Rh6DG421600

Ribosomal RNA small subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0015451
Physical Location & Seq
Forward (+)
60316607 .. 60319660
3054 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG421600.1

Sequence Viewer

Length: 1086 bp
ATGCTAGCACGCCGACTTCCGTCTACGGCGGCTGCTTTCTCACGCCGGTGGGCCGGACTGCCGAACTTGGGCCGTACTCCGTCGTCTCTGCAATCACTCCCCGTTTTCCGTAATAAAATTACCCTGATTGCCTTCTGTTCCACCGCAGAACACACCGAGTCAATCCCCCAGCCCTCGTCAAAACAAGGTGCTCTTAAACCCGGTTTATACTTGGTCGGAACTCCGATTGGAAATCTTGAAGATATCACCTTCCGGGCTCTCCGTGTCCTGAAATCAGCCCATGTGATACTTTCAGAGGACACTAGGCATTCAGGGAAGTTGCTCCATCACTACAACATCAAAACTCCTCTTCTGAGCTATCACAAGTTCAATGAATCCCAGAGGGAACAGACGGTGTTAAAGAGGTTGAAGGAAGGTGAGATCGTTGCGCTTATAAGCGATGCTGGGATGCCAGGCATTAGTGATCCTGGTACGGAACTGGCAAAACTCTGTGCAAATGAAAATATTCCTGTTATTCCTATACCCGGACCGTCTGCTTTCGTGGCTGCTCTCTCTGCTTCAGGCCTGTCTACTGATGAGTTTACTTTTGTTGGATTCCTCTCTAAACATTCTGGAACTAGAAAAGAGAGACTAGCAGTTTCTGCAAGTGAGGCAACAACACAGATATTTTATGTTCCTCCCCACAAGCTTCTTCAGTTTCTTGAAGAGACTTCTTCACTTTTCGGTGTTACAAGACAATGCGTAATAGCTCGTGAACTGACAAAAATTCATGAAGAGTTTTGGCGGGGTACATTGGGGGAAGCAGAACAATGGTTTACAACTCACCAGCCAAGAGGTGAAATTACAGTATTGATTGAAGGAAAAGAAGATTCTCCGGTTGAAACTCCATCAGAGTCTCAGCTTGAGAATGAGTTGAGAGATTTGATCTCCAATGGGCATAGTCTTTCTACGGCTGTCAAATTAGTAGCTGATGGAACATCGGTGAAAAGGAAAACGATATATTCAATTGCATTGAGAAAATTCGGGAAGCAACAACTTGTTTCAGAGAGTGATTCTTCAGATCCATCAAAGCCACATCGAGAGTGA

Protein Analysis

361

Amino Acids

39.7

Weight (kDa)

8.65

Isoelectric Point (pI)

49.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TP_methylase PF00590 69 - 268 8.9e-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) 434
AccI GTMKAC 2 cut(s) 23, 569
AciI CCGC 3 cut(s) 29, 144, 784
AclWI GGATC 2 cut(s) 458, 1055
AcsI RAATTY 2 cut(s) 765, 1019
AcuI CTGAAG 3 cut(s) 543, 677, 1041
AfaI GTAC 3 cut(s) 76, 472, 790
AfiI CCNNNNNNNGG 2 cut(s) 68, 524
AgsI TTSAA 7 cut(s) 239, 370, 409, 704, 857, 881, 1005
AjnI CCWGG 2 cut(s) 451, 466
AleI CACNNNNGTG 1 cut(s) 46
AluBI AGCT 5 cut(s) 357, 688, 749, 901, 968
AluI AGCT 5 cut(s) 357, 688, 749, 901, 968
Alw21I GWGCWC 1 cut(s) 193
Alw26I GTCTC 4 cut(s) 90, 622, 701, 900
AlwI GGATC 2 cut(s) 458, 1055
AlwNI CAGNNNCTG 1 cut(s) 641
AoxI GGCC 3 cut(s) 51, 70, 562
ApeKI GCWGC 2 cut(s) 32, 545
ApoI RAATTY 2 cut(s) 765, 1019
Asp700I GAANNNNTTC 1 cut(s) 504
AspLEI GCGC 1 cut(s) 430
AspS9I GGNCC 3 cut(s) 51, 70, 527
AsuC2I CCSGG 3 cut(s) 201, 254, 525
AsuHPI GGTGA 5 cut(s) 238, 428, 815, 848, 994
AsuNHI GCTAGC 1 cut(s) 4
AvaII GGWCC 1 cut(s) 527
BanII GRGCYC 1 cut(s) 259
BauI CACGAG 1 cut(s) 750
Bbv12I GWGCWC 1 cut(s) 193
BbvI GCAGC 2 cut(s) 19, 532
BccI CCATC 4 cut(s) 333, 895, 965, 1072
BceAI ACGGC 3 cut(s) 42, 57, 966
BciT130I CCWGG 2 cut(s) 453, 468
BcnI CCSGG 3 cut(s) 201, 254, 525
BcoDI GTCTC 4 cut(s) 90, 622, 701, 900
BfaI CTAG 4 cut(s) 5, 303, 618, 632
BisI GCNGC 3 cut(s) 30, 33, 546
BlsI GCNGC 3 cut(s) 31, 34, 547
Bme1390I CCNGG 5 cut(s) 201, 254, 453, 468, 525
Bme18I GGWCC 1 cut(s) 527
BmgT120I GGNCC 3 cut(s) 51, 70, 527
BmrFI CCNGG 5 cut(s) 201, 254, 453, 468, 525
BmsI GCATC 2 cut(s) 430, 438
BmtI GCTAGC 1 cut(s) 8
BoxI GACNNNNGTC 1 cut(s) 19
BpuEI CTTGAG 1 cut(s) 923
BpuMI CCSGG 3 cut(s) 201, 254, 525
BsaWI WCCGGW 1 cut(s) 874
Bsc4I CCNNNNNNNGG 2 cut(s) 68, 524
Bse118I RCCGGY 1 cut(s) 45
Bse1I ACTGG 1 cut(s) 483
BseBI CCWGG 2 cut(s) 453, 468
BseGI GGATG 1 cut(s) 453
BseLI CCNNNNNNNGG 2 cut(s) 68, 524
BseMII CTCAG 2 cut(s) 344, 911
BseNI ACTGG 1 cut(s) 483
BseRI GAGGAG 1 cut(s) 336
BseXI GCAGC 2 cut(s) 19, 532
BseYI CCCAGC 2 cut(s) 168, 443
BshFI GGCC 3 cut(s) 53, 72, 564
BsiHKAI GWGCWC 1 cut(s) 193
BsiSI CCGG 6 cut(s) 46, 54, 201, 253, 525, 875
BslI CCNNNNNNNGG 2 cut(s) 68, 524
BsmAI GTCTC 4 cut(s) 90, 622, 701, 900
BsmBI CGTCTC 1 cut(s) 90
BsmI GAATGC 1 cut(s) 307
BsnI GGCC 3 cut(s) 53, 72, 564
Bsp1286I GDGCHC 2 cut(s) 193, 259
Bsp143I GATC 4 cut(s) 420, 463, 924, 1060
BspACI CCGC 3 cut(s) 29, 144, 784
BspANI GGCC 3 cut(s) 53, 72, 564
BspCNI CTCAG 2 cut(s) 345, 910
BspHI TCATGA 1 cut(s) 769
BspOI GCTAGC 1 cut(s) 8
BspPI GGATC 2 cut(s) 458, 1055
BsrFI RCCGGY 1 cut(s) 45
BsrI ACTGG 1 cut(s) 483
BssAI RCCGGY 1 cut(s) 45
BssMI GATC 4 cut(s) 420, 463, 924, 1060
BssSI CACGAG 1 cut(s) 750
Bst2BI CACGAG 1 cut(s) 750
Bst2UI CCWGG 2 cut(s) 453, 468
Bst4CI ACNGT 3 cut(s) 394, 531, 847
Bst6I CTCTTC 3 cut(s) 354, 699, 768
BstAPI GCANNNNNTGC 1 cut(s) 641
BstC8I GCNNGC 2 cut(s) 6, 10
BstDEI CTNAG 2 cut(s) 353, 897
BstF5I GGATG 1 cut(s) 453
BstHHI GCGC 1 cut(s) 430
BstKTI GATC 4 cut(s) 423, 466, 927, 1063
BstMAI GTCTC 4 cut(s) 90, 622, 701, 900
BstMBI GATC 4 cut(s) 420, 463, 924, 1060
BstMWI GCNNNNNNNGC 4 cut(s) 542, 554, 641, 650
BstNI CCWGG 2 cut(s) 453, 468
BstPAI GACNNNNGTC 1 cut(s) 19
BstSCI CCNGG 5 cut(s) 199, 252, 451, 466, 523
BstV1I GCAGC 2 cut(s) 19, 532
BstX2I RGATCY 1 cut(s) 1060
BstYI RGATCY 1 cut(s) 1060
BsuRI GGCC 3 cut(s) 53, 72, 564
BtgZI GCGATG 1 cut(s) 453
BtsCI GGATG 1 cut(s) 453
Cac8I GCNNGC 2 cut(s) 6, 10
CaiI CAGNNNCTG 1 cut(s) 641
CciI TCATGA 1 cut(s) 769
CfoI GCGC 1 cut(s) 430
Cfr10I RCCGGY 1 cut(s) 45
Cfr13I GGNCC 3 cut(s) 51, 70, 527
CpoI CGGWCCG 1 cut(s) 527
Csp6I GTAC 3 cut(s) 75, 471, 789
CspI CGGWCCG 1 cut(s) 527
CviAII CATG 2 cut(s) 281, 770
CviQI GTAC 3 cut(s) 75, 471, 789
DdeI CTNAG 2 cut(s) 353, 897
DpnI GATC 4 cut(s) 422, 465, 926, 1062
DpnII GATC 4 cut(s) 420, 463, 924, 1060
Eam1104I CTCTTC 3 cut(s) 354, 699, 768
EarI CTCTTC 3 cut(s) 354, 699, 768
Eco147I AGGCCT 1 cut(s) 564
Eco24I GRGCYC 1 cut(s) 259
Eco32I GATATC 1 cut(s) 244
Eco47I GGWCC 1 cut(s) 527
Eco57I CTGAAG 3 cut(s) 543, 677, 1041
EcoRII CCWGG 2 cut(s) 451, 466
EcoRV GATATC 1 cut(s) 244
EcoT38I GRGCYC 1 cut(s) 259
Esp3I CGTCTC 1 cut(s) 90
FaeI CATG 2 cut(s) 284, 773
FaiI YATR 8 cut(s) 208, 282, 434, 521, 672, 771, 939, 1000
FalI AAGNNNNNCTT 2 cut(s) 177, 209
FatI CATG 2 cut(s) 280, 769
FauI CCCGC 1 cut(s) 777
FblI GTMKAC 2 cut(s) 23, 569
Fnu4HI GCNGC 3 cut(s) 30, 33, 546
FokI GGATG 1 cut(s) 460
FriOI GRGCYC 1 cut(s) 259
Fsp4HI GCNGC 3 cut(s) 30, 33, 546
FspBI CTAG 4 cut(s) 5, 303, 618, 632
GlaI GCGC 1 cut(s) 429
GluI GCNGC 3 cut(s) 30, 33, 546
GsaI CCCAGC 2 cut(s) 172, 447
HaeIII GGCC 3 cut(s) 53, 72, 564
HapII CCGG 6 cut(s) 46, 54, 201, 253, 525, 875
HhaI GCGC 1 cut(s) 430
Hin1II CATG 2 cut(s) 284, 773
Hin6I GCGC 1 cut(s) 428
HinP1I GCGC 1 cut(s) 428
HindIII AAGCTT 1 cut(s) 686
HinfI GANTC 6 cut(s) 158, 374, 594, 869, 893, 1052
HpaII CCGG 6 cut(s) 46, 54, 201, 253, 525, 875
HphI GGTGA 5 cut(s) 238, 428, 815, 848, 994
Hpy166II GTNNAC 5 cut(s) 24, 570, 582, 755, 816
Hpy188I TCNGA 7 cut(s) 218, 225, 295, 354, 892, 1045, 1060
Hpy188III TCNNGA 8 cut(s) 236, 268, 612, 701, 752, 770, 1024, 1079
Hpy8I GTNNAC 5 cut(s) 24, 570, 582, 755, 816
Hpy99I CGWCG 1 cut(s) 85
HpyAV CCTTC 5 cut(s) 142, 259, 403, 407, 851
HpyCH4III ACNGT 3 cut(s) 394, 531, 847
HpyCH4V TGCA 4 cut(s) 91, 494, 644, 1010
HpyF10VI GCNNNNNNNGC 4 cut(s) 542, 554, 641, 650
HpyF3I CTNAG 2 cut(s) 353, 897
Hsp92II CATG 2 cut(s) 284, 773
HspAI GCGC 1 cut(s) 428
Kzo9I GATC 4 cut(s) 420, 463, 924, 1060
LmnI GCTCC 1 cut(s) 327
Lsp1109I GCAGC 2 cut(s) 19, 532
LweI GCATC 2 cut(s) 430, 438
MaeI CTAG 4 cut(s) 5, 303, 618, 632
MaeIII GTNAC 1 cut(s) 727
MalI GATC 4 cut(s) 422, 465, 926, 1062
MboI GATC 4 cut(s) 420, 463, 924, 1060
MboII GAAGA 8 cut(s) 251, 341, 683, 705, 716, 785, 878, 1047
MfeI CAATTG 1 cut(s) 1005
MflI RGATCY 1 cut(s) 1060
MhlI GDGCHC 2 cut(s) 193, 259
MluCI AATT 6 cut(s) 117, 765, 840, 959, 1005, 1019
MlyI GAGTC 2 cut(s) 167, 902
MmeI TCCRAC 2 cut(s) 196, 571
MnlI CCTC 9 cut(s) 184, 289, 357, 375, 396, 608, 643, 687, 827
MroXI GAANNNNTTC 1 cut(s) 504
MseI TTAA 2 cut(s) 195, 398
MslI CAYNNNNRTG 1 cut(s) 46
MspI CCGG 6 cut(s) 46, 54, 201, 253, 525, 875
MspR9I CCNGG 5 cut(s) 201, 254, 453, 468, 525
MunI CAATTG 1 cut(s) 1005
Mva1269I GAATGC 1 cut(s) 307
MvaI CCWGG 2 cut(s) 453, 468
MwoI GCNNNNNNNGC 4 cut(s) 542, 554, 641, 650
NciI CCSGG 3 cut(s) 201, 254, 525
NdeII GATC 4 cut(s) 420, 463, 924, 1060
NheI GCTAGC 1 cut(s) 4
NlaIII CATG 2 cut(s) 284, 773
OliI CACNNNNGTG 1 cut(s) 46
PagI TCATGA 1 cut(s) 769
PceI AGGCCT 1 cut(s) 564
PctI GAATGC 1 cut(s) 307
PdmI GAANNNNTTC 1 cut(s) 504
PfeI GAWTC 4 cut(s) 374, 594, 869, 1052
PkrI GCNGC 3 cut(s) 31, 34, 547
PleI GAGTC 2 cut(s) 166, 901
PpsI GAGTC 2 cut(s) 166, 901
PshAI GACNNNNGTC 1 cut(s) 19
PsiI TTATAA 1 cut(s) 434
Psp6I CCWGG 2 cut(s) 451, 466
PspFI CCCAGC 2 cut(s) 168, 443
PspGI CCWGG 2 cut(s) 451, 466
PspPI GGNCC 3 cut(s) 51, 70, 527
PstNI CAGNNNCTG 1 cut(s) 641
PsuI RGATCY 1 cut(s) 1060
RsaI GTAC 3 cut(s) 76, 472, 790
RsaNI GTAC 3 cut(s) 75, 471, 789
RseI CAYNNNNRTG 1 cut(s) 46
Rsr2I CGGWCCG 1 cut(s) 527
RsrII CGGWCCG 1 cut(s) 527
SaqAI TTAA 2 cut(s) 195, 398
SatI GCNGC 3 cut(s) 30, 33, 546
Sau3AI GATC 4 cut(s) 420, 463, 924, 1060
Sau96I GGNCC 3 cut(s) 51, 70, 527
SchI GAGTC 2 cut(s) 167, 902
ScrFI CCNGG 5 cut(s) 201, 254, 453, 468, 525
SduI GDGCHC 2 cut(s) 193, 259
SfaNI GCATC 2 cut(s) 430, 438
SgrAI CRCCGGYG 1 cut(s) 45
SinI GGWCC 1 cut(s) 527
SmiMI CAYNNNNRTG 1 cut(s) 46
SmlI CTYRAG 1 cut(s) 902
SmoI CTYRAG 1 cut(s) 902
Sse9I AATT 6 cut(s) 117, 765, 840, 959, 1005, 1019
SseBI AGGCCT 1 cut(s) 564
SsiI CCGC 3 cut(s) 29, 144, 784
SspI AATATT 1 cut(s) 505
SspMI CTAG 4 cut(s) 5, 303, 618, 632
StuI AGGCCT 1 cut(s) 564
StyD4I CCNGG 5 cut(s) 199, 252, 451, 466, 523
TaaI ACNGT 3 cut(s) 394, 531, 847
TaqI TCGA 1 cut(s) 1078
TasI AATT 6 cut(s) 117, 765, 840, 959, 1005, 1019
TauI GCSGC 1 cut(s) 32
TfiI GAWTC 4 cut(s) 374, 594, 869, 1052
Tru1I TTAA 2 cut(s) 195, 398
Tru9I TTAA 2 cut(s) 195, 398
TseI GCWGC 2 cut(s) 32, 545
TspDTI ATGAA 4 cut(s) 387, 513, 758, 786
TspGWI ACGGA 5 cut(s) 9, 69, 98, 251, 488
VpaK11BI GGWCC 1 cut(s) 527
XapI RAATTY 2 cut(s) 765, 1019
XmiI GTMKAC 2 cut(s) 23, 569
XmnI GAANNNNTTC 1 cut(s) 504
XspI CTAG 4 cut(s) 5, 303, 618, 632
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.