Rh2BG658100

TruB family pseudouridylate synthase (N terminal domain)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2B
OG0014138
Physical Location & Seq
Forward (+)
87442604 .. 87445651
3048 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2BG658100.1

Sequence Viewer

Length: 1263 bp
ATGGCTAAACCAGTCTCTCTGTCTCTTCTGTTCCTTCGCCCCGCCACACTCTCCCGCCTTCTCCCACACCCACCAACCCTCACCCGCACCAGAACCAACCCCCTTCTCTCCTCCCATACGCCGTCGTTTTCAACCACCTCCACTCCATTCCCACTCCAGTACGACCTCATCATCAACCGCCCCACCCAGTCCTCGCTCGACCGCCTCCCTCGCCGCCCCGCCCGCGCCGCCAAACCCGACTCATCCGGGTCGGAGTCCGATTCCCCCGAAAAGCCCAACGAATTGGGGTTCGACAACTGGCTGGACCAGAAGCTCGATCCGATGGAGAAGAAGAAGAGGAAGTATTATAACAAGCGGAGGAAGCGGATGTACGGCGGCGATTCGGAGGAGGAGGAGGAGAAGCGGCGGGAGGGGGAGAAGCTGGTGGAGCTGAAGCCGGAGGTGGTGGAGTTCAACACGTTGCACAAGAGAGAGGAGGAGCTCTACTTCTACGATACGTTTGCGTATCCGTGGGAGAAGGACAAGCATTACAAGATGGTGTACCAGCTGGAGAAGAAGTACTATCCCGACCAGTGTCTGGACAAGGCGTTTCTCGAACCCGGTGCAACGAATTGCAATCTGAGTAGGAAGAAGATAGAGCGTGGTGATGATGATGATAAGGGAATGGTGTTTTTCGAGGGGAAGGGGGAGGGAGAATCGAGAGAACCGGCTGCTGCGACGAAGGATGTTGCAGAGAAGAAGGTGGAGGAGTTTTTCAAGTGTTTGAAGAAAGTGCCGAAGGAAGTTAGTAATGAGGGGGAGCCGTATCTGTTGACAAGGAGTAGCGAGCTTCCTCCGAGGTGGGACGGGCCGTATGGGACTGTGGTTTTGGTGAACAAACCGAAAGGGTGGACGTCCTTTACAGTCTGTGGAAAGCTGCGGCGCCTAGTCAAAGTGAAGAAGGTAGGGCATGCTGGAACGCTTGATCCGATGGCAACTGGTTTGTTAATTGTATGTGTTGGTAAAGCTACTAAGGTTGTAGACGGCTATCAAGGTATGACCAAGGGTTACAGTGGAGTTTTCCGTCTGGGGGAGGCTACTTCAACCTGGGATGCTGATTCACCGGTCATTCAGCGTGAGCCGTGGGAGCATATCAAAGATGAAGATATAAAGAAAACTGCTGCATCCTTTTGTGGAGAGATCTGGCAAGTACCTCCAATGTTTTCTGCCATCAAAGTAAGCATTTCTTCTCTTCTATGTAGTTGTGACCCTGTGCAGGAGTAG
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

420

Amino Acids

47.79

Weight (kDa)

8.65

Isoelectric Point (pI)

50.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TruB_N PF01509 307 - 407 9.9e-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) 348
AatII GACGTC 1 cut(s) 896
AccB1I GGYRCC 1 cut(s) 921
AccB7I CCANNNNNTGG 1 cut(s) 577
AccI GTMKAC 1 cut(s) 1020
AccII CGCG 1 cut(s) 225
AclWI GGATC 2 cut(s) 311, 959
AcuI CTGAAG 1 cut(s) 452
AcyI GRCGYC 2 cut(s) 893, 922
AfaI GTAC 5 cut(s) 161, 371, 542, 560, 1191
AfiI CCNNNNNNNGG 3 cut(s) 577, 1069, 1255
AflIII ACRYGT 1 cut(s) 456
AgeI ACCGGT 1 cut(s) 1102
AgsI TTSAA 5 cut(s) 132, 454, 757, 766, 1083
AjnI CCWGG 1 cut(s) 1085
AloI GAACNNNNNNTCC 2 cut(s) 949, 981
AluBI AGCT 8 cut(s) 313, 421, 430, 481, 547, 829, 916, 1007
AluI AGCT 8 cut(s) 313, 421, 430, 481, 547, 829, 916, 1007
Alw21I GWGCWC 1 cut(s) 483
Alw26I GTCTC 2 cut(s) 19, 27
AlwI GGATC 2 cut(s) 311, 959
AlwNI CAGNNNCTG 1 cut(s) 577
AoxI GGCC 1 cut(s) 848
ApeKI GCWGC 4 cut(s) 710, 713, 916, 1160
ArsI GACNNNNNNTTYG 2 cut(s) 850, 882
AsiGI ACCGGT 1 cut(s) 1102
AspLEI GCGC 2 cut(s) 227, 924
AspS9I GGNCC 2 cut(s) 304, 848
AsuC2I CCSGG 2 cut(s) 247, 600
AsuHPI GGTGA 4 cut(s) 73, 656, 883, 1092
AvaII GGWCC 1 cut(s) 304
BanI GGYRCC 1 cut(s) 921
BanII GRGCYC 1 cut(s) 483
BarI GAAGNNNNNNTAC 2 cut(s) 353, 385
Bbv12I GWGCWC 1 cut(s) 483
BbvI GCAGC 4 cut(s) 697, 700, 903, 1147
BccI CCATC 4 cut(s) 316, 529, 964, 1217
BceAI ACGGC 6 cut(s) 106, 388, 787, 835, 1039, 1105
BcgI CGANNNNNNTGC 4 cut(s) 482, 516, 584, 618
BciT130I CCWGG 1 cut(s) 1087
BciVI GTATCC 1 cut(s) 516
BcnI CCSGG 2 cut(s) 247, 600
BcoDI GTCTC 2 cut(s) 19, 27
BfaI CTAG 1 cut(s) 926
BfoI RGCGCY 1 cut(s) 925
BfuI GTATCC 1 cut(s) 516
BglII AGATCT 1 cut(s) 1179
BisI GCNGC 9 cut(s) 214, 228, 376, 404, 711, 714, 917, 920, 1161
BlsI GCNGC 9 cut(s) 215, 229, 377, 405, 712, 715, 918, 921, 1162
BmcAI AGTACT 1 cut(s) 560
Bme1390I CCNGG 3 cut(s) 247, 600, 1087
Bme18I GGWCC 1 cut(s) 304
BmgT120I GGNCC 2 cut(s) 304, 848
BmiI GGNNCC 2 cut(s) 801, 923
BmrFI CCNGG 3 cut(s) 247, 600, 1087
BmrI ACTGGG 1 cut(s) 181
BmsI GCATC 2 cut(s) 1081, 1172
BmuI ACTGGG 1 cut(s) 181
BoxI GACNNNNGTC 1 cut(s) 573
BpmI CTGGAG 2 cut(s) 140, 569
BpuMI CCSGG 2 cut(s) 247, 600
BsaHI GRCGYC 2 cut(s) 893, 922
BsaJI CCNNGG 5 cut(s) 509, 836, 1041, 1086, 1121
BsaWI WCCGGW 1 cut(s) 1102
BsaXI ACNNNNNCTCC 4 cut(s) 127, 157, 542, 572
Bsc4I CCNNNNNNNGG 3 cut(s) 577, 1069, 1255
Bse118I RCCGGY 2 cut(s) 706, 1102
Bse1I ACTGG 6 cut(s) 11, 157, 187, 302, 571, 982
BseBI CCWGG 1 cut(s) 1087
BseDI CCNNGG 5 cut(s) 509, 836, 1041, 1086, 1121
BseGI GGATG 5 cut(s) 242, 372, 730, 1096, 1163
BseLI CCNNNNNNNGG 3 cut(s) 577, 1069, 1255
BseMII CTCAG 1 cut(s) 611
BseNI ACTGG 6 cut(s) 11, 157, 187, 302, 571, 982
BseRI GAGGAG 8 cut(s) 100, 401, 404, 407, 410, 488, 491, 761
BseXI GCAGC 4 cut(s) 697, 700, 903, 1147
Bsh1236I CGCG 1 cut(s) 225
Bsh1285I CGRYCG 1 cut(s) 202
BshFI GGCC 1 cut(s) 850
BshNI GGYRCC 1 cut(s) 921
BshTI ACCGGT 1 cut(s) 1102
BsiEI CGRYCG 1 cut(s) 202
BsiHKAI GWGCWC 1 cut(s) 483
BsiSI CCGG 5 cut(s) 246, 437, 600, 707, 1103
BslFI GGGAC 2 cut(s) 857, 871
BslI CCNNNNNNNGG 3 cut(s) 577, 1069, 1255
BsmAI GTCTC 2 cut(s) 19, 27
BsmFI GGGAC 2 cut(s) 857, 871
BsnI GGCC 1 cut(s) 850
Bsp1286I GDGCHC 1 cut(s) 483
Bsp143I GATC 3 cut(s) 316, 964, 1179
BspANI GGCC 1 cut(s) 850
BspCNI CTCAG 1 cut(s) 612
BspFNI CGCG 1 cut(s) 225
BspLI GGNNCC 2 cut(s) 801, 923
BspPI GGATC 2 cut(s) 311, 959
BspT107I GGYRCC 1 cut(s) 921
BsrFI RCCGGY 2 cut(s) 706, 1102
BsrI ACTGG 6 cut(s) 11, 157, 187, 302, 571, 982
BssAI RCCGGY 2 cut(s) 706, 1102
BssECI CCNNGG 5 cut(s) 509, 836, 1041, 1086, 1121
BssMI GATC 3 cut(s) 316, 964, 1179
BssNI GRCGYC 2 cut(s) 893, 922
BssT1I CCWWGG 1 cut(s) 1041
Bst2UI CCWGG 1 cut(s) 1087
Bst4CI ACNGT 3 cut(s) 862, 904, 1052
Bst6I CTCTTC 3 cut(s) 30, 329, 1236
BstACI GRCGYC 2 cut(s) 893, 922
BstC8I GCNNGC 3 cut(s) 223, 827, 951
BstDEI CTNAG 2 cut(s) 620, 1011
BstDSI CCRYGG 2 cut(s) 509, 1121
BstF5I GGATG 5 cut(s) 242, 372, 730, 1096, 1163
BstFNI CGCG 1 cut(s) 225
BstH2I RGCGCY 1 cut(s) 925
BstHHI GCGC 2 cut(s) 227, 924
BstKTI GATC 3 cut(s) 319, 967, 1182
BstMAI GTCTC 2 cut(s) 19, 27
BstMBI GATC 3 cut(s) 316, 964, 1179
BstMCI CGRYCG 1 cut(s) 202
BstMWI GCNNNNNNNGC 6 cut(s) 210, 222, 227, 361, 427, 1126
BstNI CCWGG 1 cut(s) 1087
BstNSI RCATGY 1 cut(s) 953
BstPAI GACNNNNGTC 1 cut(s) 573
BstSCI CCNGG 3 cut(s) 245, 598, 1085
BstUI CGCG 1 cut(s) 225
BstV1I GCAGC 4 cut(s) 697, 700, 903, 1147
BstX2I RGATCY 1 cut(s) 1179
BstXI CCANNNNNNTGG 1 cut(s) 283
BstYI RGATCY 1 cut(s) 1179
BsuI GTATCC 1 cut(s) 516
BsuRI GGCC 1 cut(s) 850
BtgI CCRYGG 2 cut(s) 509, 1121
BtsCI GGATG 5 cut(s) 242, 372, 730, 1096, 1163
BtsIMutI CAGTG 2 cut(s) 578, 1057
Cac8I GCNNGC 3 cut(s) 223, 827, 951
CaiI CAGNNNCTG 1 cut(s) 577
CfoI GCGC 2 cut(s) 227, 924
Cfr10I RCCGGY 2 cut(s) 706, 1102
Cfr13I GGNCC 2 cut(s) 304, 848
Csp6I GTAC 5 cut(s) 160, 370, 541, 559, 1190
CspAI ACCGGT 1 cut(s) 1102
CviAII CATG 1 cut(s) 950
CviQI GTAC 5 cut(s) 160, 370, 541, 559, 1190
DdeI CTNAG 2 cut(s) 620, 1011
DinI GGCGCC 1 cut(s) 923
DpnI GATC 3 cut(s) 318, 966, 1181
DpnII GATC 3 cut(s) 316, 964, 1179
Eam1104I CTCTTC 3 cut(s) 30, 329, 1236
EarI CTCTTC 3 cut(s) 30, 329, 1236
Ecl136II GAGCTC 1 cut(s) 481
Eco130I CCWWGG 1 cut(s) 1041
Eco24I GRGCYC 1 cut(s) 483
Eco47I GGWCC 1 cut(s) 304
Eco53kI GAGCTC 1 cut(s) 481
Eco57I CTGAAG 1 cut(s) 452
EcoICRI GAGCTC 1 cut(s) 481
EcoRII CCWGG 1 cut(s) 1085
EcoT14I CCWWGG 1 cut(s) 1041
EcoT38I GRGCYC 1 cut(s) 483
EgeI GGCGCC 1 cut(s) 923
EheI GGCGCC 1 cut(s) 923
ErhI CCWWGG 1 cut(s) 1041
FaeI CATG 1 cut(s) 953
FaiI YATR 9 cut(s) 117, 348, 855, 951, 994, 1037, 1131, 1148, 1237
FalI AAGNNNNNCTT 2 cut(s) 1210, 1242
FaqI GGGAC 2 cut(s) 857, 871
FatI CATG 1 cut(s) 949
FauI CCCGC 6 cut(s) 49, 62, 92, 226, 230, 399
FblI GTMKAC 1 cut(s) 1020
Fnu4HI GCNGC 9 cut(s) 214, 228, 376, 404, 711, 714, 917, 920, 1161
FokI GGATG 5 cut(s) 229, 379, 737, 1103, 1150
FriOI GRGCYC 1 cut(s) 483
Fsp4HI GCNGC 9 cut(s) 214, 228, 376, 404, 711, 714, 917, 920, 1161
FspBI CTAG 1 cut(s) 926
GlaI GCGC 2 cut(s) 226, 923
GluI GCNGC 9 cut(s) 214, 228, 376, 404, 711, 714, 917, 920, 1161
GsuI CTGGAG 2 cut(s) 140, 569
HaeII RGCGCY 1 cut(s) 925
HaeIII GGCC 1 cut(s) 850
HapII CCGG 5 cut(s) 246, 437, 600, 707, 1103
HhaI GCGC 2 cut(s) 227, 924
Hin1I GRCGYC 2 cut(s) 893, 922
Hin1II CATG 1 cut(s) 953
Hin6I GCGC 2 cut(s) 225, 922
HinP1I GCGC 2 cut(s) 225, 922
HincII GTYRAC 1 cut(s) 813
HindII GTYRAC 1 cut(s) 813
HinfI GANTC 6 cut(s) 239, 254, 260, 380, 695, 1097
HpaII CCGG 5 cut(s) 246, 437, 600, 707, 1103
HphI GGTGA 4 cut(s) 73, 656, 883, 1092
Hpy166II GTNNAC 5 cut(s) 541, 813, 874, 891, 1021
Hpy188I TCNGA 7 cut(s) 253, 259, 321, 385, 621, 837, 969
Hpy188III TCNNGA 4 cut(s) 566, 578, 593, 699
Hpy8I GTNNAC 5 cut(s) 541, 813, 874, 891, 1021
Hpy99I CGWCG 2 cut(s) 127, 721
HpyAV CCTTC 9 cut(s) 44, 68, 113, 511, 676, 715, 733, 772, 934
HpyCH4III ACNGT 3 cut(s) 862, 904, 1052
HpyCH4IV ACGT 3 cut(s) 458, 497, 893
HpyCH4V TGCA 6 cut(s) 463, 605, 615, 731, 1163, 1255
HpyF10VI GCNNNNNNNGC 6 cut(s) 210, 222, 227, 361, 427, 1126
HpyF3I CTNAG 2 cut(s) 620, 1011
HpySE526I ACGT 3 cut(s) 458, 497, 893
Hsp92I GRCGYC 2 cut(s) 893, 922
Hsp92II CATG 1 cut(s) 953
HspAI GCGC 2 cut(s) 225, 922
KasI GGCGCC 1 cut(s) 921
Kzo9I GATC 3 cut(s) 316, 964, 1179
LmnI GCTCC 4 cut(s) 427, 478, 799, 1126
Lsp1109I GCAGC 4 cut(s) 697, 700, 903, 1147
LweI GCATC 2 cut(s) 1081, 1172
MaeI CTAG 1 cut(s) 926
MaeII ACGT 3 cut(s) 458, 497, 893
MaeIII GTNAC 2 cut(s) 1046, 1244
MalI GATC 3 cut(s) 318, 966, 1181
MboI GATC 3 cut(s) 316, 964, 1179
MflI RGATCY 1 cut(s) 1179
MhlI GDGCHC 1 cut(s) 483
MluCI AATT 3 cut(s) 281, 610, 987
Mly113I GGCGCC 1 cut(s) 922
MlyI GAGTC 2 cut(s) 233, 263
MmeI TCCRAC 1 cut(s) 231
MseI TTAA 1 cut(s) 986
MspA1I CMGCKG 1 cut(s) 547
MspI CCGG 5 cut(s) 246, 437, 600, 707, 1103
MspR9I CCNGG 3 cut(s) 247, 600, 1087
MvaI CCWGG 1 cut(s) 1087
MvnI CGCG 1 cut(s) 225
MwoI GCNNNNNNNGC 6 cut(s) 210, 222, 227, 361, 427, 1126
NarI GGCGCC 1 cut(s) 922
NciI CCSGG 2 cut(s) 247, 600
NdeII GATC 3 cut(s) 316, 964, 1179
NlaIII CATG 1 cut(s) 953
NlaIV GGNNCC 2 cut(s) 801, 923
NmuCI GTSAC 1 cut(s) 1244
NspI RCATGY 1 cut(s) 953
PaeI GCATGC 1 cut(s) 953
PcsI WCGNNNNNNNCGW 1 cut(s) 965
PfeI GAWTC 4 cut(s) 260, 380, 695, 1097
PflMI CCANNNNNTGG 1 cut(s) 577
PinAI ACCGGT 1 cut(s) 1102
PkrI GCNGC 9 cut(s) 215, 229, 377, 405, 712, 715, 918, 921, 1162
PleI GAGTC 2 cut(s) 233, 262
PluTI GGCGCC 1 cut(s) 925
PpsI GAGTC 2 cut(s) 233, 262
PshAI GACNNNNGTC 1 cut(s) 573
PsiI TTATAA 1 cut(s) 348
Psp124BI GAGCTC 1 cut(s) 483
Psp6I CCWGG 1 cut(s) 1085
PspGI CCWGG 1 cut(s) 1085
PspN4I GGNNCC 2 cut(s) 801, 923
PspPI GGNCC 2 cut(s) 304, 848
PstNI CAGNNNCTG 1 cut(s) 577
PsuI RGATCY 1 cut(s) 1179
PvuII CAGCTG 1 cut(s) 547
RsaI GTAC 5 cut(s) 161, 371, 542, 560, 1191
RsaNI GTAC 5 cut(s) 160, 370, 541, 559, 1190
SacI GAGCTC 1 cut(s) 483
SaqAI TTAA 1 cut(s) 986
SatI GCNGC 9 cut(s) 214, 228, 376, 404, 711, 714, 917, 920, 1161
Sau3AI GATC 3 cut(s) 316, 964, 1179
Sau96I GGNCC 2 cut(s) 304, 848
ScaI AGTACT 1 cut(s) 560
SchI GAGTC 2 cut(s) 233, 263
ScrFI CCNGG 3 cut(s) 247, 600, 1087
SduI GDGCHC 1 cut(s) 483
SfaNI GCATC 2 cut(s) 1081, 1172
SfoI GGCGCC 1 cut(s) 923
SinI GGWCC 1 cut(s) 304
SphI GCATGC 1 cut(s) 953
Sse9I AATT 3 cut(s) 281, 610, 987
SspDI GGCGCC 1 cut(s) 921
SspMI CTAG 1 cut(s) 926
SstI GAGCTC 1 cut(s) 483
StyD4I CCNGG 3 cut(s) 245, 598, 1085
StyI CCWWGG 1 cut(s) 1041
TaaI ACNGT 3 cut(s) 862, 904, 1052
TaiI ACGT 3 cut(s) 461, 500, 896
TaqI TCGA 6 cut(s) 198, 291, 315, 594, 675, 698
TasI AATT 3 cut(s) 281, 610, 987
TatI WGTACW 1 cut(s) 558
TauI GCSGC 5 cut(s) 216, 230, 378, 406, 922
TfiI GAWTC 4 cut(s) 260, 380, 695, 1097
Tru1I TTAA 1 cut(s) 986
Tru9I TTAA 1 cut(s) 986
TscAI CASTG 2 cut(s) 578, 1057
TseFI GTSAC 1 cut(s) 1244
TseI GCWGC 4 cut(s) 710, 713, 916, 1160
Tsp45I GTSAC 1 cut(s) 1244
TspDTI ATGAA 1 cut(s) 1155
TspGWI ACGGA 2 cut(s) 498, 1052
TspRI CASTG 2 cut(s) 578, 1057
Van91I CCANNNNNTGG 1 cut(s) 577
VpaK11BI GGWCC 1 cut(s) 304
XceI RCATGY 1 cut(s) 953
XmiI GTMKAC 1 cut(s) 1020
XspI CTAG 1 cut(s) 926
ZraI GACGTC 1 cut(s) 894
ZrmI AGTACT 1 cut(s) 560
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.