RchiOBHm_Chr2g0173311

TruB family pseudouridylate synthase (N terminal domain)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0014138
Physical Location & Seq
Forward (+)
86350189 .. 86352997
2809 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ54053

Sequence Viewer

Length: 1197 bp
ATGGAGAAGAAGAAGAGGAAGTATTATAACAAGCGGAGGAAGCGGATGTACGGCGGCGATTCGGAGGAGGAGGAGGAGAAGCGGCGGGAGGGGGAGAGGCTGGTGGAGCTGAAGCCGGAGGTGGTGGAGTTCAACACGTTGCACAAGAGAGAGGAGGAGCTCTACTTCTACGATGCGTTTGCGTATCCGTGGGAGAAGGACAAGCATTACAAGATGGTGTACCAGCTGGAGAAGAAGTTCTATCCCGACCAGTGTCTGGACAAAGCGTTTCTCGAACCCGGTGCAGCGAATTGCAATCTGAGTAGGAAGAAGAAAGAGCGTGGTGGTGGTGATGATAAGGGAATGGTGTTTTTCGAGGGGAAGGGGGAGGGAGAATCGAGAGAACCGGCCGCTGCGGCGAAGGATGTTGCGGAGAAGAAGGTGGAGGAGTTTTTCAAGTGTTTGAAGAAAGTGCCGAAGGCAGTCAGTGATGAGGGGGAGCCGTATCTGTTGACAAGGAGTAGCGAGCTTCCTCCGAGGTGGGACGGGCCGTTTGGGACTGTGGTTTTGGTGAACAAACCGAAAGGGTGGACGTCTTTTACTGTCTGTGGAAAGCTGCGGCGCCTAGTCAAAGTGAAGAAGGTAGGGCATGCTGGTACGCTTGATCCGATGGCAACTGGTTTGTTAATTGTATGTGTTGGTAAAGCTACTAAGGTTGTAGATAGCTATCAAGGTATGACCAAGGGTTACAGTGGAGTTTTCCGTCTGGGGGAGGCTACTTCAACTTGGGATGCTGATTCACCGGTCATTCAGCGTGAGCCGTGGGAGCATATCAAAGATGAAGATATAAAGAAAACTGCTGCATCCTTTTGTGGAGAGATCTGGCAAGTACCTCCAATGTTTTCTGCCATCAAAGTTGGAGGTGAAAAGATGTATGAGAAGGCAAGAAGAGGAGAAAGCATTGAGCTCTCACCCAGACGGATATCAATCTATCAGTTTGACATTGAGCGCAGCTTAGATGACAGACAAAATTTGATTTTCCGGGTTACTTGCTCTAAAGGGACATATATTAGGTCTCTATGTGCAGATTTGGGGAAAGCTCTCGGCAGTTGTGCTCATTTAACTGCTCTTCGGAGAGATTCAATTGGGGAATATTCTGCAGATAATGCATGGGACTTCAAAGAGCTGGAAGATGCAATTACCAAAACTTATTTCTAG
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
TruB_C_2 TruB_N

Protein Analysis

398

Amino Acids

45.53

Weight (kDa)

8.78

Isoelectric Point (pI)

49.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TruB_N PF01509 200 - 350 1.1e-53 TruB family pseudouridylate synthase (N terminal domain)
TruB_C_2 PF16198 351 - 394 1.5e-09 tRNA pseudouridylate synthase B C-terminal 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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Orthologous Genes (Group: OG0014138)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G14460
fragaria_vesca FvH4_6g51780 FvH4_6g51780
malus_domestica MD17G1022100.v1.1
prunus_persica Prupe.3G294000_v2.0.a1
pyrus_communis pycom17g01920
rosa_chinensis RchiOBHm_Chr2g0173311
rosa_laevigata RLG00000022178
rosa_multiflora Rmu_sc0010961.1_g000005
rosa_roxburghii Rroxscaffold_2G00079060
rosa_rugosa Rorug02G0567200 Rorug02G0567300
rosa_samantha Rh2AG647600 Rh2BG658100 Rh2CG623500 Rh2DG671900
rosa_wichuraiana Rw2G053160

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 27
AatII GACGTC 1 cut(s) 575
AccB1I GGYRCC 1 cut(s) 600
AccB7I CCANNNNNTGG 1 cut(s) 256
AciI CCGC 9 cut(s) 34, 43, 54, 82, 85, 390, 395, 410, 598
AclWI GGATC 1 cut(s) 638
AcoI YGGCCR 1 cut(s) 387
AcsI RAATTY 1 cut(s) 1009
AcuI CTGAAG 1 cut(s) 131
AcyI GRCGYC 2 cut(s) 572, 601
AfaI GTAC 4 cut(s) 50, 221, 637, 870
AfiI CCNNNNNNNGG 2 cut(s) 256, 748
AflIII ACRYGT 1 cut(s) 135
AgeI ACCGGT 1 cut(s) 781
AgsI TTSAA 6 cut(s) 133, 436, 445, 762, 1122, 1159
AjuI GAANNNNNNNTTGG 1 cut(s) 1175
AloI GAACNNNNNNTCC 2 cut(s) 221, 253
Alw21I GWGCWC 3 cut(s) 162, 948, 1096
Alw26I GTCTC 1 cut(s) 1059
AlwI GGATC 1 cut(s) 638
AlwNI CAGNNNCTG 1 cut(s) 256
AoxI GGCC 2 cut(s) 387, 527
ApeKI GCWGC 5 cut(s) 284, 392, 595, 839, 990
ApoI RAATTY 1 cut(s) 1009
ArsI GACNNNNNNTTYG 4 cut(s) 515, 529, 547, 561
AsiGI ACCGGT 1 cut(s) 781
Asp700I GAANNNNTTC 1 cut(s) 236
AspLEI GCGC 2 cut(s) 603, 990
AspS9I GGNCC 1 cut(s) 527
AsuC2I CCSGG 2 cut(s) 279, 1022
AsuHPI GGTGA 5 cut(s) 341, 562, 771, 914, 942
BanI GGYRCC 1 cut(s) 600
BanII GRGCYC 2 cut(s) 162, 948
BarI GAAGNNNNNNTAC 2 cut(s) 32, 64
Bbv12I GWGCWC 3 cut(s) 162, 948, 1096
BbvI GCAGC 5 cut(s) 296, 379, 582, 826, 1002
BccI CCATC 3 cut(s) 208, 643, 896
BceAI ACGGC 4 cut(s) 67, 466, 514, 784
BcgI CGANNNNNNTGC 4 cut(s) 161, 195, 263, 297
BciVI GTATCC 1 cut(s) 195
BcnI CCSGG 2 cut(s) 279, 1022
BcoDI GTCTC 1 cut(s) 1059
BfaI CTAG 2 cut(s) 605, 1195
BfmI CTRYAG 1 cut(s) 1137
BfoI RGCGCY 1 cut(s) 604
BfuI GTATCC 1 cut(s) 195
BglI GCCNNNNNGGC 1 cut(s) 395
BglII AGATCT 1 cut(s) 858
Bme1390I CCNGG 2 cut(s) 279, 1022
BmgT120I GGNCC 1 cut(s) 527
BmiI GGNNCC 2 cut(s) 480, 602
BmrFI CCNGG 2 cut(s) 279, 1022
BmsI GCATC 4 cut(s) 163, 760, 851, 1162
BoxI GACNNNNGTC 1 cut(s) 252
BpmI CTGGAG 1 cut(s) 248
BpuMI CCSGG 2 cut(s) 279, 1022
BsaBI GATNNNNATC 2 cut(s) 705, 965
BsaHI GRCGYC 2 cut(s) 572, 601
BsaI GGTCTC 1 cut(s) 1059
BsaJI CCNNGG 4 cut(s) 188, 515, 720, 800
BsaWI WCCGGW 1 cut(s) 781
BsaXI ACNNNNNCTCC 2 cut(s) 221, 251
Bsc4I CCNNNNNNNGG 2 cut(s) 256, 748
Bse118I RCCGGY 2 cut(s) 385, 781
Bse1I ACTGG 2 cut(s) 250, 661
Bse8I GATNNNNATC 2 cut(s) 705, 965
BseDI CCNNGG 4 cut(s) 188, 515, 720, 800
BseGI GGATG 4 cut(s) 51, 409, 775, 842
BseJI GATNNNNATC 2 cut(s) 705, 965
BseLI CCNNNNNNNGG 2 cut(s) 256, 748
BseMII CTCAG 1 cut(s) 290
BseNI ACTGG 2 cut(s) 250, 661
BseRI GAGGAG 8 cut(s) 80, 83, 86, 89, 167, 170, 440, 945
BseX3I CGGCCG 1 cut(s) 387
BseXI GCAGC 5 cut(s) 296, 379, 582, 826, 1002
BsgI GTGCAG 2 cut(s) 303, 1083
Bsh1285I CGRYCG 1 cut(s) 390
BshFI GGCC 2 cut(s) 389, 529
BshNI GGYRCC 1 cut(s) 600
BshTI ACCGGT 1 cut(s) 781
BsiEI CGRYCG 1 cut(s) 390
BsiHKAI GWGCWC 3 cut(s) 162, 948, 1096
BsiSI CCGG 5 cut(s) 116, 279, 386, 782, 1021
BslFI GGGAC 4 cut(s) 536, 550, 1054, 1166
BslI CCNNNNNNNGG 2 cut(s) 256, 748
BsmAI GTCTC 1 cut(s) 1059
BsmFI GGGAC 4 cut(s) 536, 550, 1054, 1166
BsnI GGCC 2 cut(s) 389, 529
Bso31I GGTCTC 1 cut(s) 1059
Bsp1286I GDGCHC 3 cut(s) 162, 948, 1096
Bsp143I GATC 2 cut(s) 643, 858
BspACI CCGC 9 cut(s) 34, 43, 54, 82, 85, 390, 395, 410, 598
BspANI GGCC 2 cut(s) 389, 529
BspCNI CTCAG 1 cut(s) 291
BspLI GGNNCC 2 cut(s) 480, 602
BspMAI CTGCAG 1 cut(s) 1141
BspPI GGATC 1 cut(s) 638
BspQI GCTCTTC 1 cut(s) 1113
BspT107I GGYRCC 1 cut(s) 600
BspTNI GGTCTC 1 cut(s) 1059
BsrFI RCCGGY 2 cut(s) 385, 781
BsrI ACTGG 2 cut(s) 250, 661
BssAI RCCGGY 2 cut(s) 385, 781
BssECI CCNNGG 4 cut(s) 188, 515, 720, 800
BssMI GATC 2 cut(s) 643, 858
BssNI GRCGYC 2 cut(s) 572, 601
BssT1I CCWWGG 1 cut(s) 720
Bst4CI ACNGT 3 cut(s) 541, 583, 731
Bst6I CTCTTC 3 cut(s) 8, 922, 1113
BstACI GRCGYC 2 cut(s) 572, 601
BstAPI GCANNNNNTGC 1 cut(s) 1145
BstC8I GCNNGC 2 cut(s) 506, 630
BstDEI CTNAG 3 cut(s) 299, 690, 994
BstDSI CCRYGG 2 cut(s) 188, 800
BstF5I GGATG 4 cut(s) 51, 409, 775, 842
BstH2I RGCGCY 1 cut(s) 604
BstHHI GCGC 2 cut(s) 603, 990
BstKTI GATC 2 cut(s) 646, 861
BstMAI GTCTC 1 cut(s) 1059
BstMBI GATC 2 cut(s) 643, 858
BstMCI CGRYCG 1 cut(s) 390
BstMWI GCNNNNNNNGC 5 cut(s) 40, 106, 395, 805, 1145
BstNSI RCATGY 1 cut(s) 632
BstPAI GACNNNNGTC 1 cut(s) 252
BstSCI CCNGG 2 cut(s) 277, 1020
BstSFI CTRYAG 1 cut(s) 1137
BstV1I GCAGC 5 cut(s) 296, 379, 582, 826, 1002
BstX2I RGATCY 1 cut(s) 858
BstYI RGATCY 1 cut(s) 858
BstZI CGGCCG 1 cut(s) 387
BsuI GTATCC 1 cut(s) 195
BsuRI GGCC 2 cut(s) 389, 529
BtgI CCRYGG 2 cut(s) 188, 800
BtsCI GGATG 4 cut(s) 51, 409, 775, 842
BtsIMutI CAGTG 3 cut(s) 257, 472, 736
Cac8I GCNNGC 2 cut(s) 506, 630
CaiI CAGNNNCTG 1 cut(s) 256
CfoI GCGC 2 cut(s) 603, 990
Cfr10I RCCGGY 2 cut(s) 385, 781
Cfr13I GGNCC 1 cut(s) 527
Csp6I GTAC 4 cut(s) 49, 220, 636, 869
CspAI ACCGGT 1 cut(s) 781
CviAII CATG 2 cut(s) 629, 1149
CviQI GTAC 4 cut(s) 49, 220, 636, 869
DdeI CTNAG 3 cut(s) 299, 690, 994
DinI GGCGCC 1 cut(s) 602
DpnI GATC 2 cut(s) 645, 860
DpnII GATC 2 cut(s) 643, 858
EaeI YGGCCR 1 cut(s) 387
EagI CGGCCG 1 cut(s) 387
Eam1104I CTCTTC 3 cut(s) 8, 922, 1113
EarI CTCTTC 3 cut(s) 8, 922, 1113
Ecl136II GAGCTC 2 cut(s) 160, 946
EclXI CGGCCG 1 cut(s) 387
Eco130I CCWWGG 1 cut(s) 720
Eco24I GRGCYC 2 cut(s) 162, 948
Eco31I GGTCTC 1 cut(s) 1059
Eco32I GATATC 1 cut(s) 963
Eco52I CGGCCG 1 cut(s) 387
Eco53kI GAGCTC 2 cut(s) 160, 946
Eco57I CTGAAG 1 cut(s) 131
EcoICRI GAGCTC 2 cut(s) 160, 946
EcoRV GATATC 1 cut(s) 963
EcoT14I CCWWGG 1 cut(s) 720
EcoT22I ATGCAT 1 cut(s) 1150
EcoT38I GRGCYC 2 cut(s) 162, 948
EgeI GGCGCC 1 cut(s) 602
EheI GGCGCC 1 cut(s) 602
ErhI CCWWGG 1 cut(s) 720
FaeI CATG 2 cut(s) 632, 1152
FaqI GGGAC 4 cut(s) 536, 550, 1054, 1166
FatI CATG 2 cut(s) 628, 1148
FauI CCCGC 1 cut(s) 78
FokI GGATG 4 cut(s) 58, 416, 782, 829
FriOI GRGCYC 2 cut(s) 162, 948
FspBI CTAG 2 cut(s) 605, 1195
GlaI GCGC 2 cut(s) 602, 989
GsuI CTGGAG 1 cut(s) 248
HaeII RGCGCY 1 cut(s) 604
HaeIII GGCC 2 cut(s) 389, 529
HapII CCGG 5 cut(s) 116, 279, 386, 782, 1021
HhaI GCGC 2 cut(s) 603, 990
Hin1I GRCGYC 2 cut(s) 572, 601
Hin1II CATG 2 cut(s) 632, 1152
Hin6I GCGC 2 cut(s) 601, 988
HinP1I GCGC 2 cut(s) 601, 988
HincII GTYRAC 1 cut(s) 492
HindII GTYRAC 1 cut(s) 492
HinfI GANTC 4 cut(s) 59, 374, 776, 1118
HpaII CCGG 5 cut(s) 116, 279, 386, 782, 1021
HphI GGTGA 5 cut(s) 341, 562, 771, 914, 942
Hpy166II GTNNAC 4 cut(s) 220, 492, 553, 570
Hpy188I TCNGA 5 cut(s) 64, 300, 516, 648, 1113
Hpy188III TCNNGA 4 cut(s) 245, 257, 272, 378
Hpy8I GTNNAC 4 cut(s) 220, 492, 553, 570
HpyAV CCTTC 7 cut(s) 190, 355, 394, 412, 451, 613, 913
HpyCH4III ACNGT 3 cut(s) 541, 583, 731
HpyCH4IV ACGT 2 cut(s) 137, 572
HpyCH4V TGCA 8 cut(s) 142, 284, 294, 842, 1064, 1139, 1148, 1175
HpyF10VI GCNNNNNNNGC 5 cut(s) 40, 106, 395, 805, 1145
HpyF3I CTNAG 3 cut(s) 299, 690, 994
HpySE526I ACGT 2 cut(s) 137, 572
Hsp92I GRCGYC 2 cut(s) 572, 601
Hsp92II CATG 2 cut(s) 632, 1152
HspAI GCGC 2 cut(s) 601, 988
KasI GGCGCC 1 cut(s) 600
Kzo9I GATC 2 cut(s) 643, 858
LguI GCTCTTC 1 cut(s) 1113
LmnI GCTCC 4 cut(s) 106, 157, 478, 805
Lsp1109I GCAGC 5 cut(s) 296, 379, 582, 826, 1002
LweI GCATC 4 cut(s) 163, 760, 851, 1162
MaeI CTAG 2 cut(s) 605, 1195
MaeII ACGT 2 cut(s) 137, 572
MaeIII GTNAC 2 cut(s) 725, 1024
MalI GATC 2 cut(s) 645, 860
MboI GATC 2 cut(s) 643, 858
MfeI CAATTG 1 cut(s) 1122
MflI RGATCY 1 cut(s) 858
MhlI GDGCHC 3 cut(s) 162, 948, 1096
MluCI AATT 5 cut(s) 289, 666, 1009, 1122, 1176
Mly113I GGCGCC 1 cut(s) 601
MmeI TCCRAC 1 cut(s) 877
Mph1103I ATGCAT 1 cut(s) 1150
MroXI GAANNNNTTC 1 cut(s) 236
MseI TTAA 2 cut(s) 665, 1100
MspA1I CMGCKG 2 cut(s) 226, 392
MspI CCGG 5 cut(s) 116, 279, 386, 782, 1021
MspR9I CCNGG 2 cut(s) 279, 1022
MunI CAATTG 1 cut(s) 1122
MwoI GCNNNNNNNGC 5 cut(s) 40, 106, 395, 805, 1145
NarI GGCGCC 1 cut(s) 601
NciI CCSGG 2 cut(s) 279, 1022
NdeII GATC 2 cut(s) 643, 858
NlaIII CATG 2 cut(s) 632, 1152
NlaIV GGNNCC 2 cut(s) 480, 602
NmeAIII GCCGAG 1 cut(s) 1062
NsiI ATGCAT 1 cut(s) 1150
NspI RCATGY 1 cut(s) 632
PaeI GCATGC 1 cut(s) 632
PciSI GCTCTTC 1 cut(s) 1113
PcsI WCGNNNNNNNCGW 1 cut(s) 644
PdmI GAANNNNTTC 1 cut(s) 236
PfeI GAWTC 4 cut(s) 59, 374, 776, 1118
PflMI CCANNNNNTGG 1 cut(s) 256
PinAI ACCGGT 1 cut(s) 781
PluTI GGCGCC 1 cut(s) 604
PshAI GACNNNNGTC 1 cut(s) 252
PsiI TTATAA 1 cut(s) 27
Psp124BI GAGCTC 2 cut(s) 162, 948
PspN4I GGNNCC 2 cut(s) 480, 602
PspPI GGNCC 1 cut(s) 527
PstI CTGCAG 1 cut(s) 1141
PstNI CAGNNNCTG 1 cut(s) 256
PsuI RGATCY 1 cut(s) 858
PvuII CAGCTG 1 cut(s) 226
RsaI GTAC 4 cut(s) 50, 221, 637, 870
RsaNI GTAC 4 cut(s) 49, 220, 636, 869
SacI GAGCTC 2 cut(s) 162, 948
SapI GCTCTTC 1 cut(s) 1113
SaqAI TTAA 2 cut(s) 665, 1100
Sau3AI GATC 2 cut(s) 643, 858
Sau96I GGNCC 1 cut(s) 527
ScrFI CCNGG 2 cut(s) 279, 1022
SduI GDGCHC 3 cut(s) 162, 948, 1096
SfaNI GCATC 4 cut(s) 163, 760, 851, 1162
SfcI CTRYAG 1 cut(s) 1137
SfoI GGCGCC 1 cut(s) 602
SphI GCATGC 1 cut(s) 632
Sse9I AATT 5 cut(s) 289, 666, 1009, 1122, 1176
SsiI CCGC 9 cut(s) 34, 43, 54, 82, 85, 390, 395, 410, 598
SspDI GGCGCC 1 cut(s) 600
SspI AATATT 1 cut(s) 1133
SspMI CTAG 2 cut(s) 605, 1195
SstI GAGCTC 2 cut(s) 162, 948
StyD4I CCNGG 2 cut(s) 277, 1020
StyI CCWWGG 1 cut(s) 720
TaaI ACNGT 3 cut(s) 541, 583, 731
TaiI ACGT 2 cut(s) 140, 575
TaqI TCGA 3 cut(s) 273, 354, 377
TasI AATT 5 cut(s) 289, 666, 1009, 1122, 1176
TauI GCSGC 5 cut(s) 57, 85, 392, 398, 601
TfiI GAWTC 4 cut(s) 59, 374, 776, 1118
Tru1I TTAA 2 cut(s) 665, 1100
Tru9I TTAA 2 cut(s) 665, 1100
TscAI CASTG 3 cut(s) 257, 472, 736
TseI GCWGC 5 cut(s) 284, 392, 595, 839, 990
TspDTI ATGAA 1 cut(s) 834
TspGWI ACGGA 3 cut(s) 177, 731, 973
TspRI CASTG 3 cut(s) 257, 472, 736
Van91I CCANNNNNTGG 1 cut(s) 256
XapI RAATTY 1 cut(s) 1009
XceI RCATGY 1 cut(s) 632
XmnI GAANNNNTTC 1 cut(s) 236
XspI CTAG 2 cut(s) 605, 1195
ZraI GACGTC 1 cut(s) 573
Zsp2I ATGCAT 1 cut(s) 1150
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.