Rroxscaffold_4G00285030

Putative tRNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0012158
Physical Location & Seq
Reverse (-)
6489757 .. 6497397
7641 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00285030.1

Sequence Viewer

Length: 1356 bp
ATGAGACCATCAAATATTCCCCTTCAAGTATCATATGCTTCAGAACTCCCTTTTCTTCTACATGGCTCTTCTGAGTCTACTTCGTTTTTTATGATTAAGTCCATTCTGCACTACAAATTCTTCACTGTCAAGCATCAACCATGTACTTCAGCAGTCTGCTCTTATCCCAAGTCAAATGAACAGTGCAATTGGCAGGGATTTCTGGGAGATATAGACTCATATCTTTTTCAAATTTGCAGCTCAAAGCTTCAAGCTTTATCACCATACGGCCAAAAAGGAAGCCCTGAGAAAGTGAATGATGAGGTGCTTAAGTGGATGAAATATGCAGAGGGGTTTCCTAGTGATCCCCAGGCATGCGTTGGAGCTCTGAAAGAGTTGAATGAAACCTTGGCTGACAGGACTGTGCTTTTGGGCAATGGGTTCACACCTTCTGAAGCCGATGTTAGTGTGTTTGCTGCGGTGCATTCATCTGTGATTGGTCTTTCGAATTCAGATAGGAAAAAGTTTCAGCATGTATTGAGATGGGCGACACACATCCAGCACAACGTGGATTTCGGAAACTTACTCGAGAAGATAGTAGTAGAGGAAGTTGAATTTGATTTCCATAAGTTAGACGTTTTGCTGAAACCAAAAAGTGCAGCTAAGGAGGAAGTAGATTCAAATGCAAAGATGACTGTTCAAAGCACAAAAAGTGCTGACAAGCCGGAAGCAGGCCCGAGCACAAAGAAAAGTGATGCAGGATCGATTACAATGAGGAATAGCCAAATTATCCTTTGTGAGTGCGTTAGCCAACTTGTCATCCTTGGTAGCTACTCAAGAGAAGAAAAATCAGCAGAGGTAGAGGCAGTTGAAAAAGATAAAGAAATTAGTGTCAGTTTGTTGAATATACAGGTTGGCCTCATTCGAAAAGCTTGGAAGCATCCATCTGCTGACAGTTTACTGGTTGAGGAGATAGATGTGGGAGATGCTAAATTGAGGCAAGTGGTTAGCGGCCTGGCAAAGTTTTGCAGTCCAGAAGAATTGACGAACCGTCGTGTTGTGCTGATTACAAATGTGAAACCTGGGAAATTACGTGACGTAATGTCAGAAGGACTGGTGCTGTGTGCTTCTAGTGAAGATCACACCCTTGTAGAGCCTTTGCTCCCCCCAGAAGGCGCCAAAATCGGGGAACGTGTCGTATTTTCTGGGATTGATGGAAAGCCAGAAGATGTCCTCAACCCAAAAAAGAAGCAGTTGGATAAGATTACACCGCATCTCTTCACTGATGACAAGGGTGTTGCTACATTCAAGGGTATTCCTTTCATGACATCTGCAGGGCCTTGCACATCATCCATTTCGAAGGGAACTGTCAAATGA
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
GST_C tRNA_bind

Protein Analysis

451

Amino Acids

49.47

Weight (kDa)

6.29

Isoelectric Point (pI)

41.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Arc1p_N_like PF21972 122 - 182 4.3e-12 Nuclear-export cofactor Arc1p
tRNA_bind PF01588 296 - 391 3.6e-26 Putative tRNA binding 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: OG0012158)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G40660
fragaria_vesca FvH4_7g25960
malus_domestica MD01G1168000.v1.1 MD07G1234000.v1.1
prunus_persica Prupe.2G264400_v2.0.a1
pyrus_communis pycom01g18100 pycom07g21180
rosa_chinensis RchiOBHm_Chr1g0372341
rosa_laevigata RLG00000026906
rosa_multiflora Rmu_sc0001755.1_g000007
rosa_roxburghii Rroxscaffold_4G00285030
rosa_rugosa Rorug01G0371300 Rorug01G0371300 Rorug01G0371300
rosa_samantha Rh1AG379700 Rh1BG343200 Rh1CG356700 Rh1DG374400
rosa_wichuraiana Rw1G033380

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 1154
AccI GTMKAC 1 cut(s) 77
AciI CCGC 3 cut(s) 458, 990, 1250
AclWI GGATC 2 cut(s) 338, 748
AcoI YGGCCR 1 cut(s) 268
AcsI RAATTY 4 cut(s) 116, 231, 487, 593
AcuI CTGAAG 3 cut(s) 24, 132, 453
AcyI GRCGYC 1 cut(s) 1155
AdeI CACNNNGTG 1 cut(s) 547
AfaI GTAC 1 cut(s) 145
AfiI CCNNNNNNNGG 3 cut(s) 710, 1151, 1164
AflII CTTAAG 1 cut(s) 308
AflIII ACRYGT 1 cut(s) 1171
AhdI GACNNNNNGTC 2 cut(s) 1029, 1081
AjnI CCWGG 3 cut(s) 348, 993, 1060
AjuI GAANNNNNNNTTGG 2 cut(s) 371, 403
AluBI AGCT 7 cut(s) 240, 247, 254, 365, 641, 810, 911
AluI AGCT 7 cut(s) 240, 247, 254, 365, 641, 810, 911
Alw21I GWGCWC 2 cut(s) 367, 722
AlwI GGATC 2 cut(s) 338, 748
Ama87I CYCGRG 2 cut(s) 566, 715
AoxI GGCC 5 cut(s) 268, 712, 895, 991, 1316
ApeKI GCWGC 3 cut(s) 237, 455, 638
ApoI RAATTY 4 cut(s) 116, 231, 487, 593
ArsI GACNNNNNNTTYG 2 cut(s) 391, 423
AspLEI GCGC 1 cut(s) 1157
AspS9I GGNCC 2 cut(s) 713, 1316
AsuHPI GGTGA 1 cut(s) 252
AsuII TTCGAA 3 cut(s) 485, 904, 1337
AvaI CYCGRG 2 cut(s) 566, 715
BanI GGYRCC 1 cut(s) 1154
BanII GRGCYC 1 cut(s) 367
Bbv12I GWGCWC 2 cut(s) 367, 722
BbvI GCAGC 3 cut(s) 249, 442, 650
BccI CCATC 4 cut(s) 16, 516, 931, 1187
BceAI ACGGC 1 cut(s) 283
BciT130I CCWGG 3 cut(s) 350, 995, 1062
BfaI CTAG 2 cut(s) 339, 1110
BfmI CTRYAG 1 cut(s) 1311
BfoI RGCGCY 1 cut(s) 1158
BfrI CTTAAG 1 cut(s) 308
BisI GCNGC 4 cut(s) 238, 456, 639, 991
BlsI GCNGC 4 cut(s) 239, 457, 640, 992
Bme1390I CCNGG 3 cut(s) 350, 995, 1062
BmeRI GACNNNNNGTC 2 cut(s) 1029, 1081
BmeT110I CYCGRG 2 cut(s) 566, 715
BmgT120I GGNCC 2 cut(s) 713, 1316
BmiI GGNNCC 1 cut(s) 1156
BmrFI CCNGG 3 cut(s) 350, 995, 1062
BmsI GCATC 5 cut(s) 142, 724, 928, 955, 1261
Bpu10I CCTNAGC 1 cut(s) 642
Bpu14I TTCGAA 3 cut(s) 485, 904, 1337
BpuEI CTTGAG 1 cut(s) 799
Bsa29I ATCGAT 1 cut(s) 743
BsaAI YACGTR 1 cut(s) 1073
BsaHI GRCGYC 1 cut(s) 1155
BsaJI CCNNGG 4 cut(s) 348, 387, 802, 1061
Bsc4I CCNNNNNNNGG 3 cut(s) 710, 1151, 1164
Bse1I ACTGG 2 cut(s) 945, 1098
Bse3DI GCAATG 1 cut(s) 421
BseBI CCWGG 3 cut(s) 350, 995, 1062
BseCI ATCGAT 1 cut(s) 743
BseDI CCNNGG 4 cut(s) 348, 387, 802, 1061
BseGI GGATG 5 cut(s) 321, 534, 798, 919, 1328
BseLI CCNNNNNNNGG 3 cut(s) 710, 1151, 1164
BseMI GCAATG 1 cut(s) 421
BseMII CTCAG 2 cut(s) 63, 276
BseNI ACTGG 2 cut(s) 945, 1098
BseRI GAGGAG 1 cut(s) 962
BseXI GCAGC 3 cut(s) 249, 442, 650
BsgI GTGCAG 2 cut(s) 92, 657
BshFI GGCC 5 cut(s) 270, 714, 897, 993, 1318
BshNI GGYRCC 1 cut(s) 1154
BshVI ATCGAT 1 cut(s) 743
BsiHKAI GWGCWC 2 cut(s) 367, 722
BsiHKCI CYCGRG 2 cut(s) 566, 715
BsiSI CCGG 1 cut(s) 704
BslI CCNNNNNNNGG 3 cut(s) 710, 1151, 1164
BsmI GAATGC 1 cut(s) 463
BsnI GGCC 5 cut(s) 270, 714, 897, 993, 1318
BsoBI CYCGRG 2 cut(s) 566, 715
Bsp119I TTCGAA 3 cut(s) 485, 904, 1337
Bsp1286I GDGCHC 2 cut(s) 367, 722
Bsp143I GATC 3 cut(s) 343, 740, 1117
BspACI CCGC 3 cut(s) 458, 990, 1250
BspANI GGCC 5 cut(s) 270, 714, 897, 993, 1318
BspCNI CTCAG 2 cut(s) 64, 277
BspDI ATCGAT 1 cut(s) 743
BspHI TCATGA 1 cut(s) 1302
BspLI GGNNCC 1 cut(s) 1156
BspMAI CTGCAG 1 cut(s) 1315
BspPI GGATC 2 cut(s) 338, 748
BspQI GCTCTTC 1 cut(s) 73
BspT104I TTCGAA 3 cut(s) 485, 904, 1337
BspT107I GGYRCC 1 cut(s) 1154
BspTI CTTAAG 1 cut(s) 308
BsrDI GCAATG 1 cut(s) 421
BsrI ACTGG 2 cut(s) 945, 1098
BssECI CCNNGG 4 cut(s) 348, 387, 802, 1061
BssMI GATC 3 cut(s) 343, 740, 1117
BssNI GRCGYC 1 cut(s) 1155
BssT1I CCWWGG 2 cut(s) 387, 802
Bst2UI CCWGG 3 cut(s) 350, 995, 1062
Bst4CI ACNGT 7 cut(s) 127, 183, 403, 676, 935, 1031, 1348
Bst6I CTCTTC 2 cut(s) 73, 1262
BstACI GRCGYC 1 cut(s) 1155
BstAFI CTTAAG 1 cut(s) 308
BstBAI YACGTR 1 cut(s) 1073
BstBI TTCGAA 3 cut(s) 485, 904, 1337
BstC8I GCNNGC 2 cut(s) 355, 712
BstDEI CTNAG 3 cut(s) 72, 285, 642
BstF5I GGATG 5 cut(s) 321, 534, 798, 919, 1328
BstH2I RGCGCY 1 cut(s) 1158
BstHHI GCGC 1 cut(s) 1157
BstKTI GATC 3 cut(s) 346, 743, 1120
BstMBI GATC 3 cut(s) 343, 740, 1117
BstNI CCWGG 3 cut(s) 350, 995, 1062
BstNSI RCATGY 2 cut(s) 357, 515
BstSCI CCNGG 3 cut(s) 348, 993, 1060
BstSFI CTRYAG 1 cut(s) 1311
BstV1I GCAGC 3 cut(s) 249, 442, 650
Bsu15I ATCGAT 1 cut(s) 743
BsuRI GGCC 5 cut(s) 270, 714, 897, 993, 1318
BsuTUI ATCGAT 1 cut(s) 743
BtsCI GGATG 5 cut(s) 321, 534, 798, 919, 1328
BtsIMutI CAGTG 3 cut(s) 123, 188, 1260
Cac8I GCNNGC 2 cut(s) 355, 712
CciI TCATGA 1 cut(s) 1302
CfoI GCGC 1 cut(s) 1157
Cfr13I GGNCC 2 cut(s) 713, 1316
ClaI ATCGAT 1 cut(s) 743
Csp6I GTAC 1 cut(s) 144
CviAII CATG 5 cut(s) 62, 141, 354, 512, 1303
CviQI GTAC 1 cut(s) 144
DdeI CTNAG 3 cut(s) 72, 285, 642
DinI GGCGCC 1 cut(s) 1156
DpnI GATC 3 cut(s) 345, 742, 1119
DpnII GATC 3 cut(s) 343, 740, 1117
DraIII CACNNNGTG 1 cut(s) 547
DriI GACNNNNNGTC 2 cut(s) 1029, 1081
EaeI YGGCCR 1 cut(s) 268
Eam1104I CTCTTC 2 cut(s) 73, 1262
Eam1105I GACNNNNNGTC 2 cut(s) 1029, 1081
EarI CTCTTC 2 cut(s) 73, 1262
Ecl136II GAGCTC 1 cut(s) 365
Eco130I CCWWGG 2 cut(s) 387, 802
Eco24I GRGCYC 1 cut(s) 367
Eco53kI GAGCTC 1 cut(s) 365
Eco57I CTGAAG 3 cut(s) 24, 132, 453
Eco88I CYCGRG 2 cut(s) 566, 715
EcoICRI GAGCTC 1 cut(s) 365
EcoO109I RGGNCCY 1 cut(s) 1316
EcoRI GAATTC 1 cut(s) 487
EcoRII CCWGG 3 cut(s) 348, 993, 1060
EcoT14I CCWWGG 2 cut(s) 387, 802
EcoT38I GRGCYC 1 cut(s) 367
EgeI GGCGCC 1 cut(s) 1156
EheI GGCGCC 1 cut(s) 1156
ErhI CCWWGG 2 cut(s) 387, 802
FaeI CATG 5 cut(s) 65, 144, 357, 515, 1306
FatI CATG 5 cut(s) 61, 140, 353, 511, 1302
FauNDI CATATG 1 cut(s) 34
FblI GTMKAC 1 cut(s) 77
Fnu4HI GCNGC 4 cut(s) 238, 456, 639, 991
FokI GGATG 5 cut(s) 328, 521, 785, 906, 1315
FriOI GRGCYC 1 cut(s) 367
Fsp4HI GCNGC 4 cut(s) 238, 456, 639, 991
FspBI CTAG 2 cut(s) 339, 1110
GlaI GCGC 1 cut(s) 1156
GluI GCNGC 4 cut(s) 238, 456, 639, 991
HaeII RGCGCY 1 cut(s) 1158
HaeIII GGCC 5 cut(s) 270, 714, 897, 993, 1318
HapII CCGG 1 cut(s) 704
HhaI GCGC 1 cut(s) 1157
Hin1I GRCGYC 1 cut(s) 1155
Hin1II CATG 5 cut(s) 65, 144, 357, 515, 1306
Hin6I GCGC 1 cut(s) 1155
HinP1I GCGC 1 cut(s) 1155
HindIII AAGCTT 3 cut(s) 245, 252, 909
HinfI GANTC 3 cut(s) 74, 215, 656
HpaII CCGG 1 cut(s) 704
HphI GGTGA 1 cut(s) 252
Hpy166II GTNNAC 3 cut(s) 78, 423, 938
Hpy188I TCNGA 7 cut(s) 43, 73, 369, 433, 493, 557, 1087
Hpy188III TCNNGA 4 cut(s) 568, 816, 1013, 1303
Hpy8I GTNNAC 3 cut(s) 78, 423, 938
Hpy99I CGWCG 1 cut(s) 1035
HpyAV CCTTC 5 cut(s) 32, 438, 1082, 1145, 1333
HpyCH4III ACNGT 7 cut(s) 127, 183, 403, 676, 935, 1031, 1348
HpyCH4IV ACGT 5 cut(s) 546, 615, 1072, 1077, 1171
HpyF3I CTNAG 3 cut(s) 72, 285, 642
HpySE526I ACGT 5 cut(s) 546, 615, 1072, 1077, 1171
Hsp92I GRCGYC 1 cut(s) 1155
Hsp92II CATG 5 cut(s) 65, 144, 357, 515, 1306
HspAI GCGC 1 cut(s) 1155
KasI GGCGCC 1 cut(s) 1154
Kzo9I GATC 3 cut(s) 343, 740, 1117
LguI GCTCTTC 1 cut(s) 73
LmnI GCTCC 2 cut(s) 362, 1146
Lsp1109I GCAGC 3 cut(s) 249, 442, 650
LweI GCATC 5 cut(s) 142, 724, 928, 955, 1261
MaeI CTAG 2 cut(s) 339, 1110
MaeII ACGT 5 cut(s) 546, 615, 1072, 1077, 1171
MaeIII GTNAC 1 cut(s) 1073
MalI GATC 3 cut(s) 345, 742, 1119
MboI GATC 3 cut(s) 343, 740, 1117
MboII GAAGA 9 cut(s) 47, 60, 112, 583, 833, 1028, 1127, 1217, 1249
MfeI CAATTG 1 cut(s) 187
MhlI GDGCHC 2 cut(s) 367, 722
Mly113I GGCGCC 1 cut(s) 1155
MlyI GAGTC 2 cut(s) 83, 209
MmeI TCCRAC 2 cut(s) 340, 1215
MseI TTAA 2 cut(s) 96, 309
MspCI CTTAAG 1 cut(s) 308
MspI CCGG 1 cut(s) 704
MspR9I CCNGG 3 cut(s) 350, 995, 1062
MunI CAATTG 1 cut(s) 187
Mva1269I GAATGC 1 cut(s) 463
MvaI CCWGG 3 cut(s) 350, 995, 1062
NarI GGCGCC 1 cut(s) 1155
NdeI CATATG 1 cut(s) 34
NdeII GATC 3 cut(s) 343, 740, 1117
NlaIII CATG 5 cut(s) 65, 144, 357, 515, 1306
NlaIV GGNNCC 1 cut(s) 1156
NmuCI GTSAC 1 cut(s) 1073
NspI RCATGY 2 cut(s) 357, 515
NspV TTCGAA 3 cut(s) 485, 904, 1337
PaeI GCATGC 1 cut(s) 357
PaeR7I CTCGAG 1 cut(s) 566
PagI TCATGA 1 cut(s) 1302
PciSI GCTCTTC 1 cut(s) 73
PctI GAATGC 1 cut(s) 463
PfeI GAWTC 1 cut(s) 656
PkrI GCNGC 4 cut(s) 239, 457, 640, 992
PleI GAGTC 2 cut(s) 82, 209
PluTI GGCGCC 1 cut(s) 1158
PpsI GAGTC 2 cut(s) 82, 209
Ppu21I YACGTR 1 cut(s) 1073
Psp124BI GAGCTC 1 cut(s) 367
Psp6I CCWGG 3 cut(s) 348, 993, 1060
PspGI CCWGG 3 cut(s) 348, 993, 1060
PspN4I GGNNCC 1 cut(s) 1156
PspPI GGNCC 2 cut(s) 713, 1316
PstI CTGCAG 1 cut(s) 1315
RsaI GTAC 1 cut(s) 145
RsaNI GTAC 1 cut(s) 144
SacI GAGCTC 1 cut(s) 367
SapI GCTCTTC 1 cut(s) 73
SaqAI TTAA 2 cut(s) 96, 309
SatI GCNGC 4 cut(s) 238, 456, 639, 991
Sau3AI GATC 3 cut(s) 343, 740, 1117
Sau96I GGNCC 2 cut(s) 713, 1316
SchI GAGTC 2 cut(s) 83, 209
ScrFI CCNGG 3 cut(s) 350, 995, 1062
SduI GDGCHC 2 cut(s) 367, 722
SfaNI GCATC 5 cut(s) 142, 724, 928, 955, 1261
SfcI CTRYAG 1 cut(s) 1311
SfoI GGCGCC 1 cut(s) 1156
Sfr274I CTCGAG 1 cut(s) 566
SfuI TTCGAA 3 cut(s) 485, 904, 1337
SlaI CTCGAG 1 cut(s) 566
SmlI CTYRAG 3 cut(s) 308, 566, 814
SmoI CTYRAG 3 cut(s) 308, 566, 814
SphI GCATGC 1 cut(s) 357
SsiI CCGC 3 cut(s) 458, 990, 1250
SspDI GGCGCC 1 cut(s) 1154
SspI AATATT 1 cut(s) 16
SspMI CTAG 2 cut(s) 339, 1110
SstI GAGCTC 1 cut(s) 367
StyD4I CCNGG 3 cut(s) 348, 993, 1060
StyI CCWWGG 2 cut(s) 387, 802
TaaI ACNGT 7 cut(s) 127, 183, 403, 676, 935, 1031, 1348
TaiI ACGT 5 cut(s) 549, 618, 1075, 1080, 1174
TaqI TCGA 5 cut(s) 485, 567, 743, 904, 1337
TatI WGTACW 1 cut(s) 143
TauI GCSGC 1 cut(s) 993
TfiI GAWTC 1 cut(s) 656
Tru1I TTAA 2 cut(s) 96, 309
Tru9I TTAA 2 cut(s) 96, 309
TscAI CASTG 3 cut(s) 130, 188, 1267
TseFI GTSAC 1 cut(s) 1073
TseI GCWGC 3 cut(s) 237, 455, 638
Tsp45I GTSAC 1 cut(s) 1073
TspDTI ATGAA 5 cut(s) 192, 332, 396, 456, 1291
TspRI CASTG 3 cut(s) 130, 188, 1267
Vha464I CTTAAG 1 cut(s) 308
XapI RAATTY 4 cut(s) 116, 231, 487, 593
XceI RCATGY 2 cut(s) 357, 515
XcmI CCANNNNNNNNNTGG 1 cut(s) 356
XhoI CTCGAG 1 cut(s) 566
XmiI GTMKAC 1 cut(s) 77
XspI CTAG 2 cut(s) 339, 1110
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.