Rh2DG671900

TruB family pseudouridylate synthase (N terminal domain)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2D
OG0014138
Physical Location & Seq
Forward (+)
89421055 .. 89424376
3322 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2DG671900.1

Sequence Viewer

Length: 1260 bp
ATGGCTAAACCAGTCTCTCTGTCTCTTCTGTTCCTTCGCCCCGCCACACTCTCCCGCCTTCTCCCACACCCACCAACCCTCACCCTCACCCGCACCAGAACCAGCCCCCTTCTCTCCTCCCATACGCCGTCGTTTTCAACCACCTCCACTCCATTCCCACTCCAGTACGACCTCATCATCAACCGCCCCACCCAGTCCTCGCTCGACCGCCGCCCCGCCCGCGCCGCCAAACCCGACTCATCCGGGTCGGAGTCCGATTCCCCCGAAAAGCCCAACGAATTGGGGTTCGACAACTGGCTGGACCAGAAGCTCGATCCGATGGAGAAGAAGAAGAGGAAGTATTATAACAAGCGGAGGAAGCGGATGTACGGCGGCGATTCGGAGGAGGAGGAGGAGAAGCGGCGGGAGGGGGAGAGGCTGGTGGAGCTGAAGCCGGAGGTGGTGGAGTTCAACACGTTGCACAAGAGAGAGGAGGAGCTCTACTTCTACGATACGTTTGCGTATCCGTGGGAGAAGGACAAGCATTACAAGATGGTGTACCAGCTGGAGAAGAAGTACTATCCCGACCAGTGTCTGGACCAAGCGTTTCTCGAACCCGGTGCAACGAATTGCAATCTGAGTAGGAAGAAGAAAGAGCGTGGTGGTGGTGATGATAAGGGAATGGTGTTTTTCGAGGGGAAGGGGGAGGGAGAATCGAGAGAACCGGCCGCTGCGGCGAAGGATGTTGCAGAGAAGAAGGTGGAGGAGTTTTTCAAGTGTTTGAAGAAAGTGCCGAAGGAAGTCAGTGATGAGGGGGAGCCGTATCTGTTGACAAGGAGTAGCGAGCTTCCTCCGAGGTGGGACGGGCCGTATGGGACTGTGGTTTTGGTGAACAAACCGAAAGGGTGGACGTCTTTTACTGTCTGTGGAAAGCTGCGGCGCCTAGTCAAAGTGAAGAAGGTAGGGCATGCTGGTACGCTTGATCCGATGGCAACTGGTTTGTTAATTGTATGTGTTGGTAAAGCTACTAAGGTTGTAGACAGCTATCAAGGTATGACCAAGGGTTACAGTGGAGTTTTCCGTCTGGGGGAGGCTACTTCAACTTGGGACGCTGATTCACCGGTCATTCAGCGTGAGCCGTGGGAGCATATCAAAGATGAAGATATAAAGAAAACTGCTGCATCCTTTTGTGGAGAGATCTGGCAAGTACCTCCAATGTTTTCTGCCATCAAAGTAAGCATTTCTTCTCTTCTATGTAGTTGTGACCCTGTGCAGGAGTAG
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

419

Amino Acids

47.54

Weight (kDa)

8.66

Isoelectric Point (pI)

52.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TruB_N PF01509 306 - 406 3.2e-36 TruB family pseudouridylate synthase (N 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) 345
AatII GACGTC 1 cut(s) 893
AccB1I GGYRCC 1 cut(s) 918
AccB7I CCANNNNNTGG 1 cut(s) 574
AccI GTMKAC 1 cut(s) 1017
AccII CGCG 1 cut(s) 222
AclWI GGATC 2 cut(s) 308, 956
AcoI YGGCCR 1 cut(s) 705
AcuI CTGAAG 1 cut(s) 449
AcyI GRCGYC 2 cut(s) 890, 919
AfaI GTAC 6 cut(s) 167, 368, 539, 557, 955, 1188
AfiI CCNNNNNNNGG 3 cut(s) 574, 1066, 1252
AflIII ACRYGT 1 cut(s) 453
AgeI ACCGGT 1 cut(s) 1099
AgsI TTSAA 5 cut(s) 138, 451, 754, 763, 1080
AluBI AGCT 8 cut(s) 310, 427, 478, 544, 826, 913, 1004, 1023
AluI AGCT 8 cut(s) 310, 427, 478, 544, 826, 913, 1004, 1023
Alw21I GWGCWC 1 cut(s) 480
Alw26I GTCTC 2 cut(s) 19, 27
AlwI GGATC 2 cut(s) 308, 956
AlwNI CAGNNNCTG 1 cut(s) 574
AoxI GGCC 2 cut(s) 705, 845
ApeKI GCWGC 3 cut(s) 710, 913, 1157
ArsI GACNNNNNNTTYG 2 cut(s) 847, 879
AsiGI ACCGGT 1 cut(s) 1099
AspLEI GCGC 2 cut(s) 224, 921
AspS9I GGNCC 3 cut(s) 301, 577, 845
AsuC2I CCSGG 2 cut(s) 244, 597
AsuHPI GGTGA 5 cut(s) 73, 79, 659, 880, 1089
AvaII GGWCC 2 cut(s) 301, 577
BanI GGYRCC 1 cut(s) 918
BanII GRGCYC 1 cut(s) 480
BarI GAAGNNNNNNTAC 2 cut(s) 350, 382
Bbv12I GWGCWC 1 cut(s) 480
BbvI GCAGC 3 cut(s) 697, 900, 1144
BccI CCATC 4 cut(s) 313, 526, 961, 1214
BceAI ACGGC 5 cut(s) 112, 385, 784, 832, 1102
BcgI CGANNNNNNTGC 4 cut(s) 479, 513, 581, 615
BciVI GTATCC 1 cut(s) 513
BcnI CCSGG 2 cut(s) 244, 597
BcoDI GTCTC 2 cut(s) 19, 27
BfaI CTAG 1 cut(s) 923
BfoI RGCGCY 1 cut(s) 922
BfuI GTATCC 1 cut(s) 513
BglI GCCNNNNNGGC 1 cut(s) 713
BglII AGATCT 1 cut(s) 1176
BmcAI AGTACT 1 cut(s) 557
Bme1390I CCNGG 2 cut(s) 244, 597
Bme18I GGWCC 2 cut(s) 301, 577
BmgT120I GGNCC 3 cut(s) 301, 577, 845
BmiI GGNNCC 2 cut(s) 798, 920
BmrFI CCNGG 2 cut(s) 244, 597
BmrI ACTGGG 1 cut(s) 187
BmsI GCATC 1 cut(s) 1169
BmuI ACTGGG 1 cut(s) 187
BoxI GACNNNNGTC 1 cut(s) 570
BpmI CTGGAG 2 cut(s) 146, 566
BpuMI CCSGG 2 cut(s) 244, 597
BsaHI GRCGYC 2 cut(s) 890, 919
BsaJI CCNNGG 4 cut(s) 506, 833, 1038, 1118
BsaWI WCCGGW 1 cut(s) 1099
BsaXI ACNNNNNCTCC 4 cut(s) 133, 163, 539, 569
Bsc4I CCNNNNNNNGG 3 cut(s) 574, 1066, 1252
Bse118I RCCGGY 2 cut(s) 703, 1099
Bse1I ACTGG 6 cut(s) 11, 163, 193, 299, 568, 979
BseDI CCNNGG 4 cut(s) 506, 833, 1038, 1118
BseGI GGATG 4 cut(s) 239, 369, 727, 1160
BseLI CCNNNNNNNGG 3 cut(s) 574, 1066, 1252
BseMII CTCAG 1 cut(s) 608
BseNI ACTGG 6 cut(s) 11, 163, 193, 299, 568, 979
BseRI GAGGAG 8 cut(s) 106, 398, 401, 404, 407, 485, 488, 758
BseX3I CGGCCG 1 cut(s) 705
BseXI GCAGC 3 cut(s) 697, 900, 1144
Bsh1236I CGCG 1 cut(s) 222
Bsh1285I CGRYCG 2 cut(s) 208, 708
BshFI GGCC 2 cut(s) 707, 847
BshNI GGYRCC 1 cut(s) 918
BshTI ACCGGT 1 cut(s) 1099
BsiEI CGRYCG 2 cut(s) 208, 708
BsiHKAI GWGCWC 1 cut(s) 480
BsiSI CCGG 5 cut(s) 243, 434, 597, 704, 1100
BslFI GGGAC 3 cut(s) 854, 868, 1100
BslI CCNNNNNNNGG 3 cut(s) 574, 1066, 1252
BsmAI GTCTC 2 cut(s) 19, 27
BsmFI GGGAC 3 cut(s) 854, 868, 1100
BsnI GGCC 2 cut(s) 707, 847
Bsp1286I GDGCHC 1 cut(s) 480
Bsp143I GATC 3 cut(s) 313, 961, 1176
BspANI GGCC 2 cut(s) 707, 847
BspCNI CTCAG 1 cut(s) 609
BspFNI CGCG 1 cut(s) 222
BspLI GGNNCC 2 cut(s) 798, 920
BspPI GGATC 2 cut(s) 308, 956
BspT107I GGYRCC 1 cut(s) 918
BsrFI RCCGGY 2 cut(s) 703, 1099
BsrI ACTGG 6 cut(s) 11, 163, 193, 299, 568, 979
BssAI RCCGGY 2 cut(s) 703, 1099
BssECI CCNNGG 4 cut(s) 506, 833, 1038, 1118
BssMI GATC 3 cut(s) 313, 961, 1176
BssNI GRCGYC 2 cut(s) 890, 919
BssT1I CCWWGG 1 cut(s) 1038
Bst4CI ACNGT 3 cut(s) 859, 901, 1049
Bst6I CTCTTC 3 cut(s) 30, 326, 1233
BstACI GRCGYC 2 cut(s) 890, 919
BstC8I GCNNGC 3 cut(s) 220, 824, 948
BstDEI CTNAG 2 cut(s) 617, 1008
BstDSI CCRYGG 2 cut(s) 506, 1118
BstF5I GGATG 4 cut(s) 239, 369, 727, 1160
BstFNI CGCG 1 cut(s) 222
BstH2I RGCGCY 1 cut(s) 922
BstHHI GCGC 2 cut(s) 224, 921
BstKTI GATC 3 cut(s) 316, 964, 1179
BstMAI GTCTC 2 cut(s) 19, 27
BstMBI GATC 3 cut(s) 313, 961, 1176
BstMCI CGRYCG 2 cut(s) 208, 708
BstMWI GCNNNNNNNGC 6 cut(s) 219, 224, 358, 424, 713, 1123
BstNSI RCATGY 1 cut(s) 950
BstPAI GACNNNNGTC 1 cut(s) 570
BstSCI CCNGG 2 cut(s) 242, 595
BstUI CGCG 1 cut(s) 222
BstV1I GCAGC 3 cut(s) 697, 900, 1144
BstX2I RGATCY 1 cut(s) 1176
BstXI CCANNNNNNTGG 1 cut(s) 280
BstYI RGATCY 1 cut(s) 1176
BstZI CGGCCG 1 cut(s) 705
BsuI GTATCC 1 cut(s) 513
BsuRI GGCC 2 cut(s) 707, 847
BtgI CCRYGG 2 cut(s) 506, 1118
BtsCI GGATG 4 cut(s) 239, 369, 727, 1160
BtsIMutI CAGTG 3 cut(s) 575, 790, 1054
Cac8I GCNNGC 3 cut(s) 220, 824, 948
CaiI CAGNNNCTG 1 cut(s) 574
CfoI GCGC 2 cut(s) 224, 921
Cfr10I RCCGGY 2 cut(s) 703, 1099
Cfr13I GGNCC 3 cut(s) 301, 577, 845
CseI GACGC 1 cut(s) 1097
Csp6I GTAC 6 cut(s) 166, 367, 538, 556, 954, 1187
CspAI ACCGGT 1 cut(s) 1099
CviAII CATG 1 cut(s) 947
CviQI GTAC 6 cut(s) 166, 367, 538, 556, 954, 1187
DdeI CTNAG 2 cut(s) 617, 1008
DinI GGCGCC 1 cut(s) 920
DpnI GATC 3 cut(s) 315, 963, 1178
DpnII GATC 3 cut(s) 313, 961, 1176
EaeI YGGCCR 1 cut(s) 705
EagI CGGCCG 1 cut(s) 705
Eam1104I CTCTTC 3 cut(s) 30, 326, 1233
EarI CTCTTC 3 cut(s) 30, 326, 1233
Ecl136II GAGCTC 1 cut(s) 478
EclXI CGGCCG 1 cut(s) 705
Eco130I CCWWGG 1 cut(s) 1038
Eco24I GRGCYC 1 cut(s) 480
Eco47I GGWCC 2 cut(s) 301, 577
Eco52I CGGCCG 1 cut(s) 705
Eco53kI GAGCTC 1 cut(s) 478
Eco57I CTGAAG 1 cut(s) 449
EcoICRI GAGCTC 1 cut(s) 478
EcoT14I CCWWGG 1 cut(s) 1038
EcoT38I GRGCYC 1 cut(s) 480
EgeI GGCGCC 1 cut(s) 920
EheI GGCGCC 1 cut(s) 920
ErhI CCWWGG 1 cut(s) 1038
FaeI CATG 1 cut(s) 950
FaiI YATR 9 cut(s) 123, 345, 852, 948, 991, 1034, 1128, 1145, 1234
FalI AAGNNNNNCTT 2 cut(s) 1207, 1239
FaqI GGGAC 3 cut(s) 854, 868, 1100
FatI CATG 1 cut(s) 946
FauI CCCGC 6 cut(s) 49, 62, 98, 223, 227, 396
FblI GTMKAC 1 cut(s) 1017
FokI GGATG 4 cut(s) 226, 376, 734, 1147
FriOI GRGCYC 1 cut(s) 480
FspBI CTAG 1 cut(s) 923
GlaI GCGC 2 cut(s) 223, 920
GsuI CTGGAG 2 cut(s) 146, 566
HaeII RGCGCY 1 cut(s) 922
HaeIII GGCC 2 cut(s) 707, 847
HapII CCGG 5 cut(s) 243, 434, 597, 704, 1100
HgaI GACGC 1 cut(s) 1097
HhaI GCGC 2 cut(s) 224, 921
Hin1I GRCGYC 2 cut(s) 890, 919
Hin1II CATG 1 cut(s) 950
Hin6I GCGC 2 cut(s) 222, 919
HinP1I GCGC 2 cut(s) 222, 919
HincII GTYRAC 1 cut(s) 810
HindII GTYRAC 1 cut(s) 810
HinfI GANTC 6 cut(s) 236, 251, 257, 377, 692, 1094
HpaII CCGG 5 cut(s) 243, 434, 597, 704, 1100
HphI GGTGA 5 cut(s) 73, 79, 659, 880, 1089
Hpy166II GTNNAC 5 cut(s) 538, 810, 871, 888, 1018
Hpy188I TCNGA 7 cut(s) 250, 256, 318, 382, 618, 834, 966
Hpy188III TCNNGA 4 cut(s) 563, 575, 590, 696
Hpy8I GTNNAC 5 cut(s) 538, 810, 871, 888, 1018
Hpy99I CGWCG 1 cut(s) 133
HpyAV CCTTC 9 cut(s) 44, 68, 119, 508, 673, 712, 730, 769, 931
HpyCH4III ACNGT 3 cut(s) 859, 901, 1049
HpyCH4IV ACGT 3 cut(s) 455, 494, 890
HpyCH4V TGCA 6 cut(s) 460, 602, 612, 728, 1160, 1252
HpyF10VI GCNNNNNNNGC 6 cut(s) 219, 224, 358, 424, 713, 1123
HpyF3I CTNAG 2 cut(s) 617, 1008
HpySE526I ACGT 3 cut(s) 455, 494, 890
Hsp92I GRCGYC 2 cut(s) 890, 919
Hsp92II CATG 1 cut(s) 950
HspAI GCGC 2 cut(s) 222, 919
KasI GGCGCC 1 cut(s) 918
Kzo9I GATC 3 cut(s) 313, 961, 1176
LmnI GCTCC 4 cut(s) 424, 475, 796, 1123
Lsp1109I GCAGC 3 cut(s) 697, 900, 1144
LweI GCATC 1 cut(s) 1169
MaeI CTAG 1 cut(s) 923
MaeII ACGT 3 cut(s) 455, 494, 890
MaeIII GTNAC 2 cut(s) 1043, 1241
MalI GATC 3 cut(s) 315, 963, 1178
MboI GATC 3 cut(s) 313, 961, 1176
MflI RGATCY 1 cut(s) 1176
MhlI GDGCHC 1 cut(s) 480
MluCI AATT 3 cut(s) 278, 607, 984
Mly113I GGCGCC 1 cut(s) 919
MlyI GAGTC 2 cut(s) 230, 260
MmeI TCCRAC 1 cut(s) 228
MseI TTAA 1 cut(s) 983
MspA1I CMGCKG 2 cut(s) 544, 710
MspI CCGG 5 cut(s) 243, 434, 597, 704, 1100
MspR9I CCNGG 2 cut(s) 244, 597
MvnI CGCG 1 cut(s) 222
MwoI GCNNNNNNNGC 6 cut(s) 219, 224, 358, 424, 713, 1123
NarI GGCGCC 1 cut(s) 919
NciI CCSGG 2 cut(s) 244, 597
NdeII GATC 3 cut(s) 313, 961, 1176
NlaIII CATG 1 cut(s) 950
NlaIV GGNNCC 2 cut(s) 798, 920
NmuCI GTSAC 1 cut(s) 1241
NspI RCATGY 1 cut(s) 950
PaeI GCATGC 1 cut(s) 950
PcsI WCGNNNNNNNCGW 1 cut(s) 962
PfeI GAWTC 4 cut(s) 257, 377, 692, 1094
PflMI CCANNNNNTGG 1 cut(s) 574
PinAI ACCGGT 1 cut(s) 1099
PleI GAGTC 2 cut(s) 230, 259
PluTI GGCGCC 1 cut(s) 922
PpsI GAGTC 2 cut(s) 230, 259
PshAI GACNNNNGTC 1 cut(s) 570
PsiI TTATAA 1 cut(s) 345
Psp124BI GAGCTC 1 cut(s) 480
PspN4I GGNNCC 2 cut(s) 798, 920
PspPI GGNCC 3 cut(s) 301, 577, 845
PstNI CAGNNNCTG 1 cut(s) 574
PsuI RGATCY 1 cut(s) 1176
PvuII CAGCTG 1 cut(s) 544
RsaI GTAC 6 cut(s) 167, 368, 539, 557, 955, 1188
RsaNI GTAC 6 cut(s) 166, 367, 538, 556, 954, 1187
SacI GAGCTC 1 cut(s) 480
SaqAI TTAA 1 cut(s) 983
Sau3AI GATC 3 cut(s) 313, 961, 1176
Sau96I GGNCC 3 cut(s) 301, 577, 845
ScaI AGTACT 1 cut(s) 557
SchI GAGTC 2 cut(s) 230, 260
ScrFI CCNGG 2 cut(s) 244, 597
SduI GDGCHC 1 cut(s) 480
SfaNI GCATC 1 cut(s) 1169
SfoI GGCGCC 1 cut(s) 920
SinI GGWCC 2 cut(s) 301, 577
SphI GCATGC 1 cut(s) 950
Sse9I AATT 3 cut(s) 278, 607, 984
SspDI GGCGCC 1 cut(s) 918
SspMI CTAG 1 cut(s) 923
SstI GAGCTC 1 cut(s) 480
StyD4I CCNGG 2 cut(s) 242, 595
StyI CCWWGG 1 cut(s) 1038
TaaI ACNGT 3 cut(s) 859, 901, 1049
TaiI ACGT 3 cut(s) 458, 497, 893
TaqI TCGA 6 cut(s) 204, 288, 312, 591, 672, 695
TasI AATT 3 cut(s) 278, 607, 984
TatI WGTACW 1 cut(s) 555
TauI GCSGC 7 cut(s) 213, 227, 375, 403, 710, 716, 919
TfiI GAWTC 4 cut(s) 257, 377, 692, 1094
Tru1I TTAA 1 cut(s) 983
Tru9I TTAA 1 cut(s) 983
TscAI CASTG 3 cut(s) 575, 790, 1054
TseFI GTSAC 1 cut(s) 1241
TseI GCWGC 3 cut(s) 710, 913, 1157
Tsp45I GTSAC 1 cut(s) 1241
TspDTI ATGAA 1 cut(s) 1152
TspGWI ACGGA 2 cut(s) 495, 1049
TspRI CASTG 3 cut(s) 575, 790, 1054
Van91I CCANNNNNTGG 1 cut(s) 574
VpaK11BI GGWCC 2 cut(s) 301, 577
XceI RCATGY 1 cut(s) 950
XmiI GTMKAC 1 cut(s) 1017
XspI CTAG 1 cut(s) 923
ZraI GACGTC 1 cut(s) 891
ZrmI AGTACT 1 cut(s) 557
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.