FvH4_4g06572

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0000756
Physical Location & Seq
Reverse (-)
5831469 .. 5832029
561 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g06572.t1

Sequence Viewer

Length: 561 bp
ATGGCACCCCTTGGTCCTAAGGTAGTTCCGCCAGTGCCAGTTTTAGCCCTTCCAGATTTTTCCAAGGAGTTTCTGGTTGAATATGATGCATCAAGAATTGGAATTGGTGCAATTTTGTCCCAAGATGGTCACCCCATAGCTTTTTTAAGCAAAGCTTTAGCACCCAGACATGCAGCCTTGTCTGTGTATGATAAAGAAATGCTTGCAGTTGTGTTTGCAGTTCAACATTGGAGACCTTATCTGTTTGGAAATCACTTCAAAATTCTCACTGATCATCGAACTATCCAATATTTTTTGGACCAAAAGATCTCAACTCCTGCTCAGCAAAAGTGGTTGCTCAAGCTTATTGGTTATGATTATACAATTCAGTATAAACCTGGAAGGCATAATGTAGCATCAGATGCATTGTCAAGACGAGAGGGGTTAGTTTTGGAATCTGATACAGTTTCAAAGTACAGTACTCTCTCTGCCATAACTGGAGTATCCTCACCTGTTCATGACTATGTGCTAGAGATGCAGAAAGCTTGTGACAATGATGCTGAAGCTCAAACTATTATGTAG
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

187

Amino Acids

20.74

Weight (kDa)

6.65

Isoelectric Point (pI)

36.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RT_RNaseH_2 PF17919 13 - 88 3.9e-24 RNase H-like domain found in reverse transcriptase
RT_RNaseH PF17917 19 - 118 4.1e-31 RNase H-like domain found in reverse transcriptase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 4
AciI CCGC 1 cut(s) 29
AcsI RAATTY 1 cut(s) 261
AcuI CTGAAG 1 cut(s) 561
AfaI GTAC 2 cut(s) 455, 460
AgsI TTSAA 4 cut(s) 80, 224, 259, 450
AjnI CCWGG 1 cut(s) 376
AluBI AGCT 5 cut(s) 140, 155, 343, 524, 545
AluI AGCT 5 cut(s) 140, 155, 343, 524, 545
Alw26I GTCTC 1 cut(s) 226
ApeKI GCWGC 1 cut(s) 173
ApoI RAATTY 1 cut(s) 261
AspS9I GGNCC 2 cut(s) 14, 298
AsuHPI GGTGA 2 cut(s) 122, 480
AvaII GGWCC 2 cut(s) 14, 298
AxyI CCTNAGG 1 cut(s) 18
BaeI ACNNNNGTAYC 2 cut(s) 465, 498
BanI GGYRCC 1 cut(s) 4
BbvI GCAGC 1 cut(s) 185
BccI CCATC 1 cut(s) 119
BciT130I CCWGG 1 cut(s) 378
BciVI GTATCC 1 cut(s) 493
BclI TGATCA 1 cut(s) 271
BcoDI GTCTC 1 cut(s) 226
BfaI CTAG 1 cut(s) 509
BfuI GTATCC 1 cut(s) 493
BglII AGATCT 1 cut(s) 306
BisI GCNGC 1 cut(s) 174
BlpI GCTNAGC 1 cut(s) 321
BlsI GCNGC 1 cut(s) 175
BmcAI AGTACT 1 cut(s) 460
Bme1390I CCNGG 1 cut(s) 378
Bme18I GGWCC 2 cut(s) 14, 298
BmgT120I GGNCC 2 cut(s) 14, 298
BmiI GGNNCC 1 cut(s) 6
BmrFI CCNGG 1 cut(s) 378
BmsI GCATC 6 cut(s) 76, 98, 391, 404, 504, 526
BpmI CTGGAG 1 cut(s) 498
Bpu1102I GCTNAGC 1 cut(s) 321
BpuEI CTTGAG 1 cut(s) 323
BsaI GGTCTC 1 cut(s) 226
BsaJI CCNNGG 2 cut(s) 10, 63
Bse1I ACTGG 3 cut(s) 32, 38, 481
Bse21I CCTNAGG 1 cut(s) 18
BseBI CCWGG 1 cut(s) 378
BseDI CCNNGG 2 cut(s) 10, 63
BseMII CTCAG 1 cut(s) 335
BseNI ACTGG 3 cut(s) 32, 38, 481
BseXI GCAGC 1 cut(s) 185
BshNI GGYRCC 1 cut(s) 4
BslFI GGGAC 1 cut(s) 103
BsmAI GTCTC 1 cut(s) 226
BsmFI GGGAC 1 cut(s) 103
Bso31I GGTCTC 1 cut(s) 226
Bsp143I GATC 2 cut(s) 271, 306
Bsp1720I GCTNAGC 1 cut(s) 321
BspACI CCGC 1 cut(s) 29
BspCNI CTCAG 1 cut(s) 334
BspHI TCATGA 1 cut(s) 496
BspLI GGNNCC 1 cut(s) 6
BspT107I GGYRCC 1 cut(s) 4
BspTNI GGTCTC 1 cut(s) 226
BsrI ACTGG 3 cut(s) 32, 38, 481
BssECI CCNNGG 2 cut(s) 10, 63
BssMI GATC 2 cut(s) 271, 306
BssT1I CCWWGG 2 cut(s) 10, 63
Bst2UI CCWGG 1 cut(s) 378
Bst4CI ACNGT 2 cut(s) 445, 458
BstAPI GCANNNNNTGC 1 cut(s) 401
BstC8I GCNNGC 1 cut(s) 204
BstDEI CTNAG 2 cut(s) 18, 321
BstEII GGTNACC 1 cut(s) 128
BstKTI GATC 2 cut(s) 274, 309
BstMAI GTCTC 1 cut(s) 226
BstMBI GATC 2 cut(s) 271, 306
BstMWI GCNNNNNNNGC 2 cut(s) 401, 514
BstNI CCWGG 1 cut(s) 378
BstNSI RCATGY 1 cut(s) 173
BstPI GGTNACC 1 cut(s) 128
BstSCI CCNGG 1 cut(s) 376
BstV1I GCAGC 1 cut(s) 185
BstX2I RGATCY 1 cut(s) 306
BstYI RGATCY 1 cut(s) 306
Bsu36I CCTNAGG 1 cut(s) 18
BsuI GTATCC 1 cut(s) 493
BtsIMutI CAGTG 2 cut(s) 39, 267
Cac8I GCNNGC 1 cut(s) 204
CciI TCATGA 1 cut(s) 496
Cfr13I GGNCC 2 cut(s) 14, 298
Csp6I GTAC 2 cut(s) 454, 459
CviAII CATG 2 cut(s) 170, 497
CviJI RGCY 7 cut(s) 47, 140, 155, 176, 343, 524, 545
CviKI_1 RGCY 7 cut(s) 47, 140, 155, 176, 343, 524, 545
CviQI GTAC 2 cut(s) 454, 459
DdeI CTNAG 2 cut(s) 18, 321
DpnI GATC 2 cut(s) 273, 308
DpnII GATC 2 cut(s) 271, 306
EciI GGCGGA 1 cut(s) 18
Eco130I CCWWGG 2 cut(s) 10, 63
Eco31I GGTCTC 1 cut(s) 226
Eco47I GGWCC 2 cut(s) 14, 298
Eco57I CTGAAG 1 cut(s) 561
Eco81I CCTNAGG 1 cut(s) 18
Eco91I GGTNACC 1 cut(s) 128
EcoO65I GGTNACC 1 cut(s) 128
EcoRII CCWGG 1 cut(s) 376
EcoT14I CCWWGG 2 cut(s) 10, 63
EcoT22I ATGCAT 2 cut(s) 91, 406
ErhI CCWWGG 2 cut(s) 10, 63
FaeI CATG 2 cut(s) 173, 500
FalI AAGNNNNNCTT 4 cut(s) 139, 171, 186, 218
FaqI GGGAC 1 cut(s) 103
FatI CATG 2 cut(s) 169, 496
FbaI TGATCA 1 cut(s) 271
Fnu4HI GCNGC 1 cut(s) 174
Fsp4HI GCNGC 1 cut(s) 174
FspBI CTAG 1 cut(s) 509
GluI GCNGC 1 cut(s) 174
GsuI CTGGAG 1 cut(s) 498
Hin1II CATG 2 cut(s) 173, 500
HindIII AAGCTT 3 cut(s) 153, 341, 522
HinfI GANTC 1 cut(s) 434
HphI GGTGA 2 cut(s) 122, 480
Hpy188I TCNGA 2 cut(s) 400, 439
Hpy188III TCNNGA 4 cut(s) 53, 93, 411, 497
HpyAV CCTTC 2 cut(s) 59, 375
HpyCH4III ACNGT 2 cut(s) 445, 458
HpyCH4V TGCA 7 cut(s) 89, 110, 173, 206, 218, 404, 517
HpyF10VI GCNNNNNNNGC 2 cut(s) 401, 514
HpyF3I CTNAG 2 cut(s) 18, 321
Hsp92II CATG 2 cut(s) 173, 500
Ksp22I TGATCA 1 cut(s) 271
Kzo9I GATC 2 cut(s) 271, 306
Lsp1109I GCAGC 1 cut(s) 185
LweI GCATC 6 cut(s) 76, 98, 391, 404, 504, 526
MaeI CTAG 1 cut(s) 509
MaeIII GTNAC 2 cut(s) 128, 527
MalI GATC 2 cut(s) 273, 308
MboI GATC 2 cut(s) 271, 306
MflI RGATCY 1 cut(s) 306
MluCI AATT 5 cut(s) 96, 102, 111, 261, 363
MnlI CCTC 2 cut(s) 412, 496
Mph1103I ATGCAT 2 cut(s) 91, 406
MseI TTAA 1 cut(s) 146
MslI CAYNNNNRTG 1 cut(s) 501
MspR9I CCNGG 1 cut(s) 378
MvaI CCWGG 1 cut(s) 378
MwoI GCNNNNNNNGC 2 cut(s) 401, 514
NdeII GATC 2 cut(s) 271, 306
NlaIII CATG 2 cut(s) 173, 500
NlaIV GGNNCC 1 cut(s) 6
NmuCI GTSAC 2 cut(s) 128, 527
NsiI ATGCAT 2 cut(s) 91, 406
NspI RCATGY 1 cut(s) 173
PagI TCATGA 1 cut(s) 496
PfeI GAWTC 1 cut(s) 434
PkrI GCNGC 1 cut(s) 175
Psp6I CCWGG 1 cut(s) 376
PspEI GGTNACC 1 cut(s) 128
PspGI CCWGG 1 cut(s) 376
PspN4I GGNNCC 1 cut(s) 6
PspPI GGNCC 2 cut(s) 14, 298
PsuI RGATCY 1 cut(s) 306
RsaI GTAC 2 cut(s) 455, 460
RsaNI GTAC 2 cut(s) 454, 459
RseI CAYNNNNRTG 1 cut(s) 501
SaqAI TTAA 1 cut(s) 146
SatI GCNGC 1 cut(s) 174
Sau3AI GATC 2 cut(s) 271, 306
Sau96I GGNCC 2 cut(s) 14, 298
ScaI AGTACT 1 cut(s) 460
ScrFI CCNGG 1 cut(s) 378
SetI ASST 9 cut(s) 24, 142, 157, 238, 345, 379, 493, 526, 547
SfaNI GCATC 6 cut(s) 76, 98, 391, 404, 504, 526
SinI GGWCC 2 cut(s) 14, 298
SmiMI CAYNNNNRTG 1 cut(s) 501
SmlI CTYRAG 1 cut(s) 338
SmoI CTYRAG 1 cut(s) 338
Sse9I AATT 5 cut(s) 96, 102, 111, 261, 363
SsiI CCGC 1 cut(s) 29
SspI AATATT 1 cut(s) 290
SspMI CTAG 1 cut(s) 509
StyD4I CCNGG 1 cut(s) 376
StyI CCWWGG 2 cut(s) 10, 63
TaaI ACNGT 2 cut(s) 445, 458
TaqI TCGA 1 cut(s) 277
TasI AATT 5 cut(s) 96, 102, 111, 261, 363
TatI WGTACW 2 cut(s) 453, 458
TfiI GAWTC 1 cut(s) 434
Tru1I TTAA 1 cut(s) 146
Tru9I TTAA 1 cut(s) 146
TscAI CASTG 2 cut(s) 39, 274
TseFI GTSAC 2 cut(s) 128, 527
TseI GCWGC 1 cut(s) 173
Tsp45I GTSAC 2 cut(s) 128, 527
TspDTI ATGAA 1 cut(s) 485
TspRI CASTG 2 cut(s) 39, 274
VpaK11BI GGWCC 2 cut(s) 14, 298
XapI RAATTY 1 cut(s) 261
XceI RCATGY 1 cut(s) 173
XcmI CCANNNNNNNNNTGG 1 cut(s) 70
XspI CTAG 1 cut(s) 509
ZrmI AGTACT 1 cut(s) 460
Zsp2I ATGCAT 2 cut(s) 91, 406
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.