Rroxscaffold_7G00166420

Ribosomal RNA small subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0015451
Physical Location & Seq
Reverse (-)
7906013 .. 7909146
3134 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00166420.1

Sequence Viewer

Length: 1098 bp
ATGCTAGCACGCCGACTTCCGTCTACGGCGGCTGCTTTCTCACGCCGGTGGGCCGGACTGCCGAACTTGGGCCGTACTCCGTCGTCTCTGCAATCACTCCCCGTTTTCCCTAATAAAATTACCCTGATTGCCTTGTGTTCCACCGCGCAAATGTCCGCAGAACACACCGACGCAATCCCCCAGCCCTCGTCAAAACAAGGTGCTCTTAAACCCGGTTTATACTTGGTCGGAACTCCGATCGGAAATCTTGAAGATATCACCTTCCGGGCTCTCCGTGTCCTGAAATCAGCCCACGTGATACTTTCAGAGGACACTAGGCATTCAGGGAAGTTGCTCCATCACTACAACATCAAAACTCCTCTTCTGAGCTATCACAAGTTCAATGAATCCCAGAGGGAACAGACGGTGTTGAAGAGGTTGAAGGAAGGTGAGATCGTTGCGCTTATAAGCGATGCTGGGATGCCAGGCATTAGTGATCCTGGTACGGAACTGGCAAAACTCTGTGCGAATGAAAATATTCCTGTTATTCCTATACCTGGACCGTCTGCTTTCGTGGCTGCTCTCTCTGCTTCAGGCCTGTCTACTGATGAGTTTACTTTTGTTGGATTCCTCTCTAAACATTCTGGAACTAGAAAAGAGAGACTAACAGTTTCTGCAAGTGAGGCAACAACACAGATATTTTATGTTCCTCCCCACAAGCTTCTTCAGTTTCTTGAAGAGACTTCTTCACTTTTCGGTGTTACAAGACAATGCGTAATAGCTCGTGAACTGACAAAAATTCATGAAGAGTTTTGGCGGGGTACATTGGGGGAAGCAGAACAATGGTTTACTACTCACCAGCCAAGAGGTGAAATTACAGTATTGATTGAAGGAAAAGAAGATACTCCGGTTGAAATTCCATCAGAGTCTCAGCTTGAGAATGAGTTGAGAGATTTGATCTCCAATGGGCATAGTCTTTCAATGGCTGTCAAATTAGTAGCTGATGGAACATCGGTGAAAAGGAAAACGATATATTCAATTGCATTGAGAAAATTCGGGAAGCAACAACTTGTTTCAGAGAGTGATTCTACAGATCCATCAAAGCCACATCGAGAGTGA

Protein Analysis

365

Amino Acids

40.09

Weight (kDa)

8.34

Isoelectric Point (pI)

47.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TP_methylase PF00590 73 - 272 1.7e-34 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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Publication-ready
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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) 446
AccI GTMKAC 2 cut(s) 23, 581
AccII CGCG 1 cut(s) 146
AciI CCGC 4 cut(s) 29, 144, 156, 796
AclWI GGATC 2 cut(s) 470, 1067
AcsI RAATTY 3 cut(s) 777, 894, 1031
AcuI CTGAAG 2 cut(s) 555, 689
AcvI CACGTG 1 cut(s) 295
AfaI GTAC 3 cut(s) 76, 484, 802
AfiI CCNNNNNNNGG 2 cut(s) 68, 536
AgsI TTSAA 9 cut(s) 251, 382, 412, 421, 716, 869, 893, 960, 1017
AjnI CCWGG 3 cut(s) 463, 478, 535
AleI CACNNNNGTG 1 cut(s) 46
AluBI AGCT 5 cut(s) 369, 700, 761, 913, 980
AluI AGCT 5 cut(s) 369, 700, 761, 913, 980
Alw21I GWGCWC 1 cut(s) 205
Alw26I GTCTC 4 cut(s) 90, 634, 713, 912
AlwI GGATC 2 cut(s) 470, 1067
AlwNI CAGNNNCTG 1 cut(s) 653
AoxI GGCC 3 cut(s) 51, 70, 574
ApeKI GCWGC 2 cut(s) 32, 557
ApoI RAATTY 3 cut(s) 777, 894, 1031
Asp700I GAANNNNTTC 1 cut(s) 516
AspLEI GCGC 2 cut(s) 148, 442
AspS9I GGNCC 3 cut(s) 51, 70, 539
AsuC2I CCSGG 2 cut(s) 213, 266
AsuHPI GGTGA 5 cut(s) 250, 440, 827, 860, 1006
AsuNHI GCTAGC 1 cut(s) 4
AvaII GGWCC 1 cut(s) 539
BaeI ACNNNNGTAYC 2 cut(s) 873, 906
BanII GRGCYC 1 cut(s) 271
BauI CACGAG 1 cut(s) 762
BbrPI CACGTG 1 cut(s) 295
Bbv12I GWGCWC 1 cut(s) 205
BbvI GCAGC 2 cut(s) 19, 544
BccI CCATC 4 cut(s) 345, 907, 977, 1084
BceAI ACGGC 2 cut(s) 42, 57
BciT130I CCWGG 3 cut(s) 465, 480, 537
BcnI CCSGG 2 cut(s) 213, 266
BcoDI GTCTC 4 cut(s) 90, 634, 713, 912
BfaI CTAG 3 cut(s) 5, 315, 630
BfmI CTRYAG 1 cut(s) 1068
BisI GCNGC 3 cut(s) 30, 33, 558
BlsI GCNGC 3 cut(s) 31, 34, 559
Bme1390I CCNGG 5 cut(s) 213, 266, 465, 480, 537
Bme18I GGWCC 1 cut(s) 539
BmgT120I GGNCC 3 cut(s) 51, 70, 539
BmrFI CCNGG 5 cut(s) 213, 266, 465, 480, 537
BmsI GCATC 2 cut(s) 442, 450
BmtI GCTAGC 1 cut(s) 8
BoxI GACNNNNGTC 1 cut(s) 19
BpuEI CTTGAG 1 cut(s) 935
BpuMI CCSGG 2 cut(s) 213, 266
BsaAI YACGTR 1 cut(s) 295
BsaWI WCCGGW 1 cut(s) 886
Bsc4I CCNNNNNNNGG 2 cut(s) 68, 536
Bse118I RCCGGY 1 cut(s) 45
Bse1I ACTGG 1 cut(s) 495
BseBI CCWGG 3 cut(s) 465, 480, 537
BseGI GGATG 1 cut(s) 465
BseLI CCNNNNNNNGG 2 cut(s) 68, 536
BseMII CTCAG 2 cut(s) 356, 923
BseNI ACTGG 1 cut(s) 495
BseRI GAGGAG 1 cut(s) 348
BseXI GCAGC 2 cut(s) 19, 544
BseYI CCCAGC 2 cut(s) 180, 455
Bsh1236I CGCG 1 cut(s) 146
Bsh1285I CGRYCG 1 cut(s) 240
BshFI GGCC 3 cut(s) 53, 72, 576
BsiEI CGRYCG 1 cut(s) 240
BsiHKAI GWGCWC 1 cut(s) 205
BsiSI CCGG 5 cut(s) 46, 54, 213, 265, 887
BslI CCNNNNNNNGG 2 cut(s) 68, 536
BsmAI GTCTC 4 cut(s) 90, 634, 713, 912
BsmBI CGTCTC 1 cut(s) 90
BsmI GAATGC 1 cut(s) 319
BsnI GGCC 3 cut(s) 53, 72, 576
Bsp1286I GDGCHC 2 cut(s) 205, 271
Bsp143I GATC 5 cut(s) 237, 432, 475, 936, 1072
BspACI CCGC 4 cut(s) 29, 144, 156, 796
BspANI GGCC 3 cut(s) 53, 72, 576
BspCNI CTCAG 2 cut(s) 357, 922
BspFNI CGCG 1 cut(s) 146
BspHI TCATGA 1 cut(s) 781
BspOI GCTAGC 1 cut(s) 8
BspPI GGATC 2 cut(s) 470, 1067
BsrFI RCCGGY 1 cut(s) 45
BsrI ACTGG 1 cut(s) 495
BssAI RCCGGY 1 cut(s) 45
BssMI GATC 5 cut(s) 237, 432, 475, 936, 1072
BssSI CACGAG 1 cut(s) 762
Bst2BI CACGAG 1 cut(s) 762
Bst2UI CCWGG 3 cut(s) 465, 480, 537
Bst4CI ACNGT 4 cut(s) 406, 543, 649, 859
Bst6I CTCTTC 4 cut(s) 366, 407, 711, 780
BstBAI YACGTR 1 cut(s) 295
BstC8I GCNNGC 2 cut(s) 6, 10
BstDEI CTNAG 2 cut(s) 365, 909
BstF5I GGATG 1 cut(s) 465
BstFNI CGCG 1 cut(s) 146
BstHHI GCGC 2 cut(s) 148, 442
BstKTI GATC 5 cut(s) 240, 435, 478, 939, 1075
BstMAI GTCTC 4 cut(s) 90, 634, 713, 912
BstMBI GATC 5 cut(s) 237, 432, 475, 936, 1072
BstMCI CGRYCG 1 cut(s) 240
BstMWI GCNNNNNNNGC 3 cut(s) 554, 566, 662
BstNI CCWGG 3 cut(s) 465, 480, 537
BstPAI GACNNNNGTC 1 cut(s) 19
BstSCI CCNGG 5 cut(s) 211, 264, 463, 478, 535
BstSFI CTRYAG 1 cut(s) 1068
BstUI CGCG 1 cut(s) 146
BstV1I GCAGC 2 cut(s) 19, 544
BstX2I RGATCY 1 cut(s) 1072
BstYI RGATCY 1 cut(s) 1072
BsuRI GGCC 3 cut(s) 53, 72, 576
BtgZI GCGATG 1 cut(s) 465
BtsCI GGATG 1 cut(s) 465
Cac8I GCNNGC 2 cut(s) 6, 10
CaiI CAGNNNCTG 1 cut(s) 653
CciI TCATGA 1 cut(s) 781
CfoI GCGC 2 cut(s) 148, 442
Cfr10I RCCGGY 1 cut(s) 45
Cfr13I GGNCC 3 cut(s) 51, 70, 539
CseI GACGC 1 cut(s) 179
Csp6I GTAC 3 cut(s) 75, 483, 801
CviAII CATG 1 cut(s) 782
CviQI GTAC 3 cut(s) 75, 483, 801
DdeI CTNAG 2 cut(s) 365, 909
DpnI GATC 5 cut(s) 239, 434, 477, 938, 1074
DpnII GATC 5 cut(s) 237, 432, 475, 936, 1072
Eam1104I CTCTTC 4 cut(s) 366, 407, 711, 780
EarI CTCTTC 4 cut(s) 366, 407, 711, 780
Eco147I AGGCCT 1 cut(s) 576
Eco24I GRGCYC 1 cut(s) 271
Eco32I GATATC 1 cut(s) 256
Eco47I GGWCC 1 cut(s) 539
Eco57I CTGAAG 2 cut(s) 555, 689
Eco72I CACGTG 1 cut(s) 295
EcoRII CCWGG 3 cut(s) 463, 478, 535
EcoRV GATATC 1 cut(s) 256
EcoT38I GRGCYC 1 cut(s) 271
Esp3I CGTCTC 1 cut(s) 90
FaeI CATG 1 cut(s) 785
FaiI YATR 7 cut(s) 220, 446, 533, 684, 783, 951, 1012
FalI AAGNNNNNCTT 2 cut(s) 189, 221
FatI CATG 1 cut(s) 781
FauI CCCGC 1 cut(s) 789
FblI GTMKAC 2 cut(s) 23, 581
Fnu4HI GCNGC 3 cut(s) 30, 33, 558
FokI GGATG 1 cut(s) 472
FriOI GRGCYC 1 cut(s) 271
Fsp4HI GCNGC 3 cut(s) 30, 33, 558
FspBI CTAG 3 cut(s) 5, 315, 630
GlaI GCGC 2 cut(s) 147, 441
GluI GCNGC 3 cut(s) 30, 33, 558
GsaI CCCAGC 2 cut(s) 184, 459
HaeIII GGCC 3 cut(s) 53, 72, 576
HapII CCGG 5 cut(s) 46, 54, 213, 265, 887
HgaI GACGC 1 cut(s) 179
HhaI GCGC 2 cut(s) 148, 442
Hin1II CATG 1 cut(s) 785
Hin6I GCGC 2 cut(s) 146, 440
HinP1I GCGC 2 cut(s) 146, 440
HindIII AAGCTT 1 cut(s) 698
HinfI GANTC 4 cut(s) 386, 606, 905, 1064
HpaII CCGG 5 cut(s) 46, 54, 213, 265, 887
HphI GGTGA 5 cut(s) 250, 440, 827, 860, 1006
Hpy166II GTNNAC 5 cut(s) 24, 582, 594, 767, 828
Hpy188I TCNGA 7 cut(s) 230, 237, 242, 307, 366, 904, 1057
Hpy188III TCNNGA 8 cut(s) 248, 280, 624, 713, 764, 782, 1036, 1091
Hpy8I GTNNAC 5 cut(s) 24, 582, 594, 767, 828
Hpy99I CGWCG 2 cut(s) 85, 173
HpyAV CCTTC 4 cut(s) 271, 415, 419, 863
HpyCH4III ACNGT 4 cut(s) 406, 543, 649, 859
HpyCH4IV ACGT 1 cut(s) 294
HpyCH4V TGCA 3 cut(s) 91, 656, 1022
HpyF10VI GCNNNNNNNGC 3 cut(s) 554, 566, 662
HpyF3I CTNAG 2 cut(s) 365, 909
HpySE526I ACGT 1 cut(s) 294
Hsp92II CATG 1 cut(s) 785
HspAI GCGC 2 cut(s) 146, 440
Kzo9I GATC 5 cut(s) 237, 432, 475, 936, 1072
LmnI GCTCC 1 cut(s) 339
Lsp1109I GCAGC 2 cut(s) 19, 544
LweI GCATC 2 cut(s) 442, 450
MaeI CTAG 3 cut(s) 5, 315, 630
MaeII ACGT 1 cut(s) 294
MaeIII GTNAC 1 cut(s) 739
MalI GATC 5 cut(s) 239, 434, 477, 938, 1074
MboI GATC 5 cut(s) 237, 432, 475, 936, 1072
MboII GAAGA 8 cut(s) 263, 353, 424, 695, 717, 728, 797, 890
MfeI CAATTG 1 cut(s) 1017
MflI RGATCY 1 cut(s) 1072
MhlI GDGCHC 2 cut(s) 205, 271
MluCI AATT 7 cut(s) 117, 777, 852, 894, 971, 1017, 1031
MlyI GAGTC 1 cut(s) 914
MmeI TCCRAC 2 cut(s) 208, 583
MnlI CCTC 9 cut(s) 196, 301, 369, 387, 408, 620, 655, 699, 839
MroXI GAANNNNTTC 1 cut(s) 516
MseI TTAA 1 cut(s) 207
MslI CAYNNNNRTG 1 cut(s) 46
MspI CCGG 5 cut(s) 46, 54, 213, 265, 887
MspR9I CCNGG 5 cut(s) 213, 266, 465, 480, 537
MunI CAATTG 1 cut(s) 1017
Mva1269I GAATGC 1 cut(s) 319
MvaI CCWGG 3 cut(s) 465, 480, 537
MvnI CGCG 1 cut(s) 146
MwoI GCNNNNNNNGC 3 cut(s) 554, 566, 662
NciI CCSGG 2 cut(s) 213, 266
NdeII GATC 5 cut(s) 237, 432, 475, 936, 1072
NheI GCTAGC 1 cut(s) 4
NlaIII CATG 1 cut(s) 785
OliI CACNNNNGTG 1 cut(s) 46
PagI TCATGA 1 cut(s) 781
PceI AGGCCT 1 cut(s) 576
PctI GAATGC 1 cut(s) 319
PdmI GAANNNNTTC 1 cut(s) 516
PfeI GAWTC 3 cut(s) 386, 606, 1064
PkrI GCNGC 3 cut(s) 31, 34, 559
Ple19I CGATCG 1 cut(s) 240
PleI GAGTC 1 cut(s) 913
PmaCI CACGTG 1 cut(s) 295
PmlI CACGTG 1 cut(s) 295
PpsI GAGTC 1 cut(s) 913
Ppu21I YACGTR 1 cut(s) 295
PshAI GACNNNNGTC 1 cut(s) 19
PsiI TTATAA 1 cut(s) 446
Psp6I CCWGG 3 cut(s) 463, 478, 535
PspCI CACGTG 1 cut(s) 295
PspFI CCCAGC 2 cut(s) 180, 455
PspGI CCWGG 3 cut(s) 463, 478, 535
PspPI GGNCC 3 cut(s) 51, 70, 539
PstNI CAGNNNCTG 1 cut(s) 653
PsuI RGATCY 1 cut(s) 1072
PvuI CGATCG 1 cut(s) 240
RsaI GTAC 3 cut(s) 76, 484, 802
RsaNI GTAC 3 cut(s) 75, 483, 801
RseI CAYNNNNRTG 1 cut(s) 46
SaqAI TTAA 1 cut(s) 207
SatI GCNGC 3 cut(s) 30, 33, 558
Sau3AI GATC 5 cut(s) 237, 432, 475, 936, 1072
Sau96I GGNCC 3 cut(s) 51, 70, 539
SchI GAGTC 1 cut(s) 914
ScrFI CCNGG 5 cut(s) 213, 266, 465, 480, 537
SduI GDGCHC 2 cut(s) 205, 271
SfaNI GCATC 2 cut(s) 442, 450
SfcI CTRYAG 1 cut(s) 1068
SgrAI CRCCGGYG 1 cut(s) 45
SinI GGWCC 1 cut(s) 539
SmiMI CAYNNNNRTG 1 cut(s) 46
SmlI CTYRAG 1 cut(s) 914
SmoI CTYRAG 1 cut(s) 914
Sse9I AATT 7 cut(s) 117, 777, 852, 894, 971, 1017, 1031
SseBI AGGCCT 1 cut(s) 576
SsiI CCGC 4 cut(s) 29, 144, 156, 796
SspI AATATT 1 cut(s) 517
SspMI CTAG 3 cut(s) 5, 315, 630
StuI AGGCCT 1 cut(s) 576
StyD4I CCNGG 5 cut(s) 211, 264, 463, 478, 535
TaaI ACNGT 4 cut(s) 406, 543, 649, 859
TaiI ACGT 1 cut(s) 297
TaqI TCGA 1 cut(s) 1090
TasI AATT 7 cut(s) 117, 777, 852, 894, 971, 1017, 1031
TauI GCSGC 1 cut(s) 32
TfiI GAWTC 3 cut(s) 386, 606, 1064
Tru1I TTAA 1 cut(s) 207
Tru9I TTAA 1 cut(s) 207
TseI GCWGC 2 cut(s) 32, 557
TspDTI ATGAA 4 cut(s) 399, 525, 770, 798
TspGWI ACGGA 4 cut(s) 9, 69, 263, 500
VpaK11BI GGWCC 1 cut(s) 539
XapI RAATTY 3 cut(s) 777, 894, 1031
XmiI GTMKAC 2 cut(s) 23, 581
XmnI GAANNNNTTC 1 cut(s) 516
XspI CTAG 3 cut(s) 5, 315, 630
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.