FvH4_6g05940

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0007659
Physical Location & Seq
Forward (+)
3408322 .. 3409531
1210 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g05940.t1

Sequence Viewer

Length: 507 bp
ATGATCATTATTGAATCAAATCAAACAGACCTAACTCTAATTTGGAAATGGGACATGGAGCAAATCTGGAAAGAAAAAAAACGAACAGTAGCAGCCTCTCACTTCTTATTCCTTTTGGGCTTGGCCGCGGCGGCGGGCTTCTTCTTCGCCGGAGCAGCAGCGACGGGCTTCGATGGAGCTGTGAGGGACTTAGCGGGGGGGGATCTTGTAGGAGCTTTTGACCTTGATGAGCTTATCGGAGCTGACGAGCTTCTTCAAATGAGTAGTAGGATGTTATTTTCTAGTATATATACTGTTTTAAATGCATTTGATTTTCACAGTTACATATCCTATCTTCCTTTGGCACATATCTATGAGCGAGCTAATCAAATTGTCGTACTGTACTTTGGTGGAGCTTGTGGCTTCTACCAGGGGGACAATCTGAAATTGATGGATGACCTGGCTGTATTAAGACCGACACTAATTTGCAGTGTTCCGCGGGTGTACAATCTAATCTATGCTGGGTAA
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
RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

169

Amino Acids

18.62

Weight (kDa)

4.73

Isoelectric Point (pI)

31.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
AMP-binding PF00501 90 - 165 7.8e-10 AMP-binding enzyme
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)
AccII CGCG 2 cut(s) 128, 478
AciI CCGC 7 cut(s) 126, 128, 131, 134, 194, 476, 478
AclWI GGATC 1 cut(s) 210
AcoI YGGCCR 1 cut(s) 123
AfaI GTAC 3 cut(s) 378, 383, 485
AgsI TTSAA 2 cut(s) 14, 257
AjnI CCWGG 2 cut(s) 408, 438
AluBI AGCT 7 cut(s) 179, 215, 232, 242, 250, 362, 395
AluI AGCT 7 cut(s) 179, 215, 232, 242, 250, 362, 395
AlwI GGATC 1 cut(s) 210
AoxI GGCC 1 cut(s) 123
ApeKI GCWGC 3 cut(s) 92, 155, 158
BbvI GCAGC 3 cut(s) 104, 167, 170
BccI CCATC 2 cut(s) 167, 424
BciT130I CCWGG 2 cut(s) 410, 440
BclI TGATCA 1 cut(s) 3
BfaI CTAG 1 cut(s) 282
BglI GCCNNNNNGGC 1 cut(s) 131
BisI GCNGC 6 cut(s) 93, 126, 129, 132, 156, 159
BlsI GCNGC 6 cut(s) 94, 127, 130, 133, 157, 160
Bme1390I CCNGG 2 cut(s) 410, 440
BmrFI CCNGG 2 cut(s) 410, 440
BsaJI CCNNGG 3 cut(s) 126, 409, 476
BseBI CCWGG 2 cut(s) 410, 440
BseDI CCNNGG 3 cut(s) 126, 409, 476
BseGI GGATG 2 cut(s) 276, 439
BseXI GCAGC 3 cut(s) 104, 167, 170
BseYI CCCAGC 1 cut(s) 500
Bsh1236I CGCG 2 cut(s) 128, 478
BshFI GGCC 1 cut(s) 125
BsiSI CCGG 1 cut(s) 150
BslFI GGGAC 3 cut(s) 65, 200, 428
BsmFI GGGAC 3 cut(s) 65, 200, 428
BsnI GGCC 1 cut(s) 125
Bsp1407I TGTACA 1 cut(s) 483
Bsp143I GATC 2 cut(s) 3, 202
BspACI CCGC 7 cut(s) 126, 128, 131, 134, 194, 476, 478
BspANI GGCC 1 cut(s) 125
BspFNI CGCG 2 cut(s) 128, 478
BspPI GGATC 1 cut(s) 210
BsrGI TGTACA 1 cut(s) 483
BssECI CCNNGG 3 cut(s) 126, 409, 476
BssMI GATC 2 cut(s) 3, 202
Bst2UI CCWGG 2 cut(s) 410, 440
Bst4CI ACNGT 4 cut(s) 88, 295, 320, 381
BstAUI TGTACA 1 cut(s) 483
BstC8I GCNNGC 2 cut(s) 136, 360
BstDEI CTNAG 1 cut(s) 190
BstDSI CCRYGG 2 cut(s) 126, 476
BstF5I GGATG 2 cut(s) 276, 439
BstFNI CGCG 2 cut(s) 128, 478
BstKTI GATC 2 cut(s) 6, 205
BstMBI GATC 2 cut(s) 3, 202
BstMWI GCNNNNNNNGC 2 cut(s) 131, 155
BstNI CCWGG 2 cut(s) 410, 440
BstSCI CCNGG 2 cut(s) 408, 438
BstUI CGCG 2 cut(s) 128, 478
BstV1I GCAGC 3 cut(s) 104, 167, 170
BstX2I RGATCY 1 cut(s) 202
BstYI RGATCY 1 cut(s) 202
BsuRI GGCC 1 cut(s) 125
BtgI CCRYGG 2 cut(s) 126, 476
BtsCI GGATG 2 cut(s) 276, 439
BtsI GCAGTG 1 cut(s) 475
BtsIMutI CAGTG 1 cut(s) 475
Cac8I GCNNGC 2 cut(s) 136, 360
Cfr42I CCGCGG 2 cut(s) 129, 479
Csp6I GTAC 3 cut(s) 377, 382, 484
CviAII CATG 1 cut(s) 55
CviQI GTAC 3 cut(s) 377, 382, 484
DdeI CTNAG 1 cut(s) 190
DpnI GATC 2 cut(s) 5, 204
DpnII GATC 2 cut(s) 3, 202
DraI TTTAAA 1 cut(s) 300
EaeI YGGCCR 1 cut(s) 123
EcoRII CCWGG 2 cut(s) 408, 438
EcoT22I ATGCAT 1 cut(s) 307
FaeI CATG 1 cut(s) 58
FaiI YATR 8 cut(s) 56, 287, 289, 291, 326, 348, 354, 498
FaqI GGGAC 3 cut(s) 65, 200, 428
FatI CATG 1 cut(s) 54
FauI CCCGC 3 cut(s) 127, 187, 471
FbaI TGATCA 1 cut(s) 3
Fnu4HI GCNGC 6 cut(s) 93, 126, 129, 132, 156, 159
FokI GGATG 2 cut(s) 283, 446
Fsp4HI GCNGC 6 cut(s) 93, 126, 129, 132, 156, 159
FspBI CTAG 1 cut(s) 282
GluI GCNGC 6 cut(s) 93, 126, 129, 132, 156, 159
GsaI CCCAGC 1 cut(s) 504
HaeIII GGCC 1 cut(s) 125
HapII CCGG 1 cut(s) 150
Hin1II CATG 1 cut(s) 58
HinfI GANTC 1 cut(s) 14
HpaII CCGG 1 cut(s) 150
Hpy166II GTNNAC 1 cut(s) 484
Hpy188I TCNGA 2 cut(s) 239, 423
Hpy188III TCNNGA 1 cut(s) 67
Hpy8I GTNNAC 1 cut(s) 484
Hpy99I CGWCG 1 cut(s) 166
HpyCH4III ACNGT 4 cut(s) 88, 295, 320, 381
HpyCH4V TGCA 2 cut(s) 305, 468
HpyF10VI GCNNNNNNNGC 2 cut(s) 131, 155
HpyF3I CTNAG 1 cut(s) 190
Hsp92II CATG 1 cut(s) 58
Ksp22I TGATCA 1 cut(s) 3
KspI CCGCGG 2 cut(s) 129, 479
Kzo9I GATC 2 cut(s) 3, 202
LmnI GCTCC 6 cut(s) 58, 152, 176, 212, 239, 392
LpnPI CCDG 7 cut(s) 52, 163, 395, 422, 425, 452, 486
Lsp1109I GCAGC 3 cut(s) 104, 167, 170
MaeI CTAG 1 cut(s) 282
MaeIII GTNAC 1 cut(s) 320
MalI GATC 2 cut(s) 5, 204
MboI GATC 2 cut(s) 3, 202
MboII GAAGA 4 cut(s) 133, 136, 245, 326
MflI RGATCY 1 cut(s) 202
MluCI AATT 4 cut(s) 39, 369, 425, 462
MnlI CCTC 2 cut(s) 106, 177
Mph1103I ATGCAT 1 cut(s) 307
MseI TTAA 2 cut(s) 299, 449
MslI CAYNNNNRTG 1 cut(s) 351
MspA1I CMGCKG 2 cut(s) 128, 478
MspI CCGG 1 cut(s) 150
MspR9I CCNGG 2 cut(s) 410, 440
MvaI CCWGG 2 cut(s) 410, 440
MvnI CGCG 2 cut(s) 128, 478
MwoI GCNNNNNNNGC 2 cut(s) 131, 155
NdeII GATC 2 cut(s) 3, 202
NlaIII CATG 1 cut(s) 58
NsiI ATGCAT 1 cut(s) 307
PcsI WCGNNNNNNNCGW 1 cut(s) 243
PfeI GAWTC 1 cut(s) 14
PkrI GCNGC 6 cut(s) 94, 127, 130, 133, 157, 160
Psp6I CCWGG 2 cut(s) 408, 438
PspFI CCCAGC 1 cut(s) 500
PspGI CCWGG 2 cut(s) 408, 438
PsuI RGATCY 1 cut(s) 202
RsaI GTAC 3 cut(s) 378, 383, 485
RsaNI GTAC 3 cut(s) 377, 382, 484
RseI CAYNNNNRTG 1 cut(s) 351
SacII CCGCGG 2 cut(s) 129, 479
SaqAI TTAA 2 cut(s) 299, 449
SatI GCNGC 6 cut(s) 93, 126, 129, 132, 156, 159
Sau3AI GATC 2 cut(s) 3, 202
ScrFI CCNGG 2 cut(s) 410, 440
Sfr303I CCGCGG 2 cut(s) 129, 479
SgrBI CCGCGG 2 cut(s) 129, 479
SmiMI CAYNNNNRTG 1 cut(s) 351
Sse9I AATT 4 cut(s) 39, 369, 425, 462
SsiI CCGC 7 cut(s) 126, 128, 131, 134, 194, 476, 478
SspMI CTAG 1 cut(s) 282
StyD4I CCNGG 2 cut(s) 408, 438
TaaI ACNGT 4 cut(s) 88, 295, 320, 381
TaqI TCGA 1 cut(s) 171
TaqII GACCGA 1 cut(s) 469
TasI AATT 4 cut(s) 39, 369, 425, 462
TatI WGTACW 2 cut(s) 381, 483
TauI GCSGC 3 cut(s) 128, 131, 134
TfiI GAWTC 1 cut(s) 14
Tru1I TTAA 2 cut(s) 299, 449
Tru9I TTAA 2 cut(s) 299, 449
TscAI CASTG 1 cut(s) 475
TseI GCWGC 3 cut(s) 92, 155, 158
TspRI CASTG 1 cut(s) 475
XspI CTAG 1 cut(s) 282
Zsp2I ATGCAT 1 cut(s) 307
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.