTGTACTTGGCACTTATTGTTTTAAGACTTTAG
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
No domains found.

Protein Analysis

228

Amino Acids

25.78

Weight (kDa)

6.81

Isoelectric Point (pI)

33.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RTE1 PF05608 29 - 177 1.3e-69 RTE1-like
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 151
AccII CGCG 1 cut(s) 391
AciI CCGC 1 cut(s) 509
AclWI GGATC 1 cut(s) 487
AcoI YGGCCR 2 cut(s) 310, 614
AfaI GTAC 2 cut(s) 519, 659
AfiI CCNNNNNNNGG 3 cut(s) 161, 304, 305
AflIII ACRYGT 1 cut(s) 166
AgsI TTSAA 2 cut(s) 269, 559
AjnI CCWGG 1 cut(s) 362
AluBI AGCT 1 cut(s) 17
AluI AGCT 1 cut(s) 17
Alw21I GWGCWC 4 cut(s) 41, 389, 405, 588
Alw26I GTCTC 1 cut(s) 145
AlwI GGATC 1 cut(s) 487
AoxI GGCC 3 cut(s) 68, 310, 614
Asp700I GAANNNNTTC 1 cut(s) 563
AspLEI GCGC 2 cut(s) 393, 631
AsuHPI GGTGA 1 cut(s) 352
BalI TGGCCA 2 cut(s) 312, 616
BanI GGYRCC 1 cut(s) 151
Bbv12I GWGCWC 4 cut(s) 41, 389, 405, 588
BccI CCATC 1 cut(s) 182
BciT130I CCWGG 1 cut(s) 364
BcoDI GTCTC 1 cut(s) 145
BfaI CTAG 2 cut(s) 258, 593
BfoI RGCGCY 1 cut(s) 632
BisI GCNGC 1 cut(s) 510
BlsI GCNGC 1 cut(s) 511
BmcAI AGTACT 1 cut(s) 519
Bme1390I CCNGG 1 cut(s) 364
BmiI GGNNCC 2 cut(s) 153, 214
BmrFI CCNGG 1 cut(s) 364
BmsI GCATC 3 cut(s) 76, 361, 532
BsaJI CCNNGG 1 cut(s) 363
Bsc4I CCNNNNNNNGG 3 cut(s) 161, 304, 305
BseBI CCWGG 1 cut(s) 364
BseDI CCNNGG 1 cut(s) 363
BseGI GGATG 2 cut(s) 193, 373
BseLI CCNNNNNNNGG 3 cut(s) 161, 304, 305
BseRI GAGGAG 1 cut(s) 117
Bsh1236I CGCG 1 cut(s) 391
BshFI GGCC 3 cut(s) 70, 312, 616
BshNI GGYRCC 1 cut(s) 151
BsiHKAI GWGCWC 4 cut(s) 41, 389, 405, 588
BslFI GGGAC 1 cut(s) 364
BslI CCNNNNNNNGG 3 cut(s) 161, 304, 305
BsmAI GTCTC 1 cut(s) 145
BsmBI CGTCTC 1 cut(s) 145
BsmFI GGGAC 1 cut(s) 364
BsnI GGCC 3 cut(s) 70, 312, 616
Bsp1286I GDGCHC 4 cut(s) 41, 389, 405, 588
Bsp143I GATC 1 cut(s) 479
BspACI CCGC 1 cut(s) 509
BspANI GGCC 3 cut(s) 70, 312, 616
BspFNI CGCG 1 cut(s) 391
BspLI GGNNCC 2 cut(s) 153, 214
BspPI GGATC 1 cut(s) 487
BspT107I GGYRCC 1 cut(s) 151
BssECI CCNNGG 1 cut(s) 363
BssMI GATC 1 cut(s) 479
Bst2UI CCWGG 1 cut(s) 364
Bst4CI ACNGT 2 cut(s) 285, 476
Bst6I CTCTTC 1 cut(s) 135
BstAPI GCANNNNNTGC 1 cut(s) 248
BstC8I GCNNGC 4 cut(s) 211, 323, 339, 389
BstF5I GGATG 2 cut(s) 193, 373
BstFNI CGCG 1 cut(s) 391
BstH2I RGCGCY 1 cut(s) 632
BstHHI GCGC 2 cut(s) 393, 631
BstKTI GATC 1 cut(s) 482
BstMAI GTCTC 1 cut(s) 145
BstMBI GATC 1 cut(s) 479
BstMWI GCNNNNNNNGC 5 cut(s) 95, 248, 318, 327, 529
BstNI CCWGG 1 cut(s) 364
BstNSI RCATGY 2 cut(s) 170, 341
BstSCI CCNGG 1 cut(s) 362
BstUI CGCG 1 cut(s) 391
BsuRI GGCC 3 cut(s) 70, 312, 616
BtsCI GGATG 2 cut(s) 193, 373
BtsIMutI CAGTG 1 cut(s) 290
Cac8I GCNNGC 4 cut(s) 211, 323, 339, 389
CfoI GCGC 2 cut(s) 393, 631
CseI GACGC 1 cut(s) 52
Csp6I GTAC 2 cut(s) 518, 658
CviAII CATG 8 cut(s) 47, 59, 167, 326, 338, 496, 547, 604
CviJI RGCY 8 cut(s) 17, 70, 213, 312, 330, 435, 512, 616
CviKI_1 RGCY 8 cut(s) 17, 70, 213, 312, 330, 435, 512, 616
CviQI GTAC 2 cut(s) 518, 658
DpnI GATC 1 cut(s) 481
DpnII GATC 1 cut(s) 479
EaeI YGGCCR 2 cut(s) 310, 614
Eam1104I CTCTTC 1 cut(s) 135
EarI CTCTTC 1 cut(s) 135
Eco32I GATATC 2 cut(s) 25, 263
EcoRII CCWGG 1 cut(s) 362
EcoRV GATATC 2 cut(s) 25, 263
EcoT22I ATGCAT 1 cut(s) 489
Esp3I CGTCTC 1 cut(s) 145
FaeI CATG 8 cut(s) 50, 62, 170, 329, 341, 499, 550, 607
FaqI GGGAC 1 cut(s) 364
FatI CATG 8 cut(s) 46, 58, 166, 325, 337, 495, 546, 603
FauNDI CATATG 1 cut(s) 33
Fnu4HI GCNGC 1 cut(s) 510
FokI GGATG 2 cut(s) 200, 380
Fsp4HI GCNGC 1 cut(s) 510
FspBI CTAG 2 cut(s) 258, 593
GlaI GCGC 2 cut(s) 392, 630
GluI GCNGC 1 cut(s) 510
HaeII RGCGCY 1 cut(s) 632
HaeIII GGCC 3 cut(s) 70, 312, 616
HgaI GACGC 1 cut(s) 52
HhaI GCGC 2 cut(s) 393, 631
Hin1II CATG 8 cut(s) 50, 62, 170, 329, 341, 499, 550, 607
Hin6I GCGC 2 cut(s) 391, 629
HinP1I GCGC 2 cut(s) 391, 629
HindIII AAGCTT 1 cut(s) 15
HinfI GANTC 2 cut(s) 124, 460
HphI GGTGA 1 cut(s) 352
Hpy188I TCNGA 2 cut(s) 459, 465
Hpy188III TCNNGA 2 cut(s) 74, 556
Hpy99I CGWCG 1 cut(s) 46
HpyAV CCTTC 2 cut(s) 88, 649
HpyCH4III ACNGT 2 cut(s) 285, 476
HpyCH4IV ACGT 1 cut(s) 81
HpyF10VI GCNNNNNNNGC 5 cut(s) 95, 248, 318, 327, 529
HpySE526I ACGT 1 cut(s) 81
Hsp92II CATG 8 cut(s) 50, 62, 170, 329, 341, 499, 550, 607
HspAI GCGC 2 cut(s) 391, 629
Kzo9I GATC 1 cut(s) 479
LmnI GCTCC 1 cut(s) 218
LpnPI CCDG 9 cut(s) 121, 147, 166, 195, 290, 349, 376, 389, 566
LweI GCATC 3 cut(s) 76, 361, 532
MaeI CTAG 2 cut(s) 258, 593
MaeII ACGT 1 cut(s) 81
MalI GATC 1 cut(s) 481
MboI GATC 1 cut(s) 479
MboII GAAGA 3 cut(s) 122, 257, 569
MhlI GDGCHC 4 cut(s) 41, 389, 405, 588
MlsI TGGCCA 2 cut(s) 312, 616
MluCI AATT 1 cut(s) 217
MluNI TGGCCA 2 cut(s) 312, 616
MlyI GAGTC 1 cut(s) 118
MnlI CCTC 4 cut(s) 81, 138, 178, 578
Mox20I TGGCCA 2 cut(s) 312, 616
Mph1103I ATGCAT 1 cut(s) 489
MroXI GAANNNNTTC 1 cut(s) 563
MscI TGGCCA 2 cut(s) 312, 616
MseI TTAA 1 cut(s) 677
Msp20I TGGCCA 2 cut(s) 312, 616
MspR9I CCNGG 1 cut(s) 364
MvaI CCWGG 1 cut(s) 364
MvnI CGCG 1 cut(s) 391
MwoI GCNNNNNNNGC 5 cut(s) 95, 248, 318, 327, 529
NdeI CATATG 1 cut(s) 33
NdeII GATC 1 cut(s) 479
NlaIII CATG 8 cut(s) 50, 62, 170, 329, 341, 499, 550, 607
NlaIV GGNNCC 2 cut(s) 153, 214
NsiI ATGCAT 1 cut(s) 489
NspI RCATGY 2 cut(s) 170, 341
PaeI GCATGC 1 cut(s) 341
PciI ACATGT 1 cut(s) 166
PdmI GAANNNNTTC 1 cut(s) 563
PfeI GAWTC 1 cut(s) 460
PkrI GCNGC 1 cut(s) 511
PleI GAGTC 1 cut(s) 118
PpsI GAGTC 1 cut(s) 118
PscI ACATGT 1 cut(s) 166
Psp6I CCWGG 1 cut(s) 362
PspGI CCWGG 1 cut(s) 362
PspN4I GGNNCC 2 cut(s) 153, 214
RsaI GTAC 2 cut(s) 519, 659
RsaNI GTAC 2 cut(s) 518, 658
SaqAI TTAA 1 cut(s) 677
SatI GCNGC 1 cut(s) 510
Sau3AI GATC 1 cut(s) 479
ScaI AGTACT 1 cut(s) 519
SchI GAGTC 1 cut(s) 118
ScrFI CCNGG 1 cut(s) 364
SduI GDGCHC 4 cut(s) 41, 389, 405, 588
SetI ASST 7 cut(s) 19, 84, 157, 365, 413, 420, 598
SfaNI GCATC 3 cut(s) 76, 361, 532
SphI GCATGC 1 cut(s) 341
Sse9I AATT 1 cut(s) 217
SsiI CCGC 1 cut(s) 509
SspI AATATT 1 cut(s) 229
SspMI CTAG 2 cut(s) 258, 593
StyD4I CCNGG 1 cut(s) 362
TaaI ACNGT 2 cut(s) 285, 476
TaiI ACGT 1 cut(s) 84
TaqI TCGA 3 cut(s) 27, 41, 383
TasI AATT 1 cut(s) 217
TatI WGTACW 2 cut(s) 517, 657
TauI GCSGC 1 cut(s) 512
TfiI GAWTC 1 cut(s) 460
Tru1I TTAA 1 cut(s) 677
Tru9I TTAA 1 cut(s) 677
TscAI CASTG 1 cut(s) 290
TspDTI ATGAA 1 cut(s) 148
TspRI CASTG 1 cut(s) 290
XceI RCATGY 2 cut(s) 170, 341
XmnI GAANNNNTTC 1 cut(s) 563
XspI CTAG 2 cut(s) 258, 593
ZrmI AGTACT 1 cut(s) 519
Zsp2I ATGCAT 1 cut(s) 489
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.