Rh1DG338400

Ribosomal RNA large subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0011170
Physical Location & Seq
Forward (+)
56384415 .. 56386275
1861 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG338400.1

Sequence Viewer

Length: 711 bp
ATGAGTGGGGTAGGAAAGCCGGACTTTTTCTACAGAGAAGCTCAGCGCCTGGGTTATGTAGCTCGCTCCGCCTTCAAGCTGCTTCAGATACAGAAGCAGTACAAGCTCATAACACCAGGCTCTTCTGTTCTGGACCTTGGTTGTGCTCCTGGTGCTTGGCTTCAGGTGGCTTGTCAGAGCTTGGGTCCTATCAAAAATGGTGGCCTTGTTGTTGGGATTGATCTCAAGAAGGTGAAGGTTCCAGCTATGCATTGTGATTCAAGGGTTCAAACTGTTTGTGCTGATGTTATGAAGCTCCCTAAAACCTCAGTCAGGGAACTTTCTCCGCAGAAAGGGTTTTCTGTGATACTCTCAGATATGTGCCCCCTCGTTTCTGGGATAACAAGTAAAGATGCAGCTTTATCCCTCGAGTTAGGTATGCAAGCACTGGATTTGGCTGTAGGTGGAGCAGCATTAGCTAATTCCAACAATGAAACTCAAGTGGAAGGAAGTCTTGGTGGAGCAATTACAAGTTCAGATGTTAATGGTGTATTGAAAAGGGGTGGTCATCTTGTCATAAAACTTTTAGAGAGTGAAGATGTGCAAGATTTCAACCGCATTTGCAAACCACTGTTTAGAAAGGCATCATTGTTGAGGCCTAAAGCTACAAGATCATCTTCAAGAGAGATTTATTTGATATGTCAAGGTCTGCAGTCACAAGCAAGAACATAG
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
FtsJ

Protein Analysis

236

Amino Acids

25.23

Weight (kDa)

9.38

Isoelectric Point (pI)

39.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
FtsJ PF01728 19 - 229 4.3e-40 FtsJ-like methyltransferase
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: OG0011170)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G13830
fragaria_vesca FvH4_7g22770
malus_domestica MD07G1200600.v1.1
prunus_persica Prupe.2G237400_v2.0.a1
pyrus_communis pycom01g15670 pycom07g18760 pycom07g18770
rosa_chinensis RchiOBHm_Chr1g0367871
rosa_laevigata RLG00000027260
rosa_multiflora Rmu_co8050104.1_g000001 Rmu_sc0010008.1_g000001 Rmu_ssc0000395.1_g000039
rosa_roxburghii Rroxscaffold_4G00289170
rosa_rugosa Rorug01G0337300 Rorug01G0337400
rosa_samantha Rh1AG344200 Rh1BG306200 Rh1CG321800 Rh1DG338400
rosa_wichuraiana Rw1G030640

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 3 cut(s) 69, 326, 595
AcuI CTGAAG 2 cut(s) 68, 146
AfaI GTAC 1 cut(s) 101
AfiI CCNNNNNNNGG 2 cut(s) 312, 332
AgsI TTSAA 6 cut(s) 76, 261, 269, 535, 592, 660
AjnI CCWGG 3 cut(s) 48, 115, 148
AjuI GAANNNNNNNTTGG 2 cut(s) 477, 509
Alw21I GWGCWC 1 cut(s) 148
AlwNI CAGNNNCTG 1 cut(s) 49
Ama87I CYCGRG 1 cut(s) 407
AoxI GGCC 2 cut(s) 202, 635
ApeKI GCWGC 3 cut(s) 79, 395, 449
AspLEI GCGC 1 cut(s) 48
AspS9I GGNCC 2 cut(s) 133, 185
AsuHPI GGTGA 1 cut(s) 244
AvaI CYCGRG 1 cut(s) 407
AvaII GGWCC 2 cut(s) 133, 185
BaeGI GKGCMC 1 cut(s) 365
Bbv12I GWGCWC 1 cut(s) 148
BbvI GCAGC 3 cut(s) 66, 407, 461
BciT130I CCWGG 3 cut(s) 50, 117, 150
BfmI CTRYAG 3 cut(s) 31, 438, 689
BfoI RGCGCY 1 cut(s) 49
BisI GCNGC 3 cut(s) 80, 396, 450
BlpI GCTNAGC 1 cut(s) 42
BlsI GCNGC 3 cut(s) 81, 397, 451
Bme1390I CCNGG 3 cut(s) 50, 117, 150
Bme18I GGWCC 2 cut(s) 133, 185
BmeT110I CYCGRG 1 cut(s) 407
BmgT120I GGNCC 2 cut(s) 133, 185
BmiI GGNNCC 2 cut(s) 186, 240
BmrFI CCNGG 3 cut(s) 50, 117, 150
BmsI GCATC 2 cut(s) 382, 632
Bpu1102I GCTNAGC 1 cut(s) 42
BpuEI CTTGAG 2 cut(s) 209, 462
BsaJI CCNNGG 2 cut(s) 49, 136
Bsc4I CCNNNNNNNGG 2 cut(s) 312, 332
Bse1I ACTGG 1 cut(s) 432
BseBI CCWGG 3 cut(s) 50, 117, 150
BseDI CCNNGG 2 cut(s) 49, 136
BseLI CCNNNNNNNGG 2 cut(s) 312, 332
BseMII CTCAG 3 cut(s) 56, 321, 366
BseNI ACTGG 1 cut(s) 432
BseSI GKGCMC 1 cut(s) 365
BseXI GCAGC 3 cut(s) 66, 407, 461
BshFI GGCC 2 cut(s) 204, 637
BsiHKAI GWGCWC 1 cut(s) 148
BsiHKCI CYCGRG 1 cut(s) 407
BsiSI CCGG 1 cut(s) 20
BslI CCNNNNNNNGG 2 cut(s) 312, 332
BsnI GGCC 2 cut(s) 204, 637
BsoBI CYCGRG 1 cut(s) 407
Bsp1286I GDGCHC 2 cut(s) 148, 365
Bsp143I GATC 2 cut(s) 220, 650
Bsp1720I GCTNAGC 1 cut(s) 42
BspACI CCGC 3 cut(s) 69, 326, 595
BspANI GGCC 2 cut(s) 204, 637
BspCNI CTCAG 3 cut(s) 55, 320, 365
BspLI GGNNCC 2 cut(s) 186, 240
BspMAI CTGCAG 1 cut(s) 693
BspQI GCTCTTC 1 cut(s) 127
BsrI ACTGG 1 cut(s) 432
BssECI CCNNGG 2 cut(s) 49, 136
BssMI GATC 2 cut(s) 220, 650
BssT1I CCWWGG 1 cut(s) 136
Bst2UI CCWGG 3 cut(s) 50, 117, 150
Bst4CI ACNGT 2 cut(s) 274, 612
Bst6I CTCTTC 1 cut(s) 127
BstC8I GCNNGC 2 cut(s) 64, 423
BstDEI CTNAG 3 cut(s) 42, 307, 352
BstENI CCTNNNNNAGG 1 cut(s) 310
BstH2I RGCGCY 1 cut(s) 49
BstHHI GCGC 1 cut(s) 48
BstKTI GATC 2 cut(s) 223, 653
BstMBI GATC 2 cut(s) 220, 650
BstMWI GCNNNNNNNGC 4 cut(s) 68, 103, 152, 455
BstNI CCWGG 3 cut(s) 50, 117, 150
BstSCI CCNGG 3 cut(s) 48, 115, 148
BstSFI CTRYAG 3 cut(s) 31, 438, 689
BstSLI GKGCMC 1 cut(s) 365
BstV1I GCAGC 3 cut(s) 66, 407, 461
BsuRI GGCC 2 cut(s) 204, 637
BtsIMutI CAGTG 2 cut(s) 425, 608
Cac8I GCNNGC 2 cut(s) 64, 423
CaiI CAGNNNCTG 1 cut(s) 49
CfoI GCGC 1 cut(s) 48
Cfr13I GGNCC 2 cut(s) 133, 185
Csp6I GTAC 1 cut(s) 100
CspCI CAANNNNNGTGG 2 cut(s) 181, 216
CviQI GTAC 1 cut(s) 100
DdeI CTNAG 3 cut(s) 42, 307, 352
DpnI GATC 2 cut(s) 222, 652
DpnII GATC 2 cut(s) 220, 650
Eam1104I CTCTTC 1 cut(s) 127
EarI CTCTTC 1 cut(s) 127
EciI GGCGGA 1 cut(s) 58
Eco130I CCWWGG 1 cut(s) 136
Eco147I AGGCCT 1 cut(s) 637
Eco47I GGWCC 2 cut(s) 133, 185
Eco57I CTGAAG 2 cut(s) 68, 146
Eco88I CYCGRG 1 cut(s) 407
EcoNI CCTNNNNNAGG 1 cut(s) 310
EcoO109I RGGNCCY 1 cut(s) 185
EcoRII CCWGG 3 cut(s) 48, 115, 148
EcoT14I CCWWGG 1 cut(s) 136
EcoT22I ATGCAT 1 cut(s) 252
ErhI CCWWGG 1 cut(s) 136
FaiI YATR 9 cut(s) 57, 110, 248, 290, 359, 419, 557, 679, 709
FalI AAGNNNNNCTT 6 cut(s) 8, 40, 477, 509, 640, 672
Fnu4HI GCNGC 3 cut(s) 80, 396, 450
Fsp4HI GCNGC 3 cut(s) 80, 396, 450
GlaI GCGC 1 cut(s) 47
GluI GCNGC 3 cut(s) 80, 396, 450
HaeII RGCGCY 1 cut(s) 49
HaeIII GGCC 2 cut(s) 204, 637
HapII CCGG 1 cut(s) 20
HhaI GCGC 1 cut(s) 48
Hin6I GCGC 1 cut(s) 46
HinP1I GCGC 1 cut(s) 46
HinfI GANTC 1 cut(s) 257
HpaII CCGG 1 cut(s) 20
HphI GGTGA 1 cut(s) 244
Hpy188I TCNGA 4 cut(s) 87, 177, 355, 517
Hpy188III TCNNGA 3 cut(s) 131, 226, 660
HpyAV CCTTC 4 cut(s) 82, 223, 229, 479
HpyCH4III ACNGT 2 cut(s) 274, 612
HpyCH4V TGCA 6 cut(s) 250, 395, 421, 583, 603, 691
HpyF10VI GCNNNNNNNGC 4 cut(s) 68, 103, 152, 455
HpyF3I CTNAG 3 cut(s) 42, 307, 352
HspAI GCGC 1 cut(s) 46
Kzo9I GATC 2 cut(s) 220, 650
LguI GCTCTTC 1 cut(s) 127
LmnI GCTCC 5 cut(s) 71, 151, 300, 446, 500
Lsp1109I GCAGC 3 cut(s) 66, 407, 461
LweI GCATC 2 cut(s) 382, 632
MaeIII GTNAC 1 cut(s) 693
MalI GATC 2 cut(s) 222, 652
MboI GATC 2 cut(s) 220, 650
MboII GAAGA 3 cut(s) 114, 587, 648
MhlI GDGCHC 2 cut(s) 148, 365
MluCI AATT 2 cut(s) 460, 504
MmeI TCCRAC 1 cut(s) 489
MnlI CCTC 4 cut(s) 316, 377, 416, 627
Mph1103I ATGCAT 1 cut(s) 252
MseI TTAA 1 cut(s) 522
MspI CCGG 1 cut(s) 20
MspR9I CCNGG 3 cut(s) 50, 117, 150
MvaI CCWGG 3 cut(s) 50, 117, 150
MwoI GCNNNNNNNGC 4 cut(s) 68, 103, 152, 455
NdeII GATC 2 cut(s) 220, 650
NlaIV GGNNCC 2 cut(s) 186, 240
NmuCI GTSAC 1 cut(s) 693
NsiI ATGCAT 1 cut(s) 252
PaeR7I CTCGAG 1 cut(s) 407
PceI AGGCCT 1 cut(s) 637
PciSI GCTCTTC 1 cut(s) 127
PfeI GAWTC 1 cut(s) 257
PkrI GCNGC 3 cut(s) 81, 397, 451
PpuMI RGGWCCY 1 cut(s) 185
Psp5II RGGWCCY 1 cut(s) 185
Psp6I CCWGG 3 cut(s) 48, 115, 148
PspGI CCWGG 3 cut(s) 48, 115, 148
PspN4I GGNNCC 2 cut(s) 186, 240
PspPI GGNCC 2 cut(s) 133, 185
PspPPI RGGWCCY 1 cut(s) 185
PspXI VCTCGAGB 1 cut(s) 407
PstI CTGCAG 1 cut(s) 693
PstNI CAGNNNCTG 1 cut(s) 49
RsaI GTAC 1 cut(s) 101
RsaNI GTAC 1 cut(s) 100
SapI GCTCTTC 1 cut(s) 127
SaqAI TTAA 1 cut(s) 522
SatI GCNGC 3 cut(s) 80, 396, 450
Sau3AI GATC 2 cut(s) 220, 650
Sau96I GGNCC 2 cut(s) 133, 185
ScrFI CCNGG 3 cut(s) 50, 117, 150
SduI GDGCHC 2 cut(s) 148, 365
SfaNI GCATC 2 cut(s) 382, 632
SfcI CTRYAG 3 cut(s) 31, 438, 689
Sfr274I CTCGAG 1 cut(s) 407
SinI GGWCC 2 cut(s) 133, 185
SlaI CTCGAG 1 cut(s) 407
SmlI CTYRAG 3 cut(s) 224, 407, 477
SmoI CTYRAG 3 cut(s) 224, 407, 477
Sse9I AATT 2 cut(s) 460, 504
SseBI AGGCCT 1 cut(s) 637
SsiI CCGC 3 cut(s) 69, 326, 595
StuI AGGCCT 1 cut(s) 637
StyD4I CCNGG 3 cut(s) 48, 115, 148
StyI CCWWGG 1 cut(s) 136
TaaI ACNGT 2 cut(s) 274, 612
TaqI TCGA 1 cut(s) 408
TasI AATT 2 cut(s) 460, 504
TatI WGTACW 1 cut(s) 99
TfiI GAWTC 1 cut(s) 257
Tru1I TTAA 1 cut(s) 522
Tru9I TTAA 1 cut(s) 522
TscAI CASTG 2 cut(s) 432, 615
TseFI GTSAC 1 cut(s) 693
TseI GCWGC 3 cut(s) 79, 395, 449
Tsp45I GTSAC 1 cut(s) 693
TspDTI ATGAA 2 cut(s) 305, 486
TspRI CASTG 2 cut(s) 432, 615
VpaK11BI GGWCC 2 cut(s) 133, 185
XagI CCTNNNNNAGG 1 cut(s) 310
XhoI CTCGAG 1 cut(s) 407
Zsp2I ATGCAT 1 cut(s) 252
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.