FvH4_5g16400

Ribosomal RNA small subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0008341
Physical Location & Seq
Reverse (-)
9330135 .. 9332344
2210 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g16400.t3

Sequence Viewer

Length: 828 bp
ATGTTGTTGGGTAGCCGTTGCGCACTAGTCCCAGTCTCTCTGGGGACTTTTTTCAAACACCTTCCGCGCTCAAAACCCACCCCCATCTTCCCTTCCAAAACCCTCACCACCACCGCCACAATCCACTTCGACGCCTTGGATTCCCGCCAGAAACACCAAATCCATCTCTACGTCGACACCCTTCTCGATTGGAACCAGAGAATGAACCTGACCGCAGTTCGAGAAGCCGGTGAGGTAATGGAGAGGCATATTGACGATTCGCTCGCGATCATACCGCCCATAACAGACTCTTATCTCTCTAATTGCGGTGCTTCATTTGGAAATCTCAGTCTCATTGATGTCGGTAGCGGCGCAGGACTGCCCGGCTTGGTCTTGGCCATTGCTTGCCCCGATTGGAAAGTGACCCTGATGGAGTCGATGAGCAAACGATGTGTGTTTTTGGAGCATGCTGTTAATCATGTTGGTTTGTCAAATGTGGAGATTGTAAGAGGAAGAGCAGAGAACTTGGGTCAGGATGTTTGCTTCAGGGAGAAATATGATGTAGCGGTAGCCAGAGCGGTTGCGGAGATGAGAATTTTAGCGGAATACTGTCTTCCTCTGGTTCGCGTTGGTGGCTTGTTTGTGGCTGCAAAGGGTCATGATCCTCAGATGGAAGTAAAGAATGCAGAAAAAGCCATTCAAATATTGGGTGCTTCCATACGACAACTATGCCCAGTGGAATCTCACAGCCCGTATGGACAAAGAACGGCCATTGTATGCCTGAAAACCAGTCCCACCCCAAAGAAGTACCCTCGTGATCCAGGTACCCCGGTAAAAGTACCACTATGA
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
GidB

Protein Analysis

276

Amino Acids

30.09

Weight (kDa)

8.6

Isoelectric Point (pI)

35.29

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
GidB PF02527 50 - 191 8.2e-40 rRNA small subunit methyltransferase G
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 22
Acc65I GGTACC 1 cut(s) 803
AccB1I GGYRCC 1 cut(s) 803
AccBSI CCGCTC 1 cut(s) 557
AccI GTMKAC 1 cut(s) 174
AccII CGCG 3 cut(s) 67, 266, 606
AclWI GGATC 2 cut(s) 635, 791
AcoI YGGCCR 2 cut(s) 375, 747
AcsI RAATTY 1 cut(s) 573
AcuI CTGAAG 1 cut(s) 508
AcyI GRCGYC 1 cut(s) 132
AfaI GTAC 3 cut(s) 788, 805, 819
AgsI TTSAA 2 cut(s) 55, 680
AhlI ACTAGT 1 cut(s) 25
AjnI CCWGG 1 cut(s) 799
Alw26I GTCTC 2 cut(s) 40, 335
AlwI GGATC 2 cut(s) 635, 791
AoxI GGCC 2 cut(s) 375, 747
ApeKI GCWGC 1 cut(s) 626
ApoI RAATTY 1 cut(s) 573
Asp718I GGTACC 1 cut(s) 803
AspLEI GCGC 3 cut(s) 23, 69, 353
AsuC2I CCSGG 2 cut(s) 363, 809
AsuHPI GGTGA 2 cut(s) 97, 242
BaeI ACNNNNGTAYC 2 cut(s) 795, 828
BalI TGGCCA 1 cut(s) 377
BanI GGYRCC 1 cut(s) 803
BauI CACGAG 1 cut(s) 792
BbsI GAAGAC 1 cut(s) 584
BbvI GCAGC 1 cut(s) 613
BccI CCATC 4 cut(s) 92, 171, 403, 643
BceAI ACGGC 1 cut(s) 762
BcgI CGANNNNNNTGC 2 cut(s) 690, 724
BciT130I CCWGG 1 cut(s) 801
BcnI CCSGG 2 cut(s) 363, 809
BcoDI GTCTC 2 cut(s) 40, 335
BcuI ACTAGT 1 cut(s) 25
BfaI CTAG 1 cut(s) 26
BisI GCNGC 2 cut(s) 349, 627
BlsI GCNGC 2 cut(s) 350, 628
Bme1390I CCNGG 3 cut(s) 363, 801, 809
BmiI GGNNCC 2 cut(s) 194, 805
BmrFI CCNGG 3 cut(s) 363, 801, 809
BmrI ACTGGG 2 cut(s) 26, 707
BmuI ACTGGG 2 cut(s) 26, 707
BpiI GAAGAC 1 cut(s) 584
BpuMI CCSGG 2 cut(s) 363, 809
BsaHI GRCGYC 1 cut(s) 132
BsaJI CCNNGG 2 cut(s) 135, 807
Bse118I RCCGGY 1 cut(s) 227
Bse1I ACTGG 3 cut(s) 32, 713, 768
Bse3DI GCAATG 1 cut(s) 378
BseBI CCWGG 1 cut(s) 801
BseDI CCNNGG 2 cut(s) 135, 807
BseGI GGATG 1 cut(s) 520
BseMI GCAATG 1 cut(s) 378
BseMII CTCAG 2 cut(s) 340, 659
BseNI ACTGG 3 cut(s) 32, 713, 768
BseXI GCAGC 1 cut(s) 613
Bsh1236I CGCG 3 cut(s) 67, 266, 606
BshFI GGCC 2 cut(s) 377, 749
BshNI GGYRCC 1 cut(s) 803
BsiSI CCGG 3 cut(s) 228, 363, 809
BslFI GGGAC 3 cut(s) 14, 58, 756
BsmAI GTCTC 2 cut(s) 40, 335
BsmFI GGGAC 3 cut(s) 14, 58, 756
BsmI GAATGC 1 cut(s) 667
BsnI GGCC 2 cut(s) 377, 749
Bsp143I GATC 3 cut(s) 267, 640, 796
Bsp68I TCGCGA 1 cut(s) 266
BspANI GGCC 2 cut(s) 377, 749
BspCNI CTCAG 2 cut(s) 339, 658
BspFNI CGCG 3 cut(s) 67, 266, 606
BspHI TCATGA 1 cut(s) 637
BspLI GGNNCC 2 cut(s) 194, 805
BspPI GGATC 2 cut(s) 635, 791
BspQI GCTCTTC 1 cut(s) 487
BspT107I GGYRCC 1 cut(s) 803
BsrBI CCGCTC 1 cut(s) 557
BsrDI GCAATG 1 cut(s) 378
BsrFI RCCGGY 1 cut(s) 227
BsrI ACTGG 3 cut(s) 32, 713, 768
BssAI RCCGGY 1 cut(s) 227
BssECI CCNNGG 2 cut(s) 135, 807
BssMI GATC 3 cut(s) 267, 640, 796
BssNI GRCGYC 1 cut(s) 132
BssSI CACGAG 1 cut(s) 792
BssT1I CCWWGG 1 cut(s) 135
Bst2BI CACGAG 1 cut(s) 792
Bst2UI CCWGG 1 cut(s) 801
Bst4CI ACNGT 1 cut(s) 590
Bst6I CTCTTC 1 cut(s) 487
BstACI GRCGYC 1 cut(s) 132
BstC8I GCNNGC 3 cut(s) 264, 385, 447
BstDEI CTNAG 2 cut(s) 326, 645
BstF5I GGATG 1 cut(s) 520
BstFNI CGCG 3 cut(s) 67, 266, 606
BstHHI GCGC 3 cut(s) 23, 69, 353
BstKTI GATC 3 cut(s) 270, 643, 799
BstMAI GTCTC 2 cut(s) 40, 335
BstMBI GATC 3 cut(s) 267, 640, 796
BstMWI GCNNNNNNNGC 2 cut(s) 612, 671
BstNI CCWGG 1 cut(s) 801
BstNSI RCATGY 1 cut(s) 449
BstSCI CCNGG 3 cut(s) 361, 799, 807
BstUI CGCG 3 cut(s) 67, 266, 606
BstV1I GCAGC 1 cut(s) 613
BstV2I GAAGAC 1 cut(s) 584
BsuRI GGCC 2 cut(s) 377, 749
BtsCI GGATG 1 cut(s) 520
BtsIMutI CAGTG 1 cut(s) 720
BtuMI TCGCGA 1 cut(s) 266
Cac8I GCNNGC 3 cut(s) 264, 385, 447
CciI TCATGA 1 cut(s) 637
CfoI GCGC 3 cut(s) 23, 69, 353
Cfr10I RCCGGY 1 cut(s) 227
CseI GACGC 1 cut(s) 140
Csp6I GTAC 3 cut(s) 787, 804, 818
CviAII CATG 3 cut(s) 446, 458, 638
CviQI GTAC 3 cut(s) 787, 804, 818
DdeI CTNAG 2 cut(s) 326, 645
DpnI GATC 3 cut(s) 269, 642, 798
DpnII GATC 3 cut(s) 267, 640, 796
EaeI YGGCCR 2 cut(s) 375, 747
Eam1104I CTCTTC 1 cut(s) 487
EarI CTCTTC 1 cut(s) 487
Eco130I CCWWGG 1 cut(s) 135
Eco57I CTGAAG 1 cut(s) 508
EcoRII CCWGG 1 cut(s) 799
EcoT14I CCWWGG 1 cut(s) 135
ErhI CCWWGG 1 cut(s) 135
FaeI CATG 3 cut(s) 449, 461, 641
FaqI GGGAC 3 cut(s) 14, 58, 756
FatI CATG 3 cut(s) 445, 457, 637
FauI CCCGC 1 cut(s) 152
FblI GTMKAC 1 cut(s) 174
Fnu4HI GCNGC 2 cut(s) 349, 627
FokI GGATG 1 cut(s) 527
Fsp4HI GCNGC 2 cut(s) 349, 627
FspBI CTAG 1 cut(s) 26
FspI TGCGCA 1 cut(s) 22
GlaI GCGC 3 cut(s) 22, 68, 352
GluI GCNGC 2 cut(s) 349, 627
HaeIII GGCC 2 cut(s) 377, 749
HapII CCGG 3 cut(s) 228, 363, 809
HgaI GACGC 1 cut(s) 140
HhaI GCGC 3 cut(s) 23, 69, 353
Hin1I GRCGYC 1 cut(s) 132
Hin1II CATG 3 cut(s) 449, 461, 641
Hin6I GCGC 3 cut(s) 21, 67, 351
HinP1I GCGC 3 cut(s) 21, 67, 351
HincII GTYRAC 1 cut(s) 175
HindII GTYRAC 1 cut(s) 175
HinfI GANTC 5 cut(s) 140, 257, 287, 413, 719
HpaII CCGG 3 cut(s) 228, 363, 809
HphI GGTGA 2 cut(s) 97, 242
Hpy166II GTNNAC 1 cut(s) 175
Hpy188I TCNGA 1 cut(s) 648
Hpy188III TCNNGA 6 cut(s) 185, 221, 265, 512, 638, 794
Hpy8I GTNNAC 1 cut(s) 175
Hpy99I CGWCG 2 cut(s) 134, 176
HpyAV CCTTC 3 cut(s) 71, 102, 191
HpyCH4III ACNGT 1 cut(s) 590
HpyCH4IV ACGT 1 cut(s) 171
HpyCH4V TGCA 2 cut(s) 629, 665
HpyF10VI GCNNNNNNNGC 2 cut(s) 612, 671
HpyF3I CTNAG 2 cut(s) 326, 645
HpySE526I ACGT 1 cut(s) 171
Hsp92I GRCGYC 1 cut(s) 132
Hsp92II CATG 3 cut(s) 449, 461, 641
HspAI GCGC 3 cut(s) 21, 67, 351
KpnI GGTACC 1 cut(s) 807
Kzo9I GATC 3 cut(s) 267, 640, 796
LguI GCTCTTC 1 cut(s) 487
LmnI GCTCC 1 cut(s) 442
Lsp1109I GCAGC 1 cut(s) 613
MaeI CTAG 1 cut(s) 26
MaeII ACGT 1 cut(s) 171
MaeIII GTNAC 1 cut(s) 400
MalI GATC 3 cut(s) 269, 642, 798
MbiI CCGCTC 1 cut(s) 557
MboI GATC 3 cut(s) 267, 640, 796
MboII GAAGA 3 cut(s) 79, 504, 584
MlsI TGGCCA 1 cut(s) 377
MluCI AATT 2 cut(s) 301, 573
MluNI TGGCCA 1 cut(s) 377
MlyI GAGTC 2 cut(s) 281, 422
MnlI CCTC 7 cut(s) 113, 226, 237, 482, 606, 654, 801
Mox20I TGGCCA 1 cut(s) 377
MscI TGGCCA 1 cut(s) 377
MseI TTAA 1 cut(s) 453
Msp20I TGGCCA 1 cut(s) 377
MspI CCGG 3 cut(s) 228, 363, 809
MspR9I CCNGG 3 cut(s) 363, 801, 809
Mva1269I GAATGC 1 cut(s) 667
MvaI CCWGG 1 cut(s) 801
MvnI CGCG 3 cut(s) 67, 266, 606
MwoI GCNNNNNNNGC 2 cut(s) 612, 671
NciI CCSGG 2 cut(s) 363, 809
NdeII GATC 3 cut(s) 267, 640, 796
NlaIII CATG 3 cut(s) 449, 461, 641
NlaIV GGNNCC 2 cut(s) 194, 805
NmuCI GTSAC 1 cut(s) 400
NruI TCGCGA 1 cut(s) 266
NsbI TGCGCA 1 cut(s) 22
NspI RCATGY 1 cut(s) 449
PaeI GCATGC 1 cut(s) 449
PagI TCATGA 1 cut(s) 637
PciSI GCTCTTC 1 cut(s) 487
PctI GAATGC 1 cut(s) 667
PfeI GAWTC 3 cut(s) 140, 257, 719
PkrI GCNGC 2 cut(s) 350, 628
PleI GAGTC 2 cut(s) 281, 421
PpsI GAGTC 2 cut(s) 281, 421
Psp6I CCWGG 1 cut(s) 799
PspGI CCWGG 1 cut(s) 799
PspN4I GGNNCC 2 cut(s) 194, 805
RruI TCGCGA 1 cut(s) 266
RsaI GTAC 3 cut(s) 788, 805, 819
RsaNI GTAC 3 cut(s) 787, 804, 818
SalI GTCGAC 1 cut(s) 173
SapI GCTCTTC 1 cut(s) 487
SaqAI TTAA 1 cut(s) 453
SatI GCNGC 2 cut(s) 349, 627
Sau3AI GATC 3 cut(s) 267, 640, 796
SchI GAGTC 2 cut(s) 281, 422
ScrFI CCNGG 3 cut(s) 363, 801, 809
SetI ASST 5 cut(s) 63, 174, 210, 237, 805
SpeI ACTAGT 1 cut(s) 25
SphI GCATGC 1 cut(s) 449
Sse9I AATT 2 cut(s) 301, 573
SspI AATATT 1 cut(s) 684
SspMI CTAG 1 cut(s) 26
StyD4I CCNGG 3 cut(s) 361, 799, 807
StyI CCWWGG 1 cut(s) 135
TaaI ACNGT 1 cut(s) 590
TaiI ACGT 1 cut(s) 174
TaqI TCGA 5 cut(s) 129, 174, 186, 220, 416
TasI AATT 2 cut(s) 301, 573
TauI GCSGC 1 cut(s) 351
TfiI GAWTC 3 cut(s) 140, 257, 719
Tru1I TTAA 1 cut(s) 453
Tru9I TTAA 1 cut(s) 453
TscAI CASTG 1 cut(s) 720
TseFI GTSAC 1 cut(s) 400
TseI GCWGC 1 cut(s) 626
Tsp45I GTSAC 1 cut(s) 400
TspDTI ATGAA 2 cut(s) 218, 303
TspRI CASTG 1 cut(s) 720
XapI RAATTY 1 cut(s) 573
XceI RCATGY 1 cut(s) 449
XcmI CCANNNNNNNNNTGG 1 cut(s) 682
XmiI GTMKAC 1 cut(s) 174
XspI CTAG 1 cut(s) 26
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.