Rh4DG072300

tRNA pseudouridine synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0006106
Physical Location & Seq
Forward (+)
10720109 .. 10724857
4749 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG072300.1

Sequence Viewer

Length: 1233 bp
ATGGAGAGCAAGGTCTTTGTCCAATACAACCACACCGATCCCTGTGCATTTGCGCGCTGGACTACCAAGGAAAGCTTCCAGTTCATGTCAGCCAGGCCTTGGCAGCAAGTCATCGACTTTTATTCCGATGTGGTAAAGGGTCAGAGGCCCTTGTCTGCGTTGTTGGGTACTACTTGTTTGAGTAAAAACAGAATTTACAATAGTGTAGAGTGTGTAAATTCTCAAAATAGGGGTGGGAGGTGGGCAAGATTGACGTTCAAGATTGTGGTTTCGTATCATGGGGGTTCCTTTGATGGGTGGCAAAAGCAGCCGGACCTCTACACTGTCCAAAGTGTTGTTGAACAATCTCTTGGGAAATTTGTTGATGAGAAGAAAGCCCAGATGCTGAAAGACAAAGGGTTGCCATTGGAAGGGGCTGCTACTGTCGCTGGACGGACCGATAAAGGAGTGACAGCCCTTAATCAAGTTTGTTCTTTCTATACTTGGAGAAAGGATGTGCAATCTCAAGATATTGCAGATTCTATAAATAGTGCAGCACCAGGAAAACTCAGGACAGTATCTGTTACTGAGGTATCACGTGTATTCCATCCAAATTTTTCTGCCAAATGGAGGCGTTATTTGTATATATTTCCATTTAATGATGATGAGGAGGACAGGGAACAAAGCAATGAGACTGGAGAGAATACTCAAAAATTTAAGATTAATGATAATCATTATGAGCATGAAGTTGTATCTGATAAATGCAATGGGGAAAATGTTGGAAACTTAATCATCACTGATGACGTAGAGTTTGAAACTGAGAAGAAGCCACGGATGTTCAGCGTAAGCAGGGTGAACGAACTTTTACAGAAACTAGAAGGAAAGTTATTATCATATAAGCTATTTGCACGCGATACCAAAGCATCCAGAAATGAGGGTCCACCAACAGAGTGTTTTGTCTTCCATGCTCGAGCAAGAGAGTACAGATTACCGTGTTCAGAGCATGAAAAAGGGAGAAGGGTCATGTGTATCGAACTGGTTGCCAACCGATTCTTACGCAGGATGGTTCGGGTTCTTGTGGCAACCTCAATTAGGGAAGCCGCTGCAGGTGCAGATGAGGACGCATTGCTAAAACTGATGGATGCAACATGCAGACGTGCTACTGCCCCCCCAGCTCCACCCGATGGTTTATGCCTTGTTGATGTTGGTTATGAAGAATTCGATCCGCTAGATTGCCTCATCTCGAAGGAGTAA
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

410

Amino Acids

46.65

Weight (kDa)

7.03

Isoelectric Point (pI)

35.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PseudoU_synth_1 PF01416 332 - 398 6.1e-08 tRNA pseudouridine synthase
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)
AarI CACCTGC 1 cut(s) 1076
Acc36I ACCTGC 1 cut(s) 1076
AccB7I CCANNNNNTGG 2 cut(s) 99, 1163
AccII CGCG 2 cut(s) 55, 891
AciI CCGC 2 cut(s) 1080, 1205
AclWI GGATC 2 cut(s) 32, 1196
AcsI RAATTY 6 cut(s) 192, 217, 356, 592, 692, 1196
AcvI CACGTG 1 cut(s) 578
AfaI GTAC 2 cut(s) 169, 962
AfiI CCNNNNNNNGG 6 cut(s) 99, 294, 410, 609, 1071, 1163
AflIII ACRYGT 1 cut(s) 577
AgsI TTSAA 3 cut(s) 259, 341, 794
AjiI CACGTC 1 cut(s) 1136
AjnI CCWGG 2 cut(s) 92, 538
AjuI GAANNNNNNNTTGG 4 cut(s) 59, 91, 333, 365
AluBI AGCT 3 cut(s) 75, 880, 1154
AluI AGCT 3 cut(s) 75, 880, 1154
Alw26I GTCTC 1 cut(s) 665
AlwI GGATC 2 cut(s) 32, 1196
AlwNI CAGNNNCTG 2 cut(s) 385, 560
Ama87I CYCGRG 1 cut(s) 948
AoxI GGCC 2 cut(s) 95, 146
ApeKI GCWGC 5 cut(s) 103, 307, 416, 533, 1082
ApoI RAATTY 6 cut(s) 192, 217, 356, 592, 692, 1196
ArsI GACNNNNNNTTYG 2 cut(s) 773, 805
AseI ATTAAT 1 cut(s) 702
AspLEI GCGC 2 cut(s) 55, 57
AspS9I GGNCC 4 cut(s) 147, 313, 435, 917
AsuHPI GGTGA 1 cut(s) 844
AvaI CYCGRG 1 cut(s) 948
AvaII GGWCC 3 cut(s) 313, 435, 917
BaeI ACNNNNGTAYC 2 cut(s) 555, 588
BbrPI CACGTG 1 cut(s) 578
BbsI GAAGAC 1 cut(s) 931
BbvI GCAGC 5 cut(s) 115, 319, 403, 545, 1069
BccI CCATC 5 cut(s) 287, 594, 1036, 1111, 1157
BcgI CGANNNNNNTGC 4 cut(s) 26, 60, 1001, 1035
BciT130I CCWGG 2 cut(s) 94, 540
BcoDI GTCTC 1 cut(s) 665
BfaI CTAG 2 cut(s) 854, 1208
BfmI CTRYAG 1 cut(s) 1083
BfuAI ACCTGC 1 cut(s) 1076
BisI GCNGC 6 cut(s) 104, 308, 417, 534, 1080, 1083
BlsI GCNGC 6 cut(s) 105, 309, 418, 535, 1081, 1084
Bme1390I CCNGG 2 cut(s) 94, 540
Bme18I GGWCC 3 cut(s) 313, 435, 917
BmeT110I CYCGRG 1 cut(s) 948
BmgBI CACGTC 1 cut(s) 1136
BmgT120I GGNCC 4 cut(s) 147, 313, 435, 917
BmiI GGNNCC 2 cut(s) 286, 918
BmrFI CCNGG 2 cut(s) 94, 540
BmsI GCATC 3 cut(s) 372, 911, 1111
BpiI GAAGAC 1 cut(s) 931
BpmI CTGGAG 1 cut(s) 696
BpuEI CTTGAG 1 cut(s) 489
BsaAI YACGTR 1 cut(s) 578
BsaJI CCNNGG 3 cut(s) 66, 98, 809
Bsc4I CCNNNNNNNGG 6 cut(s) 99, 294, 410, 609, 1071, 1163
Bse1I ACTGG 3 cut(s) 79, 679, 1020
Bse3DI GCAATG 3 cut(s) 673, 751, 1103
BseBI CCWGG 2 cut(s) 94, 540
BseDI CCNNGG 3 cut(s) 66, 98, 809
BseGI GGATG 6 cut(s) 499, 586, 819, 902, 1047, 1126
BseLI CCNNNNNNNGG 6 cut(s) 99, 294, 410, 609, 1071, 1163
BseMI GCAATG 3 cut(s) 673, 751, 1103
BseMII CTCAG 3 cut(s) 558, 562, 789
BseNI ACTGG 3 cut(s) 79, 679, 1020
BsePI GCGCGC 1 cut(s) 53
BseRI GAGGAG 1 cut(s) 662
BseXI GCAGC 5 cut(s) 115, 319, 403, 545, 1069
BseYI CCCAGC 1 cut(s) 1150
BsgI GTGCAG 2 cut(s) 552, 1110
Bsh1236I CGCG 2 cut(s) 55, 891
BshFI GGCC 2 cut(s) 97, 148
BsiHKCI CYCGRG 1 cut(s) 948
BsiSI CCGG 1 cut(s) 311
BslI CCNNNNNNNGG 6 cut(s) 99, 294, 410, 609, 1071, 1163
BsmAI GTCTC 1 cut(s) 665
BsnI GGCC 2 cut(s) 97, 148
BsoBI CYCGRG 1 cut(s) 948
Bsp143I GATC 2 cut(s) 37, 1201
BspACI CCGC 2 cut(s) 1080, 1205
BspANI GGCC 2 cut(s) 97, 148
BspCNI CTCAG 3 cut(s) 559, 561, 790
BspFNI CGCG 2 cut(s) 55, 891
BspLI GGNNCC 2 cut(s) 286, 918
BspMAI CTGCAG 1 cut(s) 1087
BspMI ACCTGC 1 cut(s) 1076
BspPI GGATC 2 cut(s) 32, 1196
BsrDI GCAATG 3 cut(s) 673, 751, 1103
BsrI ACTGG 3 cut(s) 79, 679, 1020
BssECI CCNNGG 3 cut(s) 66, 98, 809
BssHII GCGCGC 1 cut(s) 53
BssMI GATC 2 cut(s) 37, 1201
BssT1I CCWWGG 2 cut(s) 66, 98
Bst2UI CCWGG 2 cut(s) 94, 540
Bst4CI ACNGT 4 cut(s) 325, 424, 556, 972
BstBAI YACGTR 1 cut(s) 578
BstC8I GCNNGC 2 cut(s) 55, 889
BstDEI CTNAG 3 cut(s) 548, 567, 798
BstDSI CCRYGG 1 cut(s) 809
BstENI CCTNNNNNAGG 1 cut(s) 1069
BstF5I GGATG 6 cut(s) 499, 586, 819, 902, 1047, 1126
BstFNI CGCG 2 cut(s) 55, 891
BstHHI GCGC 2 cut(s) 55, 57
BstKTI GATC 2 cut(s) 40, 1204
BstMAI GTCTC 1 cut(s) 665
BstMBI GATC 2 cut(s) 37, 1201
BstMWI GCNNNNNNNGC 5 cut(s) 103, 307, 425, 1088, 1151
BstNI CCWGG 2 cut(s) 94, 540
BstNSI RCATGY 1 cut(s) 1131
BstSCI CCNGG 2 cut(s) 92, 538
BstSFI CTRYAG 1 cut(s) 1083
BstUI CGCG 2 cut(s) 55, 891
BstV1I GCAGC 5 cut(s) 115, 319, 403, 545, 1069
BstV2I GAAGAC 1 cut(s) 931
BsuRI GGCC 2 cut(s) 97, 148
BtgI CCRYGG 1 cut(s) 809
BtrI CACGTC 1 cut(s) 1136
BtsCI GGATG 6 cut(s) 499, 586, 819, 902, 1047, 1126
BtsIMutI CAGTG 2 cut(s) 321, 774
BveI ACCTGC 1 cut(s) 1076
Cac8I GCNNGC 2 cut(s) 55, 889
CaiI CAGNNNCTG 2 cut(s) 385, 560
CfoI GCGC 2 cut(s) 55, 57
Cfr13I GGNCC 4 cut(s) 147, 313, 435, 917
CpoI CGGWCCG 1 cut(s) 435
CseI GACGC 1 cut(s) 1109
Csp6I GTAC 2 cut(s) 168, 961
CspI CGGWCCG 1 cut(s) 435
CviAII CATG 7 cut(s) 85, 278, 722, 944, 983, 1003, 1128
CviQI GTAC 2 cut(s) 168, 961
DdeI CTNAG 3 cut(s) 548, 567, 798
DpnI GATC 2 cut(s) 39, 1203
DpnII GATC 2 cut(s) 37, 1201
Eco130I CCWWGG 2 cut(s) 66, 98
Eco147I AGGCCT 1 cut(s) 97
Eco47I GGWCC 3 cut(s) 313, 435, 917
Eco72I CACGTG 1 cut(s) 578
Eco88I CYCGRG 1 cut(s) 948
EcoNI CCTNNNNNAGG 1 cut(s) 1069
EcoO109I RGGNCCY 1 cut(s) 147
EcoRI GAATTC 1 cut(s) 1196
EcoRII CCWGG 2 cut(s) 92, 538
EcoT14I CCWWGG 2 cut(s) 66, 98
ErhI CCWWGG 2 cut(s) 66, 98
FaeI CATG 7 cut(s) 88, 281, 725, 947, 986, 1006, 1131
FalI AAGNNNNNCTT 2 cut(s) 59, 91
FatI CATG 7 cut(s) 84, 277, 721, 943, 982, 1002, 1127
Fnu4HI GCNGC 6 cut(s) 104, 308, 417, 534, 1080, 1083
FokI GGATG 6 cut(s) 506, 573, 826, 889, 1054, 1133
Fsp4HI GCNGC 6 cut(s) 104, 308, 417, 534, 1080, 1083
FspBI CTAG 2 cut(s) 854, 1208
GlaI GCGC 2 cut(s) 54, 56
GluI GCNGC 6 cut(s) 104, 308, 417, 534, 1080, 1083
GsaI CCCAGC 1 cut(s) 1154
GsuI CTGGAG 1 cut(s) 696
HaeIII GGCC 2 cut(s) 97, 148
HapII CCGG 1 cut(s) 311
HgaI GACGC 1 cut(s) 1109
HhaI GCGC 2 cut(s) 55, 57
Hin1II CATG 7 cut(s) 88, 281, 725, 947, 986, 1006, 1131
Hin6I GCGC 2 cut(s) 53, 55
HinP1I GCGC 2 cut(s) 53, 55
HindIII AAGCTT 1 cut(s) 73
HinfI GANTC 2 cut(s) 518, 1029
HpaII CCGG 1 cut(s) 311
HphI GGTGA 1 cut(s) 844
Hpy166II GTNNAC 2 cut(s) 835, 920
Hpy188I TCNGA 4 cut(s) 127, 144, 736, 979
Hpy188III TCNNGA 5 cut(s) 259, 506, 550, 906, 1222
Hpy8I GTNNAC 2 cut(s) 835, 920
HpyAV CCTTC 4 cut(s) 404, 851, 990, 1219
HpyCH4III ACNGT 4 cut(s) 325, 424, 556, 972
HpyCH4IV ACGT 4 cut(s) 254, 577, 783, 1135
HpyF10VI GCNNNNNNNGC 5 cut(s) 103, 307, 425, 1088, 1151
HpyF3I CTNAG 3 cut(s) 548, 567, 798
HpySE526I ACGT 4 cut(s) 254, 577, 783, 1135
Hsp92II CATG 7 cut(s) 88, 281, 725, 947, 986, 1006, 1131
HspAI GCGC 2 cut(s) 53, 55
Kzo9I GATC 2 cut(s) 37, 1201
LmnI GCTCC 1 cut(s) 1159
Lsp1109I GCAGC 5 cut(s) 115, 319, 403, 545, 1069
LweI GCATC 3 cut(s) 372, 911, 1111
MaeI CTAG 2 cut(s) 854, 1208
MaeII ACGT 4 cut(s) 254, 577, 783, 1135
MaeIII GTNAC 2 cut(s) 448, 562
MalI GATC 2 cut(s) 39, 1203
MboI GATC 2 cut(s) 37, 1201
MboII GAAGA 4 cut(s) 382, 814, 931, 1205
MluCI AATT 7 cut(s) 192, 217, 356, 592, 692, 1068, 1196
MmeI TCCRAC 1 cut(s) 739
MseI TTAA 5 cut(s) 459, 636, 696, 702, 767
MspA1I CMGCKG 1 cut(s) 1082
MspI CCGG 1 cut(s) 311
MspR9I CCNGG 2 cut(s) 94, 540
MvaI CCWGG 2 cut(s) 94, 540
MvnI CGCG 2 cut(s) 55, 891
MwoI GCNNNNNNNGC 5 cut(s) 103, 307, 425, 1088, 1151
NdeII GATC 2 cut(s) 37, 1201
NlaIII CATG 7 cut(s) 88, 281, 725, 947, 986, 1006, 1131
NlaIV GGNNCC 2 cut(s) 286, 918
NmuCI GTSAC 1 cut(s) 448
NspI RCATGY 1 cut(s) 1131
PaeR7I CTCGAG 1 cut(s) 948
PaqCI CACCTGC 1 cut(s) 1076
PauI GCGCGC 1 cut(s) 53
PceI AGGCCT 1 cut(s) 97
PfeI GAWTC 2 cut(s) 518, 1029
PflMI CCANNNNNTGG 2 cut(s) 99, 1163
PkrI GCNGC 6 cut(s) 105, 309, 418, 535, 1081, 1084
PmaCI CACGTG 1 cut(s) 578
PmlI CACGTG 1 cut(s) 578
Ppu21I YACGTR 1 cut(s) 578
PshBI ATTAAT 1 cut(s) 702
Psp6I CCWGG 2 cut(s) 92, 538
PspCI CACGTG 1 cut(s) 578
PspFI CCCAGC 1 cut(s) 1150
PspGI CCWGG 2 cut(s) 92, 538
PspN4I GGNNCC 2 cut(s) 286, 918
PspPI GGNCC 4 cut(s) 147, 313, 435, 917
PspXI VCTCGAGB 1 cut(s) 948
PstI CTGCAG 1 cut(s) 1087
PstNI CAGNNNCTG 2 cut(s) 385, 560
PteI GCGCGC 1 cut(s) 53
RsaI GTAC 2 cut(s) 169, 962
RsaNI GTAC 2 cut(s) 168, 961
Rsr2I CGGWCCG 1 cut(s) 435
RsrII CGGWCCG 1 cut(s) 435
SaqAI TTAA 5 cut(s) 459, 636, 696, 702, 767
SatI GCNGC 6 cut(s) 104, 308, 417, 534, 1080, 1083
Sau3AI GATC 2 cut(s) 37, 1201
Sau96I GGNCC 4 cut(s) 147, 313, 435, 917
ScrFI CCNGG 2 cut(s) 94, 540
SfaNI GCATC 3 cut(s) 372, 911, 1111
SfcI CTRYAG 1 cut(s) 1083
Sfr274I CTCGAG 1 cut(s) 948
SinI GGWCC 3 cut(s) 313, 435, 917
SlaI CTCGAG 1 cut(s) 948
SmlI CTYRAG 2 cut(s) 504, 948
SmoI CTYRAG 2 cut(s) 504, 948
Sse9I AATT 7 cut(s) 192, 217, 356, 592, 692, 1068, 1196
SseBI AGGCCT 1 cut(s) 97
SsiI CCGC 2 cut(s) 1080, 1205
SspMI CTAG 2 cut(s) 854, 1208
StuI AGGCCT 1 cut(s) 97
StyD4I CCNGG 2 cut(s) 92, 538
StyI CCWWGG 2 cut(s) 66, 98
TaaI ACNGT 4 cut(s) 325, 424, 556, 972
TaiI ACGT 4 cut(s) 257, 580, 786, 1138
TaqI TCGA 5 cut(s) 114, 949, 1011, 1200, 1223
TaqII GACCGA 1 cut(s) 452
TasI AATT 7 cut(s) 192, 217, 356, 592, 692, 1068, 1196
TatI WGTACW 1 cut(s) 960
TauI GCSGC 1 cut(s) 1082
TfiI GAWTC 2 cut(s) 518, 1029
Tru1I TTAA 5 cut(s) 459, 636, 696, 702, 767
Tru9I TTAA 5 cut(s) 459, 636, 696, 702, 767
TscAI CASTG 2 cut(s) 328, 781
TseFI GTSAC 1 cut(s) 448
TseI GCWGC 5 cut(s) 103, 307, 416, 533, 1082
Tsp45I GTSAC 1 cut(s) 448
TspDTI ATGAA 4 cut(s) 73, 738, 999, 1206
TspGWI ACGGA 2 cut(s) 448, 826
TspRI CASTG 2 cut(s) 328, 781
Van91I CCANNNNNTGG 2 cut(s) 99, 1163
VpaK11BI GGWCC 3 cut(s) 313, 435, 917
VspI ATTAAT 1 cut(s) 702
XagI CCTNNNNNAGG 1 cut(s) 1069
XapI RAATTY 6 cut(s) 192, 217, 356, 592, 692, 1196
XceI RCATGY 1 cut(s) 1131
XhoI CTCGAG 1 cut(s) 948
XspI CTAG 2 cut(s) 854, 1208
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.