Rh1DG007300

SpoU rRNA Methylase family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0013498
Physical Location & Seq
Forward (+)
1041801 .. 1044902
3102 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG007300.1

Sequence Viewer

Length: 792 bp
ATGCTGCCGGCAATGGACAGCAGCGGCTTGAAAACCCTAACCCCTTTCTCTCCTTTAAATCCATTTCGCTCCAGAGGAGGAGGACCCCCTCTCTTTGCTTCTCTATTCTTGGCTCATCTCAACCGCAAATCCCGCCTCTCTCTCTCCTCCACTCGCTGCTCACTCTCTGAGAGGGGCAAAGAGAGTTGTTCTTTGGCTCATGGGGCAGGGGAGGCACTCAAGCAAGTCTCACAAACTAAGATTCTTCAAGTCGTTCTCGTGTCTCCTCAGATTCCTGGAAATACAGGTTGCATTGCCAGAACATGTGCAGCATCAGCAGTTGGGCTTCATCTGGTTGGGCCGTTGGGCTTTCAGATTGATGATGCAAAATTAAAGCGTGCTGGATTGGACTATTGGCCATATGTGGTTGTCAAAGTTCACAGCTCATGGGCAGAGTTTCAAGACTATTTCAGGCAACAGGATGGTGAAAAGCGGTTGCTAGCATTTACAAAGAGAGCGACAAAATTTCATTCAGATTTTTCTTACAGAAGAGGTGATTTTCTCGTATTTGGGTCAGAAACCAGCGGCCTACCACCTGAAGCCCTCCAAGATTGCAAGAGTGGAACATTTGGCGGTGGAACACTTAGGATTCCAATGGTTGAAACGTATGTAAGATGTCTCAATCTCTCTGTAAGTGTTGGCATTGCTTTATATGAAGCTTCGAGACAGTTAAATTATGAGCAGCTTCAATTTCCACTTGAAAATTGTATTGATAGTGAAAAATCAATTGTCACAGAGGACATTTTTGCATAA
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

263

Amino Acids

28.82

Weight (kDa)

8.82

Isoelectric Point (pI)

41.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SpoU_methylase PF00588 82 - 231 4.4e-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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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, 124, 133, 472, 564, 612
AcoI YGGCCR 1 cut(s) 395
AcsI RAATTY 1 cut(s) 503
AcuI CTGAAG 1 cut(s) 597
AflIII ACRYGT 1 cut(s) 302
AgsI TTSAA 6 cut(s) 31, 248, 440, 641, 728, 740
AjnI CCWGG 1 cut(s) 274
AluBI AGCT 3 cut(s) 423, 698, 724
AluI AGCT 3 cut(s) 423, 698, 724
Alw26I GTCTC 4 cut(s) 232, 267, 662, 697
AoxI GGCC 3 cut(s) 338, 395, 565
ApeKI GCWGC 5 cut(s) 4, 21, 156, 308, 721
ApoI RAATTY 1 cut(s) 503
AspS9I GGNCC 2 cut(s) 83, 338
AsuHPI GGTGA 2 cut(s) 476, 545
AsuNHI GCTAGC 1 cut(s) 478
AvaII GGWCC 1 cut(s) 83
BalI TGGCCA 1 cut(s) 397
BauI CACGAG 1 cut(s) 257
BbvI GCAGC 4 cut(s) 33, 143, 320, 733
BccI CCATC 1 cut(s) 455
BceAI ACGGC 1 cut(s) 325
BciT130I CCWGG 1 cut(s) 276
BcoDI GTCTC 4 cut(s) 232, 267, 662, 697
BfaI CTAG 1 cut(s) 479
BisI GCNGC 7 cut(s) 5, 22, 25, 157, 309, 565, 722
BlsI GCNGC 7 cut(s) 6, 23, 26, 158, 310, 566, 723
Bme1390I CCNGG 1 cut(s) 276
Bme18I GGWCC 1 cut(s) 83
BmgT120I GGNCC 2 cut(s) 83, 338
BmiI GGNNCC 1 cut(s) 85
BmrFI CCNGG 1 cut(s) 276
BmsI GCATC 2 cut(s) 320, 352
BmtI GCTAGC 1 cut(s) 482
BpmI CTGGAG 1 cut(s) 55
BpuEI CTTGAG 1 cut(s) 203
Bse118I RCCGGY 1 cut(s) 7
Bse3DI GCAATG 3 cut(s) 18, 291, 681
BseBI CCWGG 1 cut(s) 276
BseGI GGATG 1 cut(s) 466
BseMI GCAATG 3 cut(s) 18, 291, 681
BseMII CTCAG 2 cut(s) 159, 281
BseRI GAGGAG 4 cut(s) 90, 93, 136, 255
BseXI GCAGC 4 cut(s) 33, 143, 320, 733
BsgI GTGCAG 1 cut(s) 327
BshFI GGCC 3 cut(s) 340, 397, 567
BsiSI CCGG 1 cut(s) 8
BsmAI GTCTC 4 cut(s) 232, 267, 662, 697
BsnI GGCC 3 cut(s) 340, 397, 567
BspACI CCGC 6 cut(s) 24, 124, 133, 472, 564, 612
BspANI GGCC 3 cut(s) 340, 397, 567
BspCNI CTCAG 2 cut(s) 160, 280
BspLI GGNNCC 1 cut(s) 85
BspOI GCTAGC 1 cut(s) 482
BsrDI GCAATG 3 cut(s) 18, 291, 681
BsrFI RCCGGY 1 cut(s) 7
BssAI RCCGGY 1 cut(s) 7
BssSI CACGAG 1 cut(s) 257
Bst2BI CACGAG 1 cut(s) 257
Bst2UI CCWGG 1 cut(s) 276
Bst4CI ACNGT 1 cut(s) 708
Bst6I CTCTTC 1 cut(s) 523
BstC8I GCNNGC 3 cut(s) 9, 378, 480
BstDEI CTNAG 4 cut(s) 168, 237, 267, 623
BstF5I GGATG 1 cut(s) 466
BstMAI GTCTC 4 cut(s) 232, 267, 662, 697
BstMWI GCNNNNNNNGC 4 cut(s) 132, 203, 212, 314
BstNI CCWGG 1 cut(s) 276
BstNSI RCATGY 1 cut(s) 306
BstSCI CCNGG 1 cut(s) 274
BstV1I GCAGC 4 cut(s) 33, 143, 320, 733
BsuRI GGCC 3 cut(s) 340, 397, 567
BtsCI GGATG 1 cut(s) 466
Cac8I GCNNGC 3 cut(s) 9, 378, 480
Cfr10I RCCGGY 1 cut(s) 7
Cfr13I GGNCC 2 cut(s) 83, 338
CviAII CATG 3 cut(s) 200, 303, 426
DdeI CTNAG 4 cut(s) 168, 237, 267, 623
DraI TTTAAA 1 cut(s) 57
EaeI YGGCCR 1 cut(s) 395
Eam1104I CTCTTC 1 cut(s) 523
EarI CTCTTC 1 cut(s) 523
Eco47I GGWCC 1 cut(s) 83
Eco57I CTGAAG 1 cut(s) 597
EcoO109I RGGNCCY 1 cut(s) 83
EcoRII CCWGG 1 cut(s) 274
FaeI CATG 3 cut(s) 203, 306, 429
FatI CATG 3 cut(s) 199, 302, 425
FauI CCCGC 1 cut(s) 140
FauNDI CATATG 1 cut(s) 400
Fnu4HI GCNGC 7 cut(s) 5, 22, 25, 157, 309, 565, 722
FokI GGATG 1 cut(s) 473
Fsp4HI GCNGC 7 cut(s) 5, 22, 25, 157, 309, 565, 722
FspBI CTAG 1 cut(s) 479
GluI GCNGC 7 cut(s) 5, 22, 25, 157, 309, 565, 722
GsuI CTGGAG 1 cut(s) 55
HaeIII GGCC 3 cut(s) 340, 397, 567
HapII CCGG 1 cut(s) 8
Hin1II CATG 3 cut(s) 203, 306, 429
HindIII AAGCTT 1 cut(s) 696
HinfI GANTC 3 cut(s) 241, 271, 628
HpaII CCGG 1 cut(s) 8
HphI GGTGA 2 cut(s) 476, 545
Hpy166II GTNNAC 1 cut(s) 418
Hpy188I TCNGA 5 cut(s) 169, 270, 354, 514, 556
Hpy188III TCNNGA 3 cut(s) 72, 440, 702
Hpy8I GTNNAC 1 cut(s) 418
HpyCH4III ACNGT 1 cut(s) 708
HpyCH4IV ACGT 1 cut(s) 644
HpyCH4V TGCA 5 cut(s) 291, 308, 365, 594, 788
HpyF10VI GCNNNNNNNGC 4 cut(s) 132, 203, 212, 314
HpyF3I CTNAG 4 cut(s) 168, 237, 267, 623
HpySE526I ACGT 1 cut(s) 644
Hsp92II CATG 3 cut(s) 203, 306, 429
KroI GCCGGC 1 cut(s) 7
KroNI GCCGGC 1 cut(s) 9
LmnI GCTCC 1 cut(s) 74
Lsp1109I GCAGC 4 cut(s) 33, 143, 320, 733
LweI GCATC 2 cut(s) 320, 352
MaeI CTAG 1 cut(s) 479
MaeII ACGT 1 cut(s) 644
MaeIII GTNAC 1 cut(s) 769
MboII GAAGA 2 cut(s) 236, 540
MfeI CAATTG 1 cut(s) 765
MlsI TGGCCA 1 cut(s) 397
MluCI AATT 6 cut(s) 368, 503, 712, 728, 742, 765
MluNI TGGCCA 1 cut(s) 397
Mox20I TGGCCA 1 cut(s) 397
MroNI GCCGGC 1 cut(s) 7
MscI TGGCCA 1 cut(s) 397
MseI TTAA 3 cut(s) 56, 371, 710
Msp20I TGGCCA 1 cut(s) 397
MspA1I CMGCKG 2 cut(s) 24, 564
MspI CCGG 1 cut(s) 8
MspR9I CCNGG 1 cut(s) 276
MunI CAATTG 1 cut(s) 765
MvaI CCWGG 1 cut(s) 276
MwoI GCNNNNNNNGC 4 cut(s) 132, 203, 212, 314
NaeI GCCGGC 1 cut(s) 9
NdeI CATATG 1 cut(s) 400
NgoMIV GCCGGC 1 cut(s) 7
NheI GCTAGC 1 cut(s) 478
NlaIII CATG 3 cut(s) 203, 306, 429
NlaIV GGNNCC 1 cut(s) 85
NmuCI GTSAC 1 cut(s) 769
NspI RCATGY 1 cut(s) 306
PciI ACATGT 1 cut(s) 302
PdiI GCCGGC 1 cut(s) 9
PfeI GAWTC 3 cut(s) 241, 271, 628
PfoI TCCNGGA 1 cut(s) 274
PkrI GCNGC 7 cut(s) 6, 23, 26, 158, 310, 566, 723
PpuMI RGGWCCY 1 cut(s) 83
PscI ACATGT 1 cut(s) 302
Psp5II RGGWCCY 1 cut(s) 83
Psp6I CCWGG 1 cut(s) 274
PspGI CCWGG 1 cut(s) 274
PspN4I GGNNCC 1 cut(s) 85
PspPI GGNCC 2 cut(s) 83, 338
PspPPI RGGWCCY 1 cut(s) 83
SaqAI TTAA 3 cut(s) 56, 371, 710
SatI GCNGC 7 cut(s) 5, 22, 25, 157, 309, 565, 722
Sau96I GGNCC 2 cut(s) 83, 338
ScrFI CCNGG 1 cut(s) 276
SetI ASST 7 cut(s) 289, 425, 535, 577, 647, 700, 726
SfaNI GCATC 2 cut(s) 320, 352
SinI GGWCC 1 cut(s) 83
SmlI CTYRAG 1 cut(s) 218
SmoI CTYRAG 1 cut(s) 218
Sse9I AATT 6 cut(s) 368, 503, 712, 728, 742, 765
SsiI CCGC 6 cut(s) 24, 124, 133, 472, 564, 612
SspMI CTAG 1 cut(s) 479
StyD4I CCNGG 1 cut(s) 274
TaaI ACNGT 1 cut(s) 708
TaiI ACGT 1 cut(s) 647
TaqI TCGA 1 cut(s) 701
TasI AATT 6 cut(s) 368, 503, 712, 728, 742, 765
TauI GCSGC 2 cut(s) 27, 567
TfiI GAWTC 3 cut(s) 241, 271, 628
Tru1I TTAA 3 cut(s) 56, 371, 710
Tru9I TTAA 3 cut(s) 56, 371, 710
TseFI GTSAC 1 cut(s) 769
TseI GCWGC 5 cut(s) 4, 21, 156, 308, 721
Tsp45I GTSAC 1 cut(s) 769
TspDTI ATGAA 3 cut(s) 317, 497, 708
VpaK11BI GGWCC 1 cut(s) 83
XapI RAATTY 1 cut(s) 503
XceI RCATGY 1 cut(s) 306
XspI CTAG 1 cut(s) 479
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.