FvH4_2g39240

Ribosomal RNA small subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0015451
Physical Location & Seq
Reverse (-)
28236317 .. 28239559
3243 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g39240.t1

Sequence Viewer

Length: 1083 bp
ATGCTAACACGCCGACTTCCGTCTACGGCGGCTGCTTTCTCTCGCCGCTGGGCCGGACTCCCGAACTTGGGCCGGACTCCGACGTCTCTCCAGTCACTCCCTCTTTCCCCTAATAAACTCACCCTAACTGCTTTCTGTTCCACTTCTCAAACCGACTCATTCCCCCAGCCCTCCTCAAAACAAGGCGCTCTCATTTCCGGTTTATACTTGGTCGGAACTCCGATCGGAAACCTTGAAGATATCACCTTCCGGGCTCTCCGTGTACTGAAATCAGCTCATGTGATACTTTCCGAGGACACTAGGCATTCCGGGAAGTTGCTCCATCACTACAATATCAAGACTCCTCTGCTGAGCTATCACAAGTTCAATGAAGCGCAGAGGGAGCAGACGGTGTTGAAGAGGTTGAAGGAAGGTGAAATCGTCGCGCTTATAAGCGATGCTGGTATGCCAGGCATTAGTGATCCTGGTGCCGAACTGGCAAAACTTTGTGCGAATGAGAATATTCCTGTTATTCCTATACCTGGGCCGTGTGCTTTCGTGGCTGCTCTCTCTGCCTCAGGCCTGTCTACTGATGAGTTTACTTTCGTTGGATTCCTCTCTAAGCATTCTGGAACTAGGAAAGAGAGGCTTGCACTTTCTGCAAGTGAGGCAACAACACAGATATTTTATGTTCCTCCCCACAAGCTTCTTCAGTTTCTTGAAGAGACTTCTTCACTTTTTGGTGTTACAAGACGATGCGTAATAGCTCGTGAACTGACAAAAATTCACGAAGAGTTTTGGCGGGGCACGTTGGGAGAAGCAGAACAATGGTTTATAACTCACCAGCCAAGAGGTGAAATTACTGTATTAATTGAAGGAAAGGAAGATACTCCAGTTGAAACTCCATCTGAATCTCAGCTTGAGAATGAGTTGAGAGAATTGATCTCTAACGGGCACAGTCTTTCTACGGCTGTGAAATTAGTAGCTGATGGAACATCGGTGAAGAGGAAAACGATATATTCAATTGCATTGAGAAAATTCGGAAAGCAACAACTTGTTTCAGATAGTGATTCTTCAGATCCATTGAAGCCACATCAAGAGTGA

Protein Analysis

361

Amino Acids

39.53

Weight (kDa)

8.28

Isoelectric Point (pI)

46.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TP_methylase PF00590 68 - 267 2.3e-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 2 cut(s) 431, 815
AasI GACNNNNNNGTC 1 cut(s) 82
AatII GACGTC 1 cut(s) 86
AccB1I GGYRCC 1 cut(s) 467
AccI GTMKAC 2 cut(s) 23, 566
AccII CGCG 1 cut(s) 425
AciI CCGC 3 cut(s) 29, 46, 781
AclWI GGATC 2 cut(s) 455, 1052
AcsI RAATTY 2 cut(s) 762, 1016
AcuI CTGAAG 2 cut(s) 674, 1038
AcyI GRCGYC 1 cut(s) 83
AfaI GTAC 1 cut(s) 264
AfiI CCNNNNNNNGG 3 cut(s) 67, 68, 521
AgsI TTSAA 9 cut(s) 236, 367, 397, 406, 701, 854, 878, 1002, 1066
AjnI CCWGG 3 cut(s) 448, 463, 520
AluBI AGCT 6 cut(s) 275, 354, 685, 746, 898, 965
AluI AGCT 6 cut(s) 275, 354, 685, 746, 898, 965
Alw26I GTCTC 2 cut(s) 90, 698
AlwI GGATC 2 cut(s) 455, 1052
AoxI GGCC 4 cut(s) 51, 70, 524, 559
ApeKI GCWGC 2 cut(s) 32, 542
ApoI RAATTY 2 cut(s) 762, 1016
AseI ATTAAT 1 cut(s) 848
AspLEI GCGC 3 cut(s) 188, 376, 427
AspS9I GGNCC 3 cut(s) 51, 70, 524
AsuC2I CCSGG 2 cut(s) 251, 310
AsuHPI GGTGA 6 cut(s) 112, 235, 425, 812, 845, 991
AxyI CCTNAGG 1 cut(s) 556
BaeGI GKGCMC 2 cut(s) 788, 936
BaeI ACNNNNGTAYC 2 cut(s) 858, 891
BanI GGYRCC 1 cut(s) 467
BanII GRGCYC 1 cut(s) 256
BauI CACGAG 1 cut(s) 747
BbvI GCAGC 2 cut(s) 19, 529
BccI CCATC 3 cut(s) 330, 892, 962
BceAI ACGGC 3 cut(s) 42, 511, 963
BciT130I CCWGG 3 cut(s) 450, 465, 522
BcnI CCSGG 2 cut(s) 251, 310
BcoDI GTCTC 2 cut(s) 90, 698
BfaI CTAG 2 cut(s) 300, 615
BfoI RGCGCY 1 cut(s) 189
BglI GCCNNNNNGGC 1 cut(s) 476
BisI GCNGC 4 cut(s) 30, 33, 46, 543
BlpI GCTNAGC 1 cut(s) 350
BlsI GCNGC 4 cut(s) 31, 34, 47, 544
Bme1390I CCNGG 5 cut(s) 251, 310, 450, 465, 522
BmgT120I GGNCC 3 cut(s) 51, 70, 524
BmiI GGNNCC 1 cut(s) 469
BmrFI CCNGG 5 cut(s) 251, 310, 450, 465, 522
BmsI GCATC 2 cut(s) 427, 725
BoxI GACNNNNGTC 1 cut(s) 19
BpmI CTGGAG 2 cut(s) 74, 855
Bpu1102I GCTNAGC 1 cut(s) 350
BpuEI CTTGAG 1 cut(s) 920
BpuMI CCSGG 2 cut(s) 251, 310
BsaHI GRCGYC 1 cut(s) 83
BsaJI CCNNGG 2 cut(s) 291, 521
BsaWI WCCGGW 1 cut(s) 197
Bsc4I CCNNNNNNNGG 3 cut(s) 67, 68, 521
Bse1I ACTGG 3 cut(s) 91, 480, 872
Bse21I CCTNAGG 1 cut(s) 556
BseBI CCWGG 3 cut(s) 450, 465, 522
BseDI CCNNGG 2 cut(s) 291, 521
BseLI CCNNNNNNNGG 3 cut(s) 67, 68, 521
BseMII CTCAG 3 cut(s) 341, 570, 908
BseNI ACTGG 3 cut(s) 91, 480, 872
BseRI GAGGAG 2 cut(s) 163, 333
BseSI GKGCMC 2 cut(s) 788, 936
BseXI GCAGC 2 cut(s) 19, 529
BseYI CCCAGC 2 cut(s) 48, 165
Bsh1236I CGCG 1 cut(s) 425
Bsh1285I CGRYCG 1 cut(s) 225
BshFI GGCC 4 cut(s) 53, 72, 526, 561
BshNI GGYRCC 1 cut(s) 467
BsiEI CGRYCG 1 cut(s) 225
BsiSI CCGG 5 cut(s) 54, 73, 198, 250, 309
BslI CCNNNNNNNGG 3 cut(s) 67, 68, 521
BsmAI GTCTC 2 cut(s) 90, 698
BsmBI CGTCTC 1 cut(s) 90
BsmI GAATGC 2 cut(s) 304, 604
BsnI GGCC 4 cut(s) 53, 72, 526, 561
Bsp1286I GDGCHC 3 cut(s) 256, 788, 936
Bsp143I GATC 4 cut(s) 222, 460, 921, 1057
Bsp1720I GCTNAGC 1 cut(s) 350
BspACI CCGC 3 cut(s) 29, 46, 781
BspANI GGCC 4 cut(s) 53, 72, 526, 561
BspCNI CTCAG 3 cut(s) 342, 569, 907
BspFNI CGCG 1 cut(s) 425
BspLI GGNNCC 1 cut(s) 469
BspPI GGATC 2 cut(s) 455, 1052
BspT107I GGYRCC 1 cut(s) 467
BsrI ACTGG 3 cut(s) 91, 480, 872
BssECI CCNNGG 2 cut(s) 291, 521
BssMI GATC 4 cut(s) 222, 460, 921, 1057
BssNI GRCGYC 1 cut(s) 83
BssSI CACGAG 1 cut(s) 747
Bst2BI CACGAG 1 cut(s) 747
Bst2UI CCWGG 3 cut(s) 450, 465, 522
Bst4CI ACNGT 3 cut(s) 391, 844, 938
Bst6I CTCTTC 4 cut(s) 392, 696, 765, 977
BstACI GRCGYC 1 cut(s) 83
BstAPI GCANNNNNTGC 1 cut(s) 638
BstC8I GCNNGC 1 cut(s) 630
BstDEI CTNAG 4 cut(s) 350, 556, 600, 894
BstFNI CGCG 1 cut(s) 425
BstH2I RGCGCY 1 cut(s) 189
BstHHI GCGC 3 cut(s) 188, 376, 427
BstKTI GATC 4 cut(s) 225, 463, 924, 1060
BstMAI GTCTC 2 cut(s) 90, 698
BstMBI GATC 4 cut(s) 222, 460, 921, 1057
BstMCI CGRYCG 1 cut(s) 225
BstMWI GCNNNNNNNGC 6 cut(s) 382, 476, 539, 551, 638, 647
BstNI CCWGG 3 cut(s) 450, 465, 522
BstPAI GACNNNNGTC 1 cut(s) 19
BstSCI CCNGG 5 cut(s) 249, 308, 448, 463, 520
BstSLI GKGCMC 2 cut(s) 788, 936
BstUI CGCG 1 cut(s) 425
BstV1I GCAGC 2 cut(s) 19, 529
BstX2I RGATCY 1 cut(s) 1057
BstYI RGATCY 1 cut(s) 1057
Bsu36I CCTNAGG 1 cut(s) 556
BsuRI GGCC 4 cut(s) 53, 72, 526, 561
BtgZI GCGATG 1 cut(s) 450
Cac8I GCNNGC 1 cut(s) 630
CfoI GCGC 3 cut(s) 188, 376, 427
Cfr13I GGNCC 3 cut(s) 51, 70, 524
Csp6I GTAC 1 cut(s) 263
CviAII CATG 1 cut(s) 278
CviQI GTAC 1 cut(s) 263
DdeI CTNAG 4 cut(s) 350, 556, 600, 894
DpnI GATC 4 cut(s) 224, 462, 923, 1059
DpnII GATC 4 cut(s) 222, 460, 921, 1057
DrdI GACNNNNNNGTC 1 cut(s) 82
DseDI GACNNNNNNGTC 1 cut(s) 82
Eam1104I CTCTTC 4 cut(s) 392, 696, 765, 977
EarI CTCTTC 4 cut(s) 392, 696, 765, 977
Eco147I AGGCCT 1 cut(s) 561
Eco24I GRGCYC 1 cut(s) 256
Eco32I GATATC 1 cut(s) 241
Eco57I CTGAAG 2 cut(s) 674, 1038
Eco81I CCTNAGG 1 cut(s) 556
EcoRII CCWGG 3 cut(s) 448, 463, 520
EcoRV GATATC 1 cut(s) 241
EcoT38I GRGCYC 1 cut(s) 256
Esp3I CGTCTC 1 cut(s) 90
FaeI CATG 1 cut(s) 281
FaiI YATR 8 cut(s) 205, 279, 431, 446, 518, 669, 815, 997
FalI AAGNNNNNCTT 2 cut(s) 612, 644
FatI CATG 1 cut(s) 277
FauI CCCGC 1 cut(s) 774
FblI GTMKAC 2 cut(s) 23, 566
Fnu4HI GCNGC 4 cut(s) 30, 33, 46, 543
FriOI GRGCYC 1 cut(s) 256
Fsp4HI GCNGC 4 cut(s) 30, 33, 46, 543
FspBI CTAG 2 cut(s) 300, 615
GlaI GCGC 3 cut(s) 187, 375, 426
GluI GCNGC 4 cut(s) 30, 33, 46, 543
GsaI CCCAGC 2 cut(s) 52, 169
GsuI CTGGAG 2 cut(s) 74, 855
HaeII RGCGCY 1 cut(s) 189
HaeIII GGCC 4 cut(s) 53, 72, 526, 561
HapII CCGG 5 cut(s) 54, 73, 198, 250, 309
HhaI GCGC 3 cut(s) 188, 376, 427
Hin1I GRCGYC 1 cut(s) 83
Hin1II CATG 1 cut(s) 281
Hin6I GCGC 3 cut(s) 186, 374, 425
HinP1I GCGC 3 cut(s) 186, 374, 425
HindIII AAGCTT 1 cut(s) 683
HinfI GANTC 7 cut(s) 57, 76, 155, 340, 591, 890, 1049
HpaII CCGG 5 cut(s) 54, 73, 198, 250, 309
HphI GGTGA 6 cut(s) 112, 235, 425, 812, 845, 991
Hpy166II GTNNAC 5 cut(s) 24, 263, 567, 579, 752
Hpy188I TCNGA 9 cut(s) 81, 215, 222, 227, 292, 889, 1022, 1042, 1057
Hpy188III TCNNGA 7 cut(s) 61, 337, 609, 698, 749, 767, 1076
Hpy8I GTNNAC 5 cut(s) 24, 263, 567, 579, 752
Hpy99I CGWCG 2 cut(s) 85, 425
HpyAV CCTTC 4 cut(s) 256, 400, 404, 848
HpyCH4III ACNGT 3 cut(s) 391, 844, 938
HpyCH4IV ACGT 2 cut(s) 83, 788
HpyCH4V TGCA 3 cut(s) 632, 641, 1007
HpyF10VI GCNNNNNNNGC 6 cut(s) 382, 476, 539, 551, 638, 647
HpyF3I CTNAG 4 cut(s) 350, 556, 600, 894
HpySE526I ACGT 2 cut(s) 83, 788
Hsp92I GRCGYC 1 cut(s) 83
Hsp92II CATG 1 cut(s) 281
HspAI GCGC 3 cut(s) 186, 374, 425
Kzo9I GATC 4 cut(s) 222, 460, 921, 1057
LmnI GCTCC 2 cut(s) 324, 382
Lsp1109I GCAGC 2 cut(s) 19, 529
LweI GCATC 2 cut(s) 427, 725
MaeI CTAG 2 cut(s) 300, 615
MaeII ACGT 2 cut(s) 83, 788
MaeIII GTNAC 2 cut(s) 93, 724
MalI GATC 4 cut(s) 224, 462, 923, 1059
MboI GATC 4 cut(s) 222, 460, 921, 1057
MboII GAAGA 9 cut(s) 248, 409, 680, 702, 713, 782, 875, 994, 1044
MfeI CAATTG 1 cut(s) 1002
MflI RGATCY 1 cut(s) 1057
MhlI GDGCHC 3 cut(s) 256, 788, 936
MluCI AATT 7 cut(s) 762, 837, 849, 917, 956, 1002, 1016
MlyI GAGTC 4 cut(s) 51, 70, 149, 334
MmeI TCCRAC 3 cut(s) 104, 193, 568
MseI TTAA 1 cut(s) 848
MspA1I CMGCKG 1 cut(s) 48
MspI CCGG 5 cut(s) 54, 73, 198, 250, 309
MspR9I CCNGG 5 cut(s) 251, 310, 450, 465, 522
MunI CAATTG 1 cut(s) 1002
Mva1269I GAATGC 2 cut(s) 304, 604
MvaI CCWGG 3 cut(s) 450, 465, 522
MvnI CGCG 1 cut(s) 425
MwoI GCNNNNNNNGC 6 cut(s) 382, 476, 539, 551, 638, 647
NciI CCSGG 2 cut(s) 251, 310
NdeII GATC 4 cut(s) 222, 460, 921, 1057
NlaIII CATG 1 cut(s) 281
NlaIV GGNNCC 1 cut(s) 469
NmuCI GTSAC 1 cut(s) 93
PceI AGGCCT 1 cut(s) 561
PctI GAATGC 2 cut(s) 304, 604
PfeI GAWTC 3 cut(s) 591, 890, 1049
PfoI TCCNGGA 1 cut(s) 308
PkrI GCNGC 4 cut(s) 31, 34, 47, 544
Ple19I CGATCG 1 cut(s) 225
PleI GAGTC 4 cut(s) 51, 70, 149, 334
PpsI GAGTC 4 cut(s) 51, 70, 149, 334
PshAI GACNNNNGTC 1 cut(s) 19
PshBI ATTAAT 1 cut(s) 848
PsiI TTATAA 2 cut(s) 431, 815
Psp6I CCWGG 3 cut(s) 448, 463, 520
PspFI CCCAGC 2 cut(s) 48, 165
PspGI CCWGG 3 cut(s) 448, 463, 520
PspN4I GGNNCC 1 cut(s) 469
PspPI GGNCC 3 cut(s) 51, 70, 524
PsuI RGATCY 1 cut(s) 1057
PvuI CGATCG 1 cut(s) 225
RsaI GTAC 1 cut(s) 264
RsaNI GTAC 1 cut(s) 263
SaqAI TTAA 1 cut(s) 848
SatI GCNGC 4 cut(s) 30, 33, 46, 543
Sau3AI GATC 4 cut(s) 222, 460, 921, 1057
Sau96I GGNCC 3 cut(s) 51, 70, 524
SchI GAGTC 4 cut(s) 51, 70, 149, 334
ScrFI CCNGG 5 cut(s) 251, 310, 450, 465, 522
SduI GDGCHC 3 cut(s) 256, 788, 936
SfaNI GCATC 2 cut(s) 427, 725
SmlI CTYRAG 1 cut(s) 899
SmoI CTYRAG 1 cut(s) 899
Sse9I AATT 7 cut(s) 762, 837, 849, 917, 956, 1002, 1016
SseBI AGGCCT 1 cut(s) 561
SsiI CCGC 3 cut(s) 29, 46, 781
SspI AATATT 1 cut(s) 502
SspMI CTAG 2 cut(s) 300, 615
StuI AGGCCT 1 cut(s) 561
StyD4I CCNGG 5 cut(s) 249, 308, 448, 463, 520
TaaI ACNGT 3 cut(s) 391, 844, 938
TaiI ACGT 2 cut(s) 86, 791
TasI AATT 7 cut(s) 762, 837, 849, 917, 956, 1002, 1016
TatI WGTACW 1 cut(s) 262
TauI GCSGC 2 cut(s) 32, 48
TfiI GAWTC 3 cut(s) 591, 890, 1049
Tru1I TTAA 1 cut(s) 848
Tru9I TTAA 1 cut(s) 848
TseFI GTSAC 1 cut(s) 93
TseI GCWGC 2 cut(s) 32, 542
Tsp45I GTSAC 1 cut(s) 93
TspDTI ATGAA 1 cut(s) 384
TspGWI ACGGA 2 cut(s) 9, 248
VspI ATTAAT 1 cut(s) 848
XapI RAATTY 2 cut(s) 762, 1016
XmiI GTMKAC 2 cut(s) 23, 566
XspI CTAG 2 cut(s) 300, 615
ZraI GACGTC 1 cut(s) 84
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.