Rroxscaffold_5G00362860

tRNA rRNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0015140
Physical Location & Seq
Forward (+)
43924343 .. 43926665
2323 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00362860.1

Sequence Viewer

Length: 666 bp
ATGGTGGTGGAGAGCTATGTGGTGGTTCACAACATAGCCAAGAGGCACAACGTGGGCACACTCGCCCGGAGCGCCACCGCCTTCGGCGTCTCCGAGCTCATTCTCGTCGGCCGCAGAGAATTCAACGCCTTCGGCAGCCACGGCTCCACCTCCCACGTTCGCTTCCGCCACTTTCACTCTCTCCAAGACGCCCGCCAATTCCTCAAGGACAGAGATTGTGATATTTGCGGCGTTGAGATCACTGATAATGCTTTGCCGGTCAATCACCACCCTTTCACCAAAAGCACTGCTTTTCTTCTTGGTAATGAGGGAACTGGCCTTTCTGCTAAGGAGTGTGAGATATGTGATTTCTTTGTGTATATCCCACAGTATGGGGACGGCACTGCTTCCTTGAATGTAACTGTTGCAGCTTCTATTGTCCTGCATCAGTTTGGAGTCTGGGCTGGCTTCCCTGAGAGAACCCGTGATGGGAACAAGTTCATTGTGGCAGAGAAACCTGCAAAGCAGACAAGACGAAGTTTTTGTGCAGAAACAGCAGATTCTGTAATTGAAGAGCGAAAATCTAGAAAAGAGCAGAATTCTAATGGTTTCTTTGACGAGAGTGCAAATGACAATCCATCTTCTAACCTTCTGGATGGGTTGTTCAGTGATATGAATCTCCAGTAA
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

221

Amino Acids

24.49

Weight (kDa)

6.13

Isoelectric Point (pI)

46.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SpoU_methylase PF00588 6 - 142 2.5e-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: OG0015140)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G15520
fragaria_vesca FvH4_4g16710
malus_domestica MD13G1177300.v1.1
prunus_persica Prupe.1G146500_v2.0.a1 Prupe.1G146500_v2.0.a1
pyrus_communis pycom13g15280 pycom16g15030
rosa_chinensis RchiOBHm_Chr4g0420161
rosa_laevigata RLG00000007785
rosa_multiflora Rmu_sc0004455.1_g000001
rosa_roxburghii Rroxscaffold_5G00362860
rosa_rugosa Rorug04G0162700
rosa_samantha Rh4AG223500 Rh4BG226100 Rh4DG222300
rosa_wichuraiana Rw4G019240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 505
AccB7I CCANNNNNTGG 1 cut(s) 371
AciI CCGC 5 cut(s) 78, 112, 166, 193, 228
AcoI YGGCCR 1 cut(s) 109
AcsI RAATTY 2 cut(s) 119, 577
AcyI GRCGYC 2 cut(s) 87, 189
AdeI CACNNNGTG 1 cut(s) 52
AfiI CCNNNNNNNGG 2 cut(s) 371, 468
AgsI TTSAA 3 cut(s) 124, 394, 551
AloI GAACNNNNNNTCC 2 cut(s) 626, 658
AluBI AGCT 3 cut(s) 15, 97, 410
AluI AGCT 3 cut(s) 15, 97, 410
Alw21I GWGCWC 1 cut(s) 99
Alw26I GTCTC 1 cut(s) 94
AlwNI CAGNNNCTG 1 cut(s) 542
AoxI GGCC 2 cut(s) 109, 316
ApeKI GCWGC 2 cut(s) 135, 407
ApoI RAATTY 2 cut(s) 119, 577
ArsI GACNNNNNNTTYG 2 cut(s) 504, 536
Asp700I GAANNNNTTC 1 cut(s) 476
AspLEI GCGC 1 cut(s) 74
AsuC2I CCSGG 1 cut(s) 67
AsuHPI GGTGA 2 cut(s) 257, 268
BaeGI GKGCMC 1 cut(s) 59
BanII GRGCYC 1 cut(s) 99
Bbv12I GWGCWC 1 cut(s) 99
BbvI GCAGC 2 cut(s) 147, 419
BccI CCATC 3 cut(s) 461, 625, 629
BceAI ACGGC 2 cut(s) 157, 394
BcnI CCSGG 1 cut(s) 67
BcoDI GTCTC 1 cut(s) 94
BfaI CTAG 1 cut(s) 564
BfoI RGCGCY 1 cut(s) 75
BfuAI ACCTGC 1 cut(s) 505
BisI GCNGC 4 cut(s) 112, 136, 229, 408
BlsI GCNGC 4 cut(s) 113, 137, 230, 409
Bme1390I CCNGG 1 cut(s) 67
BmiI GGNNCC 1 cut(s) 145
BmrFI CCNGG 1 cut(s) 67
BmsI GCATC 1 cut(s) 433
BpmI CTGGAG 1 cut(s) 644
Bpu10I CCTNAGC 1 cut(s) 327
BpuEI CTTGAG 1 cut(s) 188
BpuMI CCSGG 1 cut(s) 67
BsaBI GATNNNNATC 1 cut(s) 654
BsaHI GRCGYC 2 cut(s) 87, 189
BsaJI CCNNGG 1 cut(s) 139
Bsc4I CCNNNNNNNGG 2 cut(s) 371, 468
Bse118I RCCGGY 1 cut(s) 256
Bse1I ACTGG 2 cut(s) 319, 661
Bse8I GATNNNNATC 1 cut(s) 654
BseDI CCNNGG 1 cut(s) 139
BseGI GGATG 1 cut(s) 640
BseJI GATNNNNATC 1 cut(s) 654
BseLI CCNNNNNNNGG 2 cut(s) 371, 468
BseMII CTCAG 1 cut(s) 444
BseNI ACTGG 2 cut(s) 319, 661
BseSI GKGCMC 1 cut(s) 59
BseX3I CGGCCG 1 cut(s) 109
BseXI GCAGC 2 cut(s) 147, 419
BsgI GTGCAG 1 cut(s) 546
Bsh1285I CGRYCG 1 cut(s) 112
BshFI GGCC 2 cut(s) 111, 318
BsiEI CGRYCG 1 cut(s) 112
BsiHKAI GWGCWC 1 cut(s) 99
BsiSI CCGG 2 cut(s) 67, 257
BslFI GGGAC 1 cut(s) 389
BslI CCNNNNNNNGG 2 cut(s) 371, 468
BsmAI GTCTC 1 cut(s) 94
BsmBI CGTCTC 1 cut(s) 94
BsmFI GGGAC 1 cut(s) 389
BsnI GGCC 2 cut(s) 111, 318
Bsp1286I GDGCHC 2 cut(s) 59, 99
Bsp143I GATC 1 cut(s) 237
BspACI CCGC 5 cut(s) 78, 112, 166, 193, 228
BspANI GGCC 2 cut(s) 111, 318
BspCNI CTCAG 1 cut(s) 445
BspLI GGNNCC 1 cut(s) 145
BspMI ACCTGC 1 cut(s) 505
BspQI GCTCTTC 1 cut(s) 546
BsrFI RCCGGY 1 cut(s) 256
BsrI ACTGG 2 cut(s) 319, 661
BssAI RCCGGY 1 cut(s) 256
BssECI CCNNGG 1 cut(s) 139
BssMI GATC 1 cut(s) 237
BssNI GRCGYC 2 cut(s) 87, 189
Bst4CI ACNGT 2 cut(s) 369, 403
Bst6I CTCTTC 1 cut(s) 546
BstACI GRCGYC 2 cut(s) 87, 189
BstC8I GCNNGC 2 cut(s) 193, 445
BstDEI CTNAG 2 cut(s) 327, 453
BstDSI CCRYGG 1 cut(s) 139
BstF5I GGATG 1 cut(s) 640
BstH2I RGCGCY 1 cut(s) 75
BstHHI GCGC 1 cut(s) 74
BstKTI GATC 1 cut(s) 240
BstMAI GTCTC 1 cut(s) 94
BstMBI GATC 1 cut(s) 237
BstMCI CGRYCG 1 cut(s) 112
BstMWI GCNNNNNNNGC 3 cut(s) 71, 141, 533
BstSCI CCNGG 1 cut(s) 65
BstSLI GKGCMC 1 cut(s) 59
BstV1I GCAGC 2 cut(s) 147, 419
BstZI CGGCCG 1 cut(s) 109
BsuRI GGCC 2 cut(s) 111, 318
BtgI CCRYGG 1 cut(s) 139
BtsCI GGATG 1 cut(s) 640
BtsI GCAGTG 2 cut(s) 285, 381
BtsIMutI CAGTG 4 cut(s) 240, 285, 381, 652
BveI ACCTGC 1 cut(s) 505
Cac8I GCNNGC 2 cut(s) 193, 445
CaiI CAGNNNCTG 1 cut(s) 542
CfoI GCGC 1 cut(s) 74
Cfr10I RCCGGY 1 cut(s) 256
CseI GACGC 2 cut(s) 76, 197
DdeI CTNAG 2 cut(s) 327, 453
DpnI GATC 1 cut(s) 239
DpnII GATC 1 cut(s) 237
DraIII CACNNNGTG 1 cut(s) 52
EaeI YGGCCR 1 cut(s) 109
EagI CGGCCG 1 cut(s) 109
Eam1104I CTCTTC 1 cut(s) 546
EarI CTCTTC 1 cut(s) 546
EciI GGCGGA 1 cut(s) 155
Ecl136II GAGCTC 1 cut(s) 97
EclXI CGGCCG 1 cut(s) 109
Eco24I GRGCYC 1 cut(s) 99
Eco52I CGGCCG 1 cut(s) 109
Eco53kI GAGCTC 1 cut(s) 97
EcoICRI GAGCTC 1 cut(s) 97
EcoRI GAATTC 2 cut(s) 119, 577
EcoT38I GRGCYC 1 cut(s) 99
Esp3I CGTCTC 1 cut(s) 94
FaiI YATR 6 cut(s) 18, 35, 343, 360, 372, 653
FalI AAGNNNNNCTT 2 cut(s) 274, 306
FaqI GGGAC 1 cut(s) 389
FauI CCCGC 1 cut(s) 200
Fnu4HI GCNGC 4 cut(s) 112, 136, 229, 408
FokI GGATG 1 cut(s) 647
FriOI GRGCYC 1 cut(s) 99
Fsp4HI GCNGC 4 cut(s) 112, 136, 229, 408
FspBI CTAG 1 cut(s) 564
GlaI GCGC 1 cut(s) 73
GluI GCNGC 4 cut(s) 112, 136, 229, 408
GsuI CTGGAG 1 cut(s) 644
HaeII RGCGCY 1 cut(s) 75
HaeIII GGCC 2 cut(s) 111, 318
HapII CCGG 2 cut(s) 67, 257
HgaI GACGC 2 cut(s) 76, 197
HhaI GCGC 1 cut(s) 74
Hin1I GRCGYC 2 cut(s) 87, 189
Hin6I GCGC 1 cut(s) 72
HinP1I GCGC 1 cut(s) 72
HinfI GANTC 3 cut(s) 435, 539, 655
HpaII CCGG 2 cut(s) 67, 257
HphI GGTGA 2 cut(s) 257, 268
Hpy166II GTNNAC 1 cut(s) 28
Hpy188I TCNGA 1 cut(s) 94
Hpy188III TCNNGA 2 cut(s) 564, 632
Hpy8I GTNNAC 1 cut(s) 28
Hpy99I CGWCG 1 cut(s) 110
HpyAV CCTTC 3 cut(s) 91, 139, 638
HpyCH4III ACNGT 2 cut(s) 369, 403
HpyCH4IV ACGT 2 cut(s) 51, 156
HpyCH4V TGCA 5 cut(s) 407, 424, 500, 527, 605
HpyF10VI GCNNNNNNNGC 3 cut(s) 71, 141, 533
HpyF3I CTNAG 2 cut(s) 327, 453
HpySE526I ACGT 2 cut(s) 51, 156
Hsp92I GRCGYC 2 cut(s) 87, 189
HspAI GCGC 1 cut(s) 72
Kzo9I GATC 1 cut(s) 237
LguI GCTCTTC 1 cut(s) 546
LmnI GCTCC 2 cut(s) 69, 149
LpnPI CCDG 9 cut(s) 80, 270, 300, 424, 429, 434, 465, 510, 617
Lsp1109I GCAGC 2 cut(s) 147, 419
LweI GCATC 1 cut(s) 433
MaeI CTAG 1 cut(s) 564
MaeII ACGT 2 cut(s) 51, 156
MaeIII GTNAC 1 cut(s) 397
MalI GATC 1 cut(s) 239
MboI GATC 1 cut(s) 237
MboII GAAGA 3 cut(s) 287, 563, 612
MhlI GDGCHC 2 cut(s) 59, 99
MluCI AATT 4 cut(s) 119, 197, 546, 577
MlyI GAGTC 1 cut(s) 444
MnlI CCTC 4 cut(s) 36, 160, 212, 301
MroXI GAANNNNTTC 1 cut(s) 476
MspI CCGG 2 cut(s) 67, 257
MspR9I CCNGG 1 cut(s) 67
MwoI GCNNNNNNNGC 3 cut(s) 71, 141, 533
NciI CCSGG 1 cut(s) 67
NdeII GATC 1 cut(s) 237
NlaIV GGNNCC 1 cut(s) 145
PciSI GCTCTTC 1 cut(s) 546
PcsI WCGNNNNNNNCGW 1 cut(s) 90
PdmI GAANNNNTTC 1 cut(s) 476
PfeI GAWTC 2 cut(s) 539, 655
PflMI CCANNNNNTGG 1 cut(s) 371
PkrI GCNGC 4 cut(s) 113, 137, 230, 409
PleI GAGTC 1 cut(s) 443
PpsI GAGTC 1 cut(s) 443
Psp124BI GAGCTC 1 cut(s) 99
PspN4I GGNNCC 1 cut(s) 145
PstNI CAGNNNCTG 1 cut(s) 542
SacI GAGCTC 1 cut(s) 99
SapI GCTCTTC 1 cut(s) 546
SatI GCNGC 4 cut(s) 112, 136, 229, 408
Sau3AI GATC 1 cut(s) 237
SchI GAGTC 1 cut(s) 444
ScrFI CCNGG 1 cut(s) 67
SduI GDGCHC 2 cut(s) 59, 99
SetI ASST 8 cut(s) 17, 54, 99, 152, 159, 412, 499, 630
SfaNI GCATC 1 cut(s) 433
SmlI CTYRAG 1 cut(s) 203
SmoI CTYRAG 1 cut(s) 203
Sse9I AATT 4 cut(s) 119, 197, 546, 577
SsiI CCGC 5 cut(s) 78, 112, 166, 193, 228
SspMI CTAG 1 cut(s) 564
SstI GAGCTC 1 cut(s) 99
StyD4I CCNGG 1 cut(s) 65
TaaI ACNGT 2 cut(s) 369, 403
TaiI ACGT 2 cut(s) 54, 159
TasI AATT 4 cut(s) 119, 197, 546, 577
TauI GCSGC 2 cut(s) 114, 231
TfiI GAWTC 2 cut(s) 539, 655
TscAI CASTG 4 cut(s) 247, 292, 388, 652
TseI GCWGC 2 cut(s) 135, 407
TspDTI ATGAA 1 cut(s) 469
TspRI CASTG 4 cut(s) 247, 292, 388, 652
Van91I CCANNNNNTGG 1 cut(s) 371
XapI RAATTY 2 cut(s) 119, 577
XbaI TCTAGA 1 cut(s) 563
XmnI GAANNNNTTC 1 cut(s) 476
XspI CTAG 1 cut(s) 564
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.