FvH4_1g25543

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb1
OG0001471
Physical Location & Seq
Forward (+)
17326286 .. 17326915
630 bp
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UTR
Exon/CDS
Intron
FvH4_1g25543.t1

Sequence Viewer

Length: 630 bp
ATGGTCGATGCTGAAGCTAAAGATGAGGGGGAGCAACCTGTGAATAATCAAGTAGCAGTTCGCAGAAGCACCAGGTGGCCGATTCCATCCACTAAGTATTCATCATCACAATATATTTTGGTGACTAACGATGGAGACGATCCTTATGCAAATTACATCATTTTGACCAGTGACGGAGAGCCTGAAAGTTATGAGGAAGCAAAGATTCATCAAGATCATGAAAAATGGAGGCTAGCCATGGACTCTGAGATGGAGTCTTTACTAGAGAACGACACCAATGAGTTGGCAAAGCTTCCTAAAGGCCAGAAAGCACTCAAGAACAAGTGGGTGTTTAAGCTGAAGCGAGATGAGAATGAGAAGCTGACGAAGTACAAGGGTCATTTAATTGTCAAGGGATTCAACCAGAAAGAAGGAATCAATTTTGATGAGATTTTCTCACATGTTGTCAAGATGACTTCGATTAGAATCATTTTGGGCATGGCTGCGAGCATGGATCTTGAGGTGGAGCAAATGGACATAAAGACTACATTTCTTCACCGTGATTTAGAAGAAGAAATATACATGGAGCAACCAGAAGGCTTTGAAGTCAATGGAAAAGAGCATATGCTTTGCAAGTTGAAGAAAAGCTAG
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
RVT_2 gag_pre-integrs rve

Protein Analysis

210

Amino Acids

24.23

Weight (kDa)

5.19

Isoelectric Point (pI)

38.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_2 PF07727 90 - 209 6.4e-35 Reverse transcriptase (RNA-dependent DNA polymerase)
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)
AclWI GGATC 2 cut(s) 134, 501
AcoI YGGCCR 1 cut(s) 77
AcuI CTGAAG 2 cut(s) 33, 359
AdeI CACNNNGTG 1 cut(s) 75
AfaI GTAC 1 cut(s) 371
AflIII ACRYGT 1 cut(s) 439
AgsI TTSAA 3 cut(s) 400, 584, 619
AjnI CCWGG 1 cut(s) 71
AluBI AGCT 5 cut(s) 17, 292, 337, 361, 627
AluI AGCT 5 cut(s) 17, 292, 337, 361, 627
Alw26I GTCTC 1 cut(s) 129
AlwI GGATC 2 cut(s) 134, 501
AoxI GGCC 2 cut(s) 77, 301
ApeKI GCWGC 1 cut(s) 482
AsuHPI GGTGA 2 cut(s) 133, 527
AsuNHI GCTAGC 1 cut(s) 232
BbvI GCAGC 1 cut(s) 469
BccI CCATC 3 cut(s) 94, 125, 244
BcgI CGANNNNNNTGC 2 cut(s) 128, 162
BciT130I CCWGG 1 cut(s) 73
BcoDI GTCTC 1 cut(s) 129
BfaI CTAG 3 cut(s) 233, 263, 628
BisI GCNGC 1 cut(s) 483
BlsI GCNGC 1 cut(s) 484
Bme1390I CCNGG 1 cut(s) 73
BmrFI CCNGG 1 cut(s) 73
BmtI GCTAGC 1 cut(s) 236
BplI GAGNNNNNCTC 2 cut(s) 419, 451
BpuEI CTTGAG 2 cut(s) 299, 518
BsaBI GATNNNNATC 1 cut(s) 464
BsaJI CCNNGG 1 cut(s) 237
Bse1I ACTGG 1 cut(s) 168
Bse8I GATNNNNATC 1 cut(s) 464
BseBI CCWGG 1 cut(s) 73
BseDI CCNNGG 1 cut(s) 237
BseGI GGATG 1 cut(s) 86
BseJI GATNNNNATC 1 cut(s) 464
BseMII CTCAG 1 cut(s) 237
BseNI ACTGG 1 cut(s) 168
BseXI GCAGC 1 cut(s) 469
BshFI GGCC 2 cut(s) 79, 303
BsmAI GTCTC 1 cut(s) 129
BsmBI CGTCTC 1 cut(s) 129
BsnI GGCC 2 cut(s) 79, 303
Bsp143I GATC 3 cut(s) 139, 214, 493
Bsp19I CCATGG 1 cut(s) 237
BspANI GGCC 2 cut(s) 79, 303
BspCNI CTCAG 1 cut(s) 238
BspHI TCATGA 1 cut(s) 217
BspOI GCTAGC 1 cut(s) 236
BspPI GGATC 2 cut(s) 134, 501
BsrI ACTGG 1 cut(s) 168
BssECI CCNNGG 1 cut(s) 237
BssMI GATC 3 cut(s) 139, 214, 493
BssT1I CCWWGG 1 cut(s) 237
Bst2UI CCWGG 1 cut(s) 73
Bst4CI ACNGT 1 cut(s) 539
BstC8I GCNNGC 2 cut(s) 234, 487
BstDEI CTNAG 2 cut(s) 93, 246
BstDSI CCRYGG 1 cut(s) 237
BstF5I GGATG 1 cut(s) 86
BstKTI GATC 3 cut(s) 142, 217, 496
BstMAI GTCTC 1 cut(s) 129
BstMBI GATC 3 cut(s) 139, 214, 493
BstNI CCWGG 1 cut(s) 73
BstNSI RCATGY 1 cut(s) 443
BstSCI CCNGG 1 cut(s) 71
BstV1I GCAGC 1 cut(s) 469
BstX2I RGATCY 1 cut(s) 493
BstXI CCANNNNNNTGG 1 cut(s) 283
BstYI RGATCY 1 cut(s) 493
BsuRI GGCC 2 cut(s) 79, 303
BtgI CCRYGG 1 cut(s) 237
BtsCI GGATG 1 cut(s) 86
BtsIMutI CAGTG 1 cut(s) 175
Cac8I GCNNGC 2 cut(s) 234, 487
CciI TCATGA 1 cut(s) 217
CsiI ACCWGGT 1 cut(s) 71
Csp6I GTAC 1 cut(s) 370
CviAII CATG 6 cut(s) 218, 238, 440, 478, 490, 562
CviQI GTAC 1 cut(s) 370
DdeI CTNAG 2 cut(s) 93, 246
DpnI GATC 3 cut(s) 141, 216, 495
DpnII GATC 3 cut(s) 139, 214, 493
DraIII CACNNNGTG 1 cut(s) 75
EaeI YGGCCR 1 cut(s) 77
Eco130I CCWWGG 1 cut(s) 237
Eco57I CTGAAG 2 cut(s) 33, 359
EcoRII CCWGG 1 cut(s) 71
EcoT14I CCWWGG 1 cut(s) 237
ErhI CCWWGG 1 cut(s) 237
Esp3I CGTCTC 1 cut(s) 129
FaeI CATG 6 cut(s) 221, 241, 443, 481, 493, 565
FatI CATG 6 cut(s) 217, 237, 439, 477, 489, 561
FauNDI CATATG 1 cut(s) 603
Fnu4HI GCNGC 1 cut(s) 483
FokI GGATG 1 cut(s) 73
Fsp4HI GCNGC 1 cut(s) 483
FspBI CTAG 3 cut(s) 233, 263, 628
GluI GCNGC 1 cut(s) 483
HaeIII GGCC 2 cut(s) 79, 303
Hin1II CATG 6 cut(s) 221, 241, 443, 481, 493, 565
HindIII AAGCTT 1 cut(s) 290
HinfI GANTC 7 cut(s) 82, 205, 242, 254, 396, 414, 465
HphI GGTGA 2 cut(s) 133, 527
Hpy188I TCNGA 1 cut(s) 247
Hpy188III TCNNGA 5 cut(s) 212, 218, 316, 448, 497
HpyAV CCTTC 2 cut(s) 404, 569
HpyCH4III ACNGT 1 cut(s) 539
HpyCH4V TGCA 2 cut(s) 149, 612
HpyF3I CTNAG 2 cut(s) 93, 246
Hsp92II CATG 6 cut(s) 221, 241, 443, 481, 493, 565
Kzo9I GATC 3 cut(s) 139, 214, 493
LmnI GCTCC 3 cut(s) 31, 505, 565
LpnPI CCDG 8 cut(s) 51, 58, 85, 181, 195, 317, 416, 585
Lsp1109I GCAGC 1 cut(s) 469
MabI ACCWGGT 1 cut(s) 71
MaeI CTAG 3 cut(s) 233, 263, 628
MaeIII GTNAC 2 cut(s) 121, 170
MalI GATC 3 cut(s) 141, 216, 495
MboI GATC 3 cut(s) 139, 214, 493
MboII GAAGA 3 cut(s) 524, 560, 563
MflI RGATCY 1 cut(s) 493
MluCI AATT 3 cut(s) 151, 384, 418
MlyI GAGTC 2 cut(s) 236, 263
MnlI CCTC 4 cut(s) 19, 187, 222, 493
MseI TTAA 2 cut(s) 333, 383
MspR9I CCNGG 1 cut(s) 73
MvaI CCWGG 1 cut(s) 73
NcoI CCATGG 1 cut(s) 237
NdeI CATATG 1 cut(s) 603
NdeII GATC 3 cut(s) 139, 214, 493
NheI GCTAGC 1 cut(s) 232
NlaIII CATG 6 cut(s) 221, 241, 443, 481, 493, 565
NmuCI GTSAC 2 cut(s) 121, 170
NspI RCATGY 1 cut(s) 443
PagI TCATGA 1 cut(s) 217
PciI ACATGT 1 cut(s) 439
PcsI WCGNNNNNNNCGW 1 cut(s) 135
PfeI GAWTC 5 cut(s) 82, 205, 396, 414, 465
PkrI GCNGC 1 cut(s) 484
PleI GAGTC 2 cut(s) 236, 262
PpsI GAGTC 2 cut(s) 236, 262
PscI ACATGT 1 cut(s) 439
Psp6I CCWGG 1 cut(s) 71
PspGI CCWGG 1 cut(s) 71
PsuI RGATCY 1 cut(s) 493
RsaI GTAC 1 cut(s) 371
RsaNI GTAC 1 cut(s) 370
SaqAI TTAA 2 cut(s) 333, 383
SatI GCNGC 1 cut(s) 483
Sau3AI GATC 3 cut(s) 139, 214, 493
SchI GAGTC 2 cut(s) 236, 263
ScrFI CCNGG 1 cut(s) 73
SetI ASST 8 cut(s) 19, 40, 77, 294, 339, 363, 504, 629
SexAI ACCWGGT 1 cut(s) 71
SmlI CTYRAG 2 cut(s) 314, 497
SmoI CTYRAG 2 cut(s) 314, 497
Sse9I AATT 3 cut(s) 151, 384, 418
SspMI CTAG 3 cut(s) 233, 263, 628
StyD4I CCNGG 1 cut(s) 71
StyI CCWWGG 1 cut(s) 237
TaaI ACNGT 1 cut(s) 539
TaqI TCGA 2 cut(s) 6, 458
TasI AATT 3 cut(s) 151, 384, 418
TatI WGTACW 1 cut(s) 369
TfiI GAWTC 5 cut(s) 82, 205, 396, 414, 465
Tru1I TTAA 2 cut(s) 333, 383
Tru9I TTAA 2 cut(s) 333, 383
TscAI CASTG 1 cut(s) 175
TseFI GTSAC 2 cut(s) 121, 170
TseI GCWGC 1 cut(s) 482
Tsp45I GTSAC 2 cut(s) 121, 170
TspDTI ATGAA 3 cut(s) 90, 197, 234
TspGWI ACGGA 1 cut(s) 189
TspRI CASTG 1 cut(s) 175
XceI RCATGY 1 cut(s) 443
XspI CTAG 3 cut(s) 233, 263, 628
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.