RLG00000011223

Ribosomal RNA small subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0015451
Physical Location & Seq
Reverse (-)
7787240 .. 7790215
2976 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000011223

Sequence Viewer

Length: 1089 bp
ATGCTAGCACGCCGACTTCCGTCTACGGCGGCTGCTTTCTCACGCCGGTGGGCCGGACTGCCGAACTTGGGCCGTACTCCGTCGTCTCTGCAATCACTCCCCGTTTTCCCTAATAAAATTACCCTGATTGCCTTCTGTTCCACCGCGCAAATGTCCGCAGAACACACCGACTCAATCCCGTCGAAACAAGGTGCTCTTAAACCCGGTTTATACTTGGTCGGAACTCCGATTGGAAATCTTGAAGATATCACCTTCCGGGCTCTCCGTGTCCTGAAATCAGCCCATGTGATACTTTCAGAGGACACTAGGCATTCAGGGAAGTTGCTCCATCACTACAACATCAAAACTCCTCTTCTGAGCTATCACAAGTTCAATGAATCCCAGAGGGAACAGACGGTGTTAAAGAGGTTGAAGGAAGGTGAGATCGTTGCGCTTATAACTGATGCTGGGATGCCAGGCATTAGTGATCCTGGTACGGAACTGGCAAAACTCTGTGCAAATGAAAATATTCCTGTTATTCCTATACCTGGACCGTCTGCTTTCGTGGCTGCTCTCTCTGCTTCAGGCCTGTCTACTGATGAGTTTACTTTTGTTGGATTCCTCTCTAAACATTCTGGAACTAGAAAAGAGAGACTAGCAGTTTCTGCAAGTGAGGCAACAACACAGATATTTTATGTTCCTCCCCACAAGCTTCTTCAGTTTCTTGAAGAGACTTCTTCACTTTTCGGTGTTACAAGACAATGCGTAATAGCTCGTGAACTGACAAAAATTCATGAAGAGTTTTGGAGGGGTACATTGGGGGAAGCAGAACAATGGTTTACAACTCACCAGCCAAGAGGTGAAATTACAGTATTGATTGAAGGAAAGGAAGATACGCCGGTTGAAACTCCATCAGAGTCTCAGCTTGAGAATGAGTTGAGAGATTTGATCTCCAATGGGCATAGTCTTTCTACGGCTGTCAAATTAGTAGCTGATGGAAAATTGGTGAAAAGGAAAATGATATATTCAATTGCATTGAGAAAATTTGGGAAGCAACAACTTGTTTCAGAGAGTGATTCTTCAGATCCCTCAAAGCCACATCGAGAGTGA

Protein Analysis

363

Amino Acids

39.84

Weight (kDa)

8.64

Isoelectric Point (pI)

47.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TP_methylase PF00590 70 - 269 7.7e-35 Tetrapyrrole (Corrin/Porphyrin) Methylases
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: OG0015451)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G45110
fragaria_vesca FvH4_2g39240
malus_domestica MD08G1024000.v1.1 MD15G1021600.v1.1
prunus_persica Prupe.1G373400_v2.0.a1
pyrus_communis pycom15g01790
rosa_chinensis RchiOBHm_Chr6g0301771
rosa_laevigata RLG00000011223
rosa_multiflora Rmu_sc0005454.1_g000021
rosa_roxburghii Rroxscaffold_7G00166420
rosa_rugosa Rorug06G0309500
rosa_samantha Rh6AG421400 Rh6BG428200 Rh6CG434700 Rh6DG421600
rosa_wichuraiana Rw6G036480

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 437
AccI GTMKAC 2 cut(s) 23, 572
AccII CGCG 1 cut(s) 146
AciI CCGC 3 cut(s) 29, 144, 156
AclWI GGATC 2 cut(s) 461, 1058
AcsI RAATTY 2 cut(s) 768, 1022
AcuI CTGAAG 3 cut(s) 546, 680, 1044
AfaI GTAC 3 cut(s) 76, 475, 793
AfiI CCNNNNNNNGG 2 cut(s) 68, 527
AgsI TTSAA 7 cut(s) 242, 373, 412, 707, 860, 884, 1008
AjnI CCWGG 3 cut(s) 454, 469, 526
AleI CACNNNNGTG 1 cut(s) 46
AluBI AGCT 5 cut(s) 360, 691, 752, 904, 971
AluI AGCT 5 cut(s) 360, 691, 752, 904, 971
Alw21I GWGCWC 1 cut(s) 196
Alw26I GTCTC 4 cut(s) 90, 625, 704, 903
AlwI GGATC 2 cut(s) 461, 1058
AlwNI CAGNNNCTG 1 cut(s) 644
AoxI GGCC 3 cut(s) 51, 70, 565
ApeKI GCWGC 2 cut(s) 32, 548
ApoI RAATTY 2 cut(s) 768, 1022
Asp700I GAANNNNTTC 1 cut(s) 507
AspLEI GCGC 2 cut(s) 148, 433
AspS9I GGNCC 3 cut(s) 51, 70, 530
AsuC2I CCSGG 2 cut(s) 204, 257
AsuHPI GGTGA 5 cut(s) 241, 431, 818, 851, 997
AsuNHI GCTAGC 1 cut(s) 4
AvaII GGWCC 1 cut(s) 530
BaeI ACNNNNGTAYC 2 cut(s) 864, 897
BanII GRGCYC 1 cut(s) 262
BauI CACGAG 1 cut(s) 753
Bbv12I GWGCWC 1 cut(s) 196
BbvI GCAGC 2 cut(s) 19, 535
BccI CCATC 3 cut(s) 336, 898, 968
BceAI ACGGC 3 cut(s) 42, 57, 969
BciT130I CCWGG 3 cut(s) 456, 471, 528
BcnI CCSGG 2 cut(s) 204, 257
BcoDI GTCTC 4 cut(s) 90, 625, 704, 903
BfaI CTAG 4 cut(s) 5, 306, 621, 635
BisI GCNGC 3 cut(s) 30, 33, 549
BlsI GCNGC 3 cut(s) 31, 34, 550
Bme1390I CCNGG 5 cut(s) 204, 257, 456, 471, 528
Bme18I GGWCC 1 cut(s) 530
BmgT120I GGNCC 3 cut(s) 51, 70, 530
BmrFI CCNGG 5 cut(s) 204, 257, 456, 471, 528
BmsI GCATC 2 cut(s) 433, 441
BmtI GCTAGC 1 cut(s) 8
BoxI GACNNNNGTC 1 cut(s) 19
BpuEI CTTGAG 1 cut(s) 926
BpuMI CCSGG 2 cut(s) 204, 257
Bsc4I CCNNNNNNNGG 2 cut(s) 68, 527
Bse118I RCCGGY 2 cut(s) 45, 877
Bse1I ACTGG 1 cut(s) 486
BseBI CCWGG 3 cut(s) 456, 471, 528
BseGI GGATG 1 cut(s) 456
BseLI CCNNNNNNNGG 2 cut(s) 68, 527
BseMII CTCAG 2 cut(s) 347, 914
BseNI ACTGG 1 cut(s) 486
BseRI GAGGAG 1 cut(s) 339
BseXI GCAGC 2 cut(s) 19, 535
BseYI CCCAGC 1 cut(s) 446
Bsh1236I CGCG 1 cut(s) 146
BshFI GGCC 3 cut(s) 53, 72, 567
BsiHKAI GWGCWC 1 cut(s) 196
BsiSI CCGG 5 cut(s) 46, 54, 204, 256, 878
BslI CCNNNNNNNGG 2 cut(s) 68, 527
BsmAI GTCTC 4 cut(s) 90, 625, 704, 903
BsmBI CGTCTC 1 cut(s) 90
BsmI GAATGC 1 cut(s) 310
BsnI GGCC 3 cut(s) 53, 72, 567
Bsp1286I GDGCHC 2 cut(s) 196, 262
Bsp143I GATC 4 cut(s) 423, 466, 927, 1063
BspACI CCGC 3 cut(s) 29, 144, 156
BspANI GGCC 3 cut(s) 53, 72, 567
BspCNI CTCAG 2 cut(s) 348, 913
BspFNI CGCG 1 cut(s) 146
BspHI TCATGA 1 cut(s) 772
BspOI GCTAGC 1 cut(s) 8
BspPI GGATC 2 cut(s) 461, 1058
BsrFI RCCGGY 2 cut(s) 45, 877
BsrI ACTGG 1 cut(s) 486
BssAI RCCGGY 2 cut(s) 45, 877
BssMI GATC 4 cut(s) 423, 466, 927, 1063
BssSI CACGAG 1 cut(s) 753
Bst2BI CACGAG 1 cut(s) 753
Bst2UI CCWGG 3 cut(s) 456, 471, 528
Bst4CI ACNGT 3 cut(s) 397, 534, 850
Bst6I CTCTTC 3 cut(s) 357, 702, 771
BstAPI GCANNNNNTGC 1 cut(s) 644
BstC8I GCNNGC 2 cut(s) 6, 10
BstDEI CTNAG 2 cut(s) 356, 900
BstF5I GGATG 1 cut(s) 456
BstFNI CGCG 1 cut(s) 146
BstHHI GCGC 2 cut(s) 148, 433
BstKTI GATC 4 cut(s) 426, 469, 930, 1066
BstMAI GTCTC 4 cut(s) 90, 625, 704, 903
BstMBI GATC 4 cut(s) 423, 466, 927, 1063
BstMWI GCNNNNNNNGC 4 cut(s) 545, 557, 644, 653
BstNI CCWGG 3 cut(s) 456, 471, 528
BstPAI GACNNNNGTC 1 cut(s) 19
BstSCI CCNGG 5 cut(s) 202, 255, 454, 469, 526
BstUI CGCG 1 cut(s) 146
BstV1I GCAGC 2 cut(s) 19, 535
BstX2I RGATCY 1 cut(s) 1063
BstYI RGATCY 1 cut(s) 1063
BsuRI GGCC 3 cut(s) 53, 72, 567
BtsCI GGATG 1 cut(s) 456
Cac8I GCNNGC 2 cut(s) 6, 10
CaiI CAGNNNCTG 1 cut(s) 644
CciI TCATGA 1 cut(s) 772
CfoI GCGC 2 cut(s) 148, 433
Cfr10I RCCGGY 2 cut(s) 45, 877
Cfr13I GGNCC 3 cut(s) 51, 70, 530
Csp6I GTAC 3 cut(s) 75, 474, 792
CviAII CATG 2 cut(s) 284, 773
CviQI GTAC 3 cut(s) 75, 474, 792
DdeI CTNAG 2 cut(s) 356, 900
DpnI GATC 4 cut(s) 425, 468, 929, 1065
DpnII GATC 4 cut(s) 423, 466, 927, 1063
Eam1104I CTCTTC 3 cut(s) 357, 702, 771
EarI CTCTTC 3 cut(s) 357, 702, 771
Eco147I AGGCCT 1 cut(s) 567
Eco24I GRGCYC 1 cut(s) 262
Eco32I GATATC 1 cut(s) 247
Eco47I GGWCC 1 cut(s) 530
Eco57I CTGAAG 3 cut(s) 546, 680, 1044
EcoRII CCWGG 3 cut(s) 454, 469, 526
EcoRV GATATC 1 cut(s) 247
EcoT38I GRGCYC 1 cut(s) 262
Esp3I CGTCTC 1 cut(s) 90
FaeI CATG 2 cut(s) 287, 776
FaiI YATR 8 cut(s) 211, 285, 437, 524, 675, 774, 942, 1003
FalI AAGNNNNNCTT 2 cut(s) 180, 212
FatI CATG 2 cut(s) 283, 772
FblI GTMKAC 2 cut(s) 23, 572
Fnu4HI GCNGC 3 cut(s) 30, 33, 549
FokI GGATG 1 cut(s) 463
FriOI GRGCYC 1 cut(s) 262
Fsp4HI GCNGC 3 cut(s) 30, 33, 549
FspBI CTAG 4 cut(s) 5, 306, 621, 635
GlaI GCGC 2 cut(s) 147, 432
GluI GCNGC 3 cut(s) 30, 33, 549
GsaI CCCAGC 1 cut(s) 450
HaeIII GGCC 3 cut(s) 53, 72, 567
HapII CCGG 5 cut(s) 46, 54, 204, 256, 878
HhaI GCGC 2 cut(s) 148, 433
Hin1II CATG 2 cut(s) 287, 776
Hin6I GCGC 2 cut(s) 146, 431
HinP1I GCGC 2 cut(s) 146, 431
HindIII AAGCTT 1 cut(s) 689
HinfI GANTC 5 cut(s) 170, 377, 597, 896, 1055
HpaII CCGG 5 cut(s) 46, 54, 204, 256, 878
HphI GGTGA 5 cut(s) 241, 431, 818, 851, 997
Hpy166II GTNNAC 5 cut(s) 24, 573, 585, 758, 819
Hpy188I TCNGA 7 cut(s) 221, 228, 298, 357, 895, 1048, 1063
Hpy188III TCNNGA 7 cut(s) 239, 271, 615, 704, 755, 773, 1082
Hpy8I GTNNAC 5 cut(s) 24, 573, 585, 758, 819
Hpy99I CGWCG 2 cut(s) 85, 184
HpyAV CCTTC 5 cut(s) 142, 262, 406, 410, 854
HpyCH4III ACNGT 3 cut(s) 397, 534, 850
HpyCH4V TGCA 4 cut(s) 91, 497, 647, 1013
HpyF10VI GCNNNNNNNGC 4 cut(s) 545, 557, 644, 653
HpyF3I CTNAG 2 cut(s) 356, 900
Hsp92II CATG 2 cut(s) 287, 776
HspAI GCGC 2 cut(s) 146, 431
Kzo9I GATC 4 cut(s) 423, 466, 927, 1063
LmnI GCTCC 1 cut(s) 330
Lsp1109I GCAGC 2 cut(s) 19, 535
LweI GCATC 2 cut(s) 433, 441
MaeI CTAG 4 cut(s) 5, 306, 621, 635
MaeIII GTNAC 1 cut(s) 730
MalI GATC 4 cut(s) 425, 468, 929, 1065
MboI GATC 4 cut(s) 423, 466, 927, 1063
MboII GAAGA 8 cut(s) 254, 344, 686, 708, 719, 788, 881, 1050
MfeI CAATTG 1 cut(s) 1008
MflI RGATCY 1 cut(s) 1063
MhlI GDGCHC 2 cut(s) 196, 262
MluCI AATT 7 cut(s) 117, 768, 843, 962, 980, 1008, 1022
MlyI GAGTC 2 cut(s) 164, 905
MmeI TCCRAC 2 cut(s) 199, 574
MroXI GAANNNNTTC 1 cut(s) 507
MseI TTAA 2 cut(s) 198, 401
MslI CAYNNNNRTG 1 cut(s) 46
MspI CCGG 5 cut(s) 46, 54, 204, 256, 878
MspR9I CCNGG 5 cut(s) 204, 257, 456, 471, 528
MunI CAATTG 1 cut(s) 1008
Mva1269I GAATGC 1 cut(s) 310
MvaI CCWGG 3 cut(s) 456, 471, 528
MvnI CGCG 1 cut(s) 146
MwoI GCNNNNNNNGC 4 cut(s) 545, 557, 644, 653
NciI CCSGG 2 cut(s) 204, 257
NdeII GATC 4 cut(s) 423, 466, 927, 1063
NheI GCTAGC 1 cut(s) 4
NlaIII CATG 2 cut(s) 287, 776
OliI CACNNNNGTG 1 cut(s) 46
PagI TCATGA 1 cut(s) 772
PceI AGGCCT 1 cut(s) 567
PctI GAATGC 1 cut(s) 310
PdmI GAANNNNTTC 1 cut(s) 507
PfeI GAWTC 3 cut(s) 377, 597, 1055
PkrI GCNGC 3 cut(s) 31, 34, 550
PleI GAGTC 2 cut(s) 164, 904
PpsI GAGTC 2 cut(s) 164, 904
PshAI GACNNNNGTC 1 cut(s) 19
PsiI TTATAA 1 cut(s) 437
Psp6I CCWGG 3 cut(s) 454, 469, 526
PspFI CCCAGC 1 cut(s) 446
PspGI CCWGG 3 cut(s) 454, 469, 526
PspPI GGNCC 3 cut(s) 51, 70, 530
PstNI CAGNNNCTG 1 cut(s) 644
PsuI RGATCY 1 cut(s) 1063
RsaI GTAC 3 cut(s) 76, 475, 793
RsaNI GTAC 3 cut(s) 75, 474, 792
RseI CAYNNNNRTG 1 cut(s) 46
SaqAI TTAA 2 cut(s) 198, 401
SatI GCNGC 3 cut(s) 30, 33, 549
Sau3AI GATC 4 cut(s) 423, 466, 927, 1063
Sau96I GGNCC 3 cut(s) 51, 70, 530
SchI GAGTC 2 cut(s) 164, 905
ScrFI CCNGG 5 cut(s) 204, 257, 456, 471, 528
SduI GDGCHC 2 cut(s) 196, 262
SfaNI GCATC 2 cut(s) 433, 441
SgrAI CRCCGGYG 1 cut(s) 45
SinI GGWCC 1 cut(s) 530
SmiMI CAYNNNNRTG 1 cut(s) 46
SmlI CTYRAG 1 cut(s) 905
SmoI CTYRAG 1 cut(s) 905
Sse9I AATT 7 cut(s) 117, 768, 843, 962, 980, 1008, 1022
SseBI AGGCCT 1 cut(s) 567
SsiI CCGC 3 cut(s) 29, 144, 156
SspI AATATT 1 cut(s) 508
SspMI CTAG 4 cut(s) 5, 306, 621, 635
StuI AGGCCT 1 cut(s) 567
StyD4I CCNGG 5 cut(s) 202, 255, 454, 469, 526
TaaI ACNGT 3 cut(s) 397, 534, 850
TaqI TCGA 2 cut(s) 182, 1081
TasI AATT 7 cut(s) 117, 768, 843, 962, 980, 1008, 1022
TauI GCSGC 1 cut(s) 32
TfiI GAWTC 3 cut(s) 377, 597, 1055
Tru1I TTAA 2 cut(s) 198, 401
Tru9I TTAA 2 cut(s) 198, 401
TseI GCWGC 2 cut(s) 32, 548
TspDTI ATGAA 4 cut(s) 390, 516, 761, 789
TspGWI ACGGA 4 cut(s) 9, 69, 254, 491
VpaK11BI GGWCC 1 cut(s) 530
XapI RAATTY 2 cut(s) 768, 1022
XmiI GTMKAC 2 cut(s) 23, 572
XmnI GAANNNNTTC 1 cut(s) 507
XspI CTAG 4 cut(s) 5, 306, 621, 635
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.