Rroxscaffold_4G00331680

SpoU rRNA Methylase family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0013498
Physical Location & Seq
Reverse (-)
65648791 .. 65652038
3248 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00331680.1

Sequence Viewer

Length: 810 bp
ATGCTGCCGGCAATGGACAGCAGCGGCTTGAAAACCCTAACCCCATTCTCTCCTAATCCATTTCGCTCCAGAGGAGGAGCTCCTCTCTTTGCTTCTCTATACTTGGCTCACCTCAACCGCAAATCCCGCCTCTCTCTTTCCTCCACTCGCTTCTCTCCTCGCTCCTCACTCTTGAATGATGTTGCAGCTGAGAGGGGCAGAGAGTGTTCTTTGGCTCATGGGGCAGGGGAGGCAATCAAGCAAGTCTCACAAACCAAGATTCTTCAAGTGGTTCTCGTGTCTCCTCAGATTCCTGGAAATACAGGTTGCATTGCCAGAACATGTGCAGCATCAGCAGTTGGGCTTCATCTGGTTGGGCCCTTGGGCTTTCAGATTGATGATGCAAAATTAAAGCGTGCTGGATTGGACTATTGGCCATATGTGGTTGTCAAAGTTCACAGCTCATGGGCAGAGTTTCAAGACTATTTCAGGCAACAGGATGGTGAAAAGCGGTTGCTTGCATTTACAAAGAGAGCGACAAAATTTCATTCAGATTTTTCTTATAGAAGAGGTGATTTTCTCATATTTGGGTCAGAAACAAGCGGCCTACCACCTGAAGCCCTGCAAGACTGCAAGAGTGGAACATTTGGCGGTGGAACACTTAGGATTCCAATGGTTGAAACGTATGTAAGATGTCTCAATCTCTCTGTAAGTGTTGGCATTGCTTTATATGAAGCTTCGAGACAGTTAAATTATGAGCAGCTTCAATTTCCACTTGAAAATTGTATTGATAGTGAAAAATCAATTGTCACAGAGGACATTTTTGCATAA
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
SpoU_methylase

Protein Analysis

269

Amino Acids

29.56

Weight (kDa)

8.88

Isoelectric Point (pI)

43.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SpoU_methylase PF00588 88 - 237 9.1e-31 SpoU rRNA Methylase family
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: OG0013498)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G26880
fragaria_vesca FvH4_7g00690 FvH4_7g00690 FvH4_7g00690
malus_domestica MD07G1006600.v1.1
prunus_persica Prupe.2G009700_v2.0.a1 Prupe.2G009700_v2.0.a1
pyrus_communis pycom07g00530
rosa_chinensis RchiOBHm_Chr1g0314911
rosa_laevigata RLG00000030755
rosa_roxburghii Rroxscaffold_4G00331680
rosa_rugosa Rorug01G0002900 Rorug01G0003000
rosa_samantha Rh1AG013900 Rh1BG005500 Rh1CG012200 Rh1DG007300
rosa_wichuraiana Rw1G000650

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 6 cut(s) 24, 118, 127, 490, 582, 630
AcoI YGGCCR 1 cut(s) 413
AcsI RAATTY 1 cut(s) 521
AcuI CTGAAG 1 cut(s) 615
AflIII ACRYGT 1 cut(s) 320
AgsI TTSAA 7 cut(s) 31, 175, 266, 458, 659, 746, 758
AjnI CCWGG 1 cut(s) 292
AluBI AGCT 5 cut(s) 80, 188, 441, 716, 742
AluI AGCT 5 cut(s) 80, 188, 441, 716, 742
Alw21I GWGCWC 1 cut(s) 82
Alw26I GTCTC 4 cut(s) 250, 285, 680, 715
AoxI GGCC 3 cut(s) 356, 413, 583
ApaI GGGCCC 1 cut(s) 360
ApeKI GCWGC 5 cut(s) 4, 21, 185, 326, 739
ApoI RAATTY 1 cut(s) 521
AspS9I GGNCC 2 cut(s) 356, 357
AsuHPI GGTGA 3 cut(s) 101, 494, 563
BaeGI GKGCMC 1 cut(s) 360
BalI TGGCCA 1 cut(s) 415
BanII GRGCYC 2 cut(s) 82, 360
BauI CACGAG 1 cut(s) 275
Bbv12I GWGCWC 1 cut(s) 82
BbvI GCAGC 4 cut(s) 33, 197, 338, 751
BccI CCATC 1 cut(s) 473
BciT130I CCWGG 1 cut(s) 294
BcoDI GTCTC 4 cut(s) 250, 285, 680, 715
BisI GCNGC 7 cut(s) 5, 22, 25, 186, 327, 583, 740
BlsI GCNGC 7 cut(s) 6, 23, 26, 187, 328, 584, 741
Bme1390I CCNGG 1 cut(s) 294
BmgT120I GGNCC 2 cut(s) 356, 357
BmiI GGNNCC 1 cut(s) 358
BmrFI CCNGG 1 cut(s) 294
BmsI GCATC 2 cut(s) 338, 370
BplI GAGNNNNNCTC 2 cut(s) 69, 101
BpmI CTGGAG 1 cut(s) 52
BsaJI CCNNGG 1 cut(s) 360
Bse118I RCCGGY 1 cut(s) 7
Bse3DI GCAATG 3 cut(s) 18, 309, 699
BseBI CCWGG 1 cut(s) 294
BseDI CCNNGG 1 cut(s) 360
BseGI GGATG 1 cut(s) 484
BseMI GCAATG 3 cut(s) 18, 309, 699
BseMII CTCAG 2 cut(s) 180, 299
BseRI GAGGAG 6 cut(s) 72, 87, 90, 147, 154, 273
BseSI GKGCMC 1 cut(s) 360
BseXI GCAGC 4 cut(s) 33, 197, 338, 751
BsgI GTGCAG 1 cut(s) 345
BshFI GGCC 3 cut(s) 358, 415, 585
BsiHKAI GWGCWC 1 cut(s) 82
BsiSI CCGG 1 cut(s) 8
BsmAI GTCTC 4 cut(s) 250, 285, 680, 715
BsnI GGCC 3 cut(s) 358, 415, 585
Bsp120I GGGCCC 1 cut(s) 356
Bsp1286I GDGCHC 2 cut(s) 82, 360
BspACI CCGC 6 cut(s) 24, 118, 127, 490, 582, 630
BspANI GGCC 3 cut(s) 358, 415, 585
BspCNI CTCAG 2 cut(s) 181, 298
BspLI GGNNCC 1 cut(s) 358
BsrDI GCAATG 3 cut(s) 18, 309, 699
BsrFI RCCGGY 1 cut(s) 7
BssAI RCCGGY 1 cut(s) 7
BssECI CCNNGG 1 cut(s) 360
BssSI CACGAG 1 cut(s) 275
BssT1I CCWWGG 1 cut(s) 360
Bst2BI CACGAG 1 cut(s) 275
Bst2UI CCWGG 1 cut(s) 294
Bst4CI ACNGT 1 cut(s) 726
Bst6I CTCTTC 1 cut(s) 541
BstC8I GCNNGC 3 cut(s) 9, 396, 498
BstDEI CTNAG 3 cut(s) 189, 285, 641
BstF5I GGATG 1 cut(s) 484
BstMAI GTCTC 4 cut(s) 250, 285, 680, 715
BstMWI GCNNNNNNNGC 4 cut(s) 126, 221, 230, 332
BstNI CCWGG 1 cut(s) 294
BstNSI RCATGY 1 cut(s) 324
BstSCI CCNGG 1 cut(s) 292
BstSLI GKGCMC 1 cut(s) 360
BstV1I GCAGC 4 cut(s) 33, 197, 338, 751
BsuRI GGCC 3 cut(s) 358, 415, 585
BtsCI GGATG 1 cut(s) 484
Cac8I GCNNGC 3 cut(s) 9, 396, 498
Cfr10I RCCGGY 1 cut(s) 7
Cfr13I GGNCC 2 cut(s) 356, 357
CviAII CATG 3 cut(s) 218, 321, 444
DdeI CTNAG 3 cut(s) 189, 285, 641
EaeI YGGCCR 1 cut(s) 413
Eam1104I CTCTTC 1 cut(s) 541
EarI CTCTTC 1 cut(s) 541
Ecl136II GAGCTC 1 cut(s) 80
Eco130I CCWWGG 1 cut(s) 360
Eco24I GRGCYC 2 cut(s) 82, 360
Eco53kI GAGCTC 1 cut(s) 80
Eco57I CTGAAG 1 cut(s) 615
EcoICRI GAGCTC 1 cut(s) 80
EcoO109I RGGNCCY 1 cut(s) 357
EcoRII CCWGG 1 cut(s) 292
EcoT14I CCWWGG 1 cut(s) 360
EcoT38I GRGCYC 2 cut(s) 82, 360
ErhI CCWWGG 1 cut(s) 360
FaeI CATG 3 cut(s) 221, 324, 447
FatI CATG 3 cut(s) 217, 320, 443
FauI CCCGC 1 cut(s) 134
FauNDI CATATG 1 cut(s) 418
Fnu4HI GCNGC 7 cut(s) 5, 22, 25, 186, 327, 583, 740
FokI GGATG 1 cut(s) 491
FriOI GRGCYC 2 cut(s) 82, 360
Fsp4HI GCNGC 7 cut(s) 5, 22, 25, 186, 327, 583, 740
GluI GCNGC 7 cut(s) 5, 22, 25, 186, 327, 583, 740
GsuI CTGGAG 1 cut(s) 52
HaeIII GGCC 3 cut(s) 358, 415, 585
HapII CCGG 1 cut(s) 8
Hin1II CATG 3 cut(s) 221, 324, 447
HindIII AAGCTT 1 cut(s) 714
HinfI GANTC 3 cut(s) 259, 289, 646
HpaII CCGG 1 cut(s) 8
HphI GGTGA 3 cut(s) 101, 494, 563
Hpy166II GTNNAC 1 cut(s) 436
Hpy188I TCNGA 4 cut(s) 288, 372, 532, 574
Hpy188III TCNNGA 4 cut(s) 69, 172, 458, 720
Hpy8I GTNNAC 1 cut(s) 436
HpyCH4III ACNGT 1 cut(s) 726
HpyCH4IV ACGT 1 cut(s) 662
HpyCH4V TGCA 8 cut(s) 185, 309, 326, 383, 500, 604, 612, 806
HpyF10VI GCNNNNNNNGC 4 cut(s) 126, 221, 230, 332
HpyF3I CTNAG 3 cut(s) 189, 285, 641
HpySE526I ACGT 1 cut(s) 662
Hsp92II CATG 3 cut(s) 221, 324, 447
KroI GCCGGC 1 cut(s) 7
KroNI GCCGGC 1 cut(s) 9
LmnI GCTCC 4 cut(s) 71, 77, 85, 167
Lsp1109I GCAGC 4 cut(s) 33, 197, 338, 751
LweI GCATC 2 cut(s) 338, 370
MaeII ACGT 1 cut(s) 662
MaeIII GTNAC 1 cut(s) 787
MboII GAAGA 2 cut(s) 254, 558
MfeI CAATTG 1 cut(s) 783
MhlI GDGCHC 2 cut(s) 82, 360
MlsI TGGCCA 1 cut(s) 415
MluCI AATT 6 cut(s) 386, 521, 730, 746, 760, 783
MluNI TGGCCA 1 cut(s) 415
Mox20I TGGCCA 1 cut(s) 415
MroNI GCCGGC 1 cut(s) 7
MscI TGGCCA 1 cut(s) 415
MseI TTAA 2 cut(s) 389, 728
Msp20I TGGCCA 1 cut(s) 415
MspA1I CMGCKG 2 cut(s) 24, 188
MspI CCGG 1 cut(s) 8
MspR9I CCNGG 1 cut(s) 294
MunI CAATTG 1 cut(s) 783
MvaI CCWGG 1 cut(s) 294
MwoI GCNNNNNNNGC 4 cut(s) 126, 221, 230, 332
NaeI GCCGGC 1 cut(s) 9
NdeI CATATG 1 cut(s) 418
NgoMIV GCCGGC 1 cut(s) 7
NlaIII CATG 3 cut(s) 221, 324, 447
NlaIV GGNNCC 1 cut(s) 358
NmuCI GTSAC 1 cut(s) 787
NspI RCATGY 1 cut(s) 324
PciI ACATGT 1 cut(s) 320
PdiI GCCGGC 1 cut(s) 9
PfeI GAWTC 3 cut(s) 259, 289, 646
PfoI TCCNGGA 1 cut(s) 292
PkrI GCNGC 7 cut(s) 6, 23, 26, 187, 328, 584, 741
PscI ACATGT 1 cut(s) 320
Psp124BI GAGCTC 1 cut(s) 82
Psp6I CCWGG 1 cut(s) 292
PspGI CCWGG 1 cut(s) 292
PspN4I GGNNCC 1 cut(s) 358
PspOMI GGGCCC 1 cut(s) 356
PspPI GGNCC 2 cut(s) 356, 357
PvuII CAGCTG 1 cut(s) 188
SacI GAGCTC 1 cut(s) 82
SaqAI TTAA 2 cut(s) 389, 728
SatI GCNGC 7 cut(s) 5, 22, 25, 186, 327, 583, 740
Sau96I GGNCC 2 cut(s) 356, 357
ScrFI CCNGG 1 cut(s) 294
SduI GDGCHC 2 cut(s) 82, 360
SfaNI GCATC 2 cut(s) 338, 370
Sse9I AATT 6 cut(s) 386, 521, 730, 746, 760, 783
SsiI CCGC 6 cut(s) 24, 118, 127, 490, 582, 630
SstI GAGCTC 1 cut(s) 82
StyD4I CCNGG 1 cut(s) 292
StyI CCWWGG 1 cut(s) 360
TaaI ACNGT 1 cut(s) 726
TaiI ACGT 1 cut(s) 665
TaqI TCGA 1 cut(s) 719
TasI AATT 6 cut(s) 386, 521, 730, 746, 760, 783
TauI GCSGC 2 cut(s) 27, 585
TfiI GAWTC 3 cut(s) 259, 289, 646
Tru1I TTAA 2 cut(s) 389, 728
Tru9I TTAA 2 cut(s) 389, 728
TseFI GTSAC 1 cut(s) 787
TseI GCWGC 5 cut(s) 4, 21, 185, 326, 739
Tsp45I GTSAC 1 cut(s) 787
TspDTI ATGAA 3 cut(s) 335, 515, 726
XapI RAATTY 1 cut(s) 521
XceI RCATGY 1 cut(s) 324
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.