Basic Information

Type: gene

Biological Identity

Species

fragaria_vesca

Chromosome

Fvb4

Orthogroup ID

OG0002265

Physical Location & Seq

Genomic Coordinates Reverse (-)

5095464 .. 5096570

Gene Structure 1107 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

FvH4_4g05725.t1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 768 bp

ATGGTGGGAATGGAAGATCATGACAATGATCTACCCAATGGAACTGGATCGGGTAGATCCCAAGACGATCAAAATGGAGAAATGCAAGAGAAGATGAAGAAGATGGAAGAGGAGATTGCTCAACTACGAAAAGAGAAAGAGCTTCGAGAAGCCCGTAAGCAGAAACGTAAGGAAGGAGAACAAGAGTCAGATGATGATATAAGTGATGAAGAACTGGTGGAGACGAACGTGGAGAAATCTGCTCGCAACGATGTGCTCAATTCAGGAGGAAAAAGAGTGTGGTTCCGTGATTTGAAGCCGGGGTCTATTGCCAACTTCGAACAATTGAGGGAATCATTCGTCTCGCAATACTTCTGCAACAGAAAGCGAAAGAAGGATATGGCGGCATTGTTCATGGTGAAGCAAAAAATAGGAGAGAGGTTGAAGACATTCTATGACCGCTTTTGGGGCAAGCAGATACAGATTGAAGGGTGCACATCAGAATATGCCGCAGTTGCATTCCGTGAAGGGCTCCTCCCTGGCTCGCCGATATACAAAGACTTGGTGAGGAAGCCAGCCAAGGATATGAACGAAATTCAGGCACGAATTGAGGGTGAAATCAGGCTTGAGGAGATCGAGGCAACACAAGCTGCAAGAAACACATCATTCATAGGGTCACGGACGCAAGAAGGATTGATAGGGGGCCGAGCTGAACCTAGTAGACAGTGGAGCCAAAATTGGCGTCCACGGCAACAAGAAGCGAGTAGACAAAGACCATCAGAGAATTAG

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

Retrotrans_gag

Protein Analysis

256

Amino Acids

29.52

Weight (kDa)

6.16

Isoelectric Point (pI)

58.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Retrotrans_gag	PF03732	92 - 172	2.1e-06	Retrotransposon gag protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

Orthologous Genes (Group: OG0002265)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g10223 FvH4_3g14201 FvH4_3g32051 FvH4_4g05725
rosa_laevigata	RLG00000022495
rosa_multiflora	Rmu_co8151434.1_g000001 Rmu_co8163034.1_g000001 Rmu_sc0000588.1_g000010 Rmu_sc0000939.1_g000012 Rmu_sc0001571.1_g000013 Rmu_sc0001692.1_g000034 Rmu_sc0001744.1_g000023 Rmu_sc0002161.1_g000027 Rmu_sc0002517.1_g000001 Rmu_sc0002824.1_g000013 Rmu_sc0003652.1_g000009 Rmu_sc0005120.1_g000002 Rmu_sc0005710.1_g000010 Rmu_sc0005840.1_g000020 Rmu_sc0006218.1_g000005 Rmu_sc0006266.1_g000071 Rmu_sc0008183.1_g000016 Rmu_sc0008518.1_g000005 Rmu_sc0009210.1_g000001 Rmu_sc0011809.1_g000004 Rmu_sc0013284.1_g000004 Rmu_sc0036344.1_g000002 Rmu_sc0040994.1_g000001 Rmu_ssc0000151.1_g000020 Rmu_ssc0000167.1_g000009
rosa_roxburghii	Rroxscaffold_1G00012770 Rroxscaffold_1G00014740 Rroxscaffold_3G00225770 Rroxscaffold_3G00225780 Rroxscaffold_4G00295510 Rroxscaffold_5G00373860 Rroxscaffold_5G00373870
rosa_rugosa	Rorug01G0284600
rosa_samantha	Rh3CG320700 Rh7BG220100 Rh7BG352300
rosa_wichuraiana	Rw3G025420 Rw7G031850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	700, 745
AciI	CCGC	3 cut(s)	383, 439, 489
AclWI	GGATC	2 cut(s)	51, 55
AcsI	RAATTY	1 cut(s)	573
AcyI	GRCGYC	1 cut(s)	721
AfiI	CCNNNNNNNGG	1 cut(s)	445
AgsI	TTSAA	3 cut(s)	295, 424, 467
AjnI	CCWGG	1 cut(s)	517
AluBI	AGCT	3 cut(s)	142, 629, 689
AluI	AGCT	3 cut(s)	142, 629, 689
Alw21I	GWGCWC	2 cut(s)	258, 476
Alw26I	GTCTC	2 cut(s)	215, 346
Alw44I	GTGCAC	1 cut(s)	472
AlwI	GGATC	2 cut(s)	51, 55
AoxI	GGCC	1 cut(s)	682
ApaLI	GTGCAC	1 cut(s)	472
ApeKI	GCWGC	1 cut(s)	629
ApoI	RAATTY	1 cut(s)	573
ArsI	GACNNNNNNTTYG	2 cut(s)	706, 738
Asp700I	GAANNNNTTC	1 cut(s)	428
AspS9I	GGNCC	1 cut(s)	682
AsuC2I	CCSGG	1 cut(s)	300
AsuHPI	GGTGA	3 cut(s)	409, 556, 605
AsuII	TTCGAA	1 cut(s)	318
BaeGI	GKGCMC	1 cut(s)	476
BanII	GRGCYC	1 cut(s)	513
BbsI	GAAGAC	1 cut(s)	431
Bbv12I	GWGCWC	2 cut(s)	258, 476
BbvI	GCAGC	1 cut(s)	616
BccI	CCATC	2 cut(s)	97, 763
BceAI	ACGGC	1 cut(s)	743
BciT130I	CCWGG	1 cut(s)	519
BcnI	CCSGG	1 cut(s)	300
BcoDI	GTCTC	2 cut(s)	215, 346
BfaI	CTAG	1 cut(s)	696
BisI	GCNGC	3 cut(s)	384, 489, 630
BlsI	GCNGC	3 cut(s)	385, 490, 631
Bme1390I	CCNGG	2 cut(s)	300, 519
BmgT120I	GGNCC	1 cut(s)	682
BmiI	GGNNCC	4 cut(s)	284, 512, 683, 710
BmrFI	CCNGG	2 cut(s)	300, 519
BpiI	GAAGAC	1 cut(s)	431
Bpu14I	TTCGAA	1 cut(s)	318
BpuEI	CTTGAG	1 cut(s)	626
BpuMI	CCSGG	1 cut(s)	300
BsaHI	GRCGYC	1 cut(s)	721
BsaJI	CCNNGG	4 cut(s)	299, 517, 558, 725
Bsc4I	CCNNNNNNNGG	1 cut(s)	445
Bse1I	ACTGG	2 cut(s)	49, 219
BseBI	CCWGG	1 cut(s)	519
BseDI	CCNNGG	4 cut(s)	299, 517, 558, 725
BseLI	CCNNNNNNNGG	1 cut(s)	445
BseNI	ACTGG	2 cut(s)	49, 219
BseRI	GAGGAG	3 cut(s)	125, 503, 623
BseSI	GKGCMC	1 cut(s)	476
BseXI	GCAGC	1 cut(s)	616
BshFI	GGCC	1 cut(s)	684
BsiHKAI	GWGCWC	2 cut(s)	258, 476
BsiSI	CCGG	1 cut(s)	299
BslI	CCNNNNNNNGG	1 cut(s)	445
BsmAI	GTCTC	2 cut(s)	215, 346
BsmBI	CGTCTC	2 cut(s)	215, 346
BsmI	GAATGC	1 cut(s)	497
BsnI	GGCC	1 cut(s)	684
Bsp119I	TTCGAA	1 cut(s)	318
Bsp1286I	GDGCHC	3 cut(s)	258, 476, 513
Bsp143I	GATC	6 cut(s)	16, 28, 47, 56, 67, 612
BspACI	CCGC	3 cut(s)	383, 439, 489
BspANI	GGCC	1 cut(s)	684
BspHI	TCATGA	1 cut(s)	19
BspLI	GGNNCC	4 cut(s)	284, 512, 683, 710
BspPI	GGATC	2 cut(s)	51, 55
BspT104I	TTCGAA	1 cut(s)	318
BsrI	ACTGG	2 cut(s)	49, 219
BssECI	CCNNGG	4 cut(s)	299, 517, 558, 725
BssMI	GATC	6 cut(s)	16, 28, 47, 56, 67, 612
BssNI	GRCGYC	1 cut(s)	721
BssT1I	CCWWGG	1 cut(s)	558
Bst2UI	CCWGG	1 cut(s)	519
Bst4CI	ACNGT	1 cut(s)	705
Bst6I	CTCTTC	1 cut(s)	102
BstACI	GRCGYC	1 cut(s)	721
BstBI	TTCGAA	1 cut(s)	318
BstC8I	GCNNGC	4 cut(s)	244, 452, 524, 555
BstDSI	CCRYGG	1 cut(s)	725
BstKTI	GATC	6 cut(s)	19, 31, 50, 59, 70, 615
BstMAI	GTCTC	2 cut(s)	215, 346
BstMBI	GATC	6 cut(s)	16, 28, 47, 56, 67, 612
BstMWI	GCNNNNNNNGC	4 cut(s)	447, 494, 626, 727
BstNI	CCWGG	1 cut(s)	519
BstSCI	CCNGG	2 cut(s)	298, 517
BstSLI	GKGCMC	1 cut(s)	476
BstV1I	GCAGC	1 cut(s)	616
BstV2I	GAAGAC	1 cut(s)	431
BstX2I	RGATCY	1 cut(s)	56
BstYI	RGATCY	1 cut(s)	56
BsuRI	GGCC	1 cut(s)	684
BtgI	CCRYGG	1 cut(s)	725
BtsIMutI	CAGTG	1 cut(s)	710
Cac8I	GCNNGC	4 cut(s)	244, 452, 524, 555
CciI	TCATGA	1 cut(s)	19
Cfr13I	GGNCC	1 cut(s)	682
CseI	GACGC	2 cut(s)	670, 710
CviAII	CATG	2 cut(s)	20, 394
DpnI	GATC	6 cut(s)	18, 30, 49, 58, 69, 614
DpnII	GATC	6 cut(s)	16, 28, 47, 56, 67, 612
Eam1104I	CTCTTC	1 cut(s)	102
EarI	CTCTTC	1 cut(s)	102
Eco130I	CCWWGG	1 cut(s)	558
Eco24I	GRGCYC	1 cut(s)	513
EcoRII	CCWGG	1 cut(s)	517
EcoT14I	CCWWGG	1 cut(s)	558
EcoT38I	GRGCYC	1 cut(s)	513
ErhI	CCWWGG	1 cut(s)	558
Esp3I	CGTCTC	2 cut(s)	215, 346
FaeI	CATG	2 cut(s)	23, 397
FaiI	YATR	9 cut(s)	21, 200, 380, 395, 435, 486, 532, 566, 650
FatI	CATG	2 cut(s)	19, 393
FblI	GTMKAC	2 cut(s)	700, 745
Fnu4HI	GCNGC	3 cut(s)	384, 489, 630
FriOI	GRGCYC	1 cut(s)	513
Fsp4HI	GCNGC	3 cut(s)	384, 489, 630
FspBI	CTAG	1 cut(s)	696
GluI	GCNGC	3 cut(s)	384, 489, 630
HaeIII	GGCC	1 cut(s)	684
HapII	CCGG	1 cut(s)	299
HgaI	GACGC	2 cut(s)	670, 710
Hin1I	GRCGYC	1 cut(s)	721
Hin1II	CATG	2 cut(s)	23, 397
HinfI	GANTC	2 cut(s)	185, 332
HpaII	CCGG	1 cut(s)	299
HphI	GGTGA	3 cut(s)	409, 556, 605
Hpy166II	GTNNAC	4 cut(s)	474, 701, 725, 746
Hpy188I	TCNGA	3 cut(s)	190, 481, 760
Hpy188III	TCNNGA	3 cut(s)	20, 146, 264
Hpy8I	GTNNAC	4 cut(s)	474, 701, 725, 746
HpyAV	CCTTC	5 cut(s)	167, 367, 461, 500, 662
HpyCH4III	ACNGT	1 cut(s)	705
HpyCH4IV	ACGT	2 cut(s)	166, 228
HpyCH4V	TGCA	5 cut(s)	85, 357, 474, 497, 632
HpyF10VI	GCNNNNNNNGC	4 cut(s)	447, 494, 626, 727
HpySE526I	ACGT	2 cut(s)	166, 228
Hsp92I	GRCGYC	1 cut(s)	721
Hsp92II	CATG	2 cut(s)	23, 397
Kzo9I	GATC	6 cut(s)	16, 28, 47, 56, 67, 612
LmnI	GCTCC	2 cut(s)	516, 708
LpnPI	CCDG	9 cut(s)	30, 200, 249, 312, 504, 531, 563, 567, 586
Lsp1109I	GCAGC	1 cut(s)	616
MaeI	CTAG	1 cut(s)	696
MaeII	ACGT	2 cut(s)	166, 228
MaeIII	GTNAC	1 cut(s)	654
MalI	GATC	6 cut(s)	18, 30, 49, 58, 69, 614
MboI	GATC	6 cut(s)	16, 28, 47, 56, 67, 612
MboII	GAAGA	7 cut(s)	26, 103, 109, 112, 119, 221, 436
MfeI	CAATTG	1 cut(s)	323
MflI	RGATCY	1 cut(s)	56
MhlI	GDGCHC	3 cut(s)	258, 476, 513
MluCI	AATT	6 cut(s)	259, 323, 573, 585, 715, 763
MlyI	GAGTC	1 cut(s)	194
MnlI	CCTC	9 cut(s)	103, 260, 321, 411, 524, 540, 583, 601, 610
MroXI	GAANNNNTTC	1 cut(s)	428
MslI	CAYNNNNRTG	1 cut(s)	24
MspI	CCGG	1 cut(s)	299
MspR9I	CCNGG	2 cut(s)	300, 519
MunI	CAATTG	1 cut(s)	323
Mva1269I	GAATGC	1 cut(s)	497
MvaI	CCWGG	1 cut(s)	519
MwoI	GCNNNNNNNGC	4 cut(s)	447, 494, 626, 727
NciI	CCSGG	1 cut(s)	300
NdeII	GATC	6 cut(s)	16, 28, 47, 56, 67, 612
NlaIII	CATG	2 cut(s)	23, 397
NlaIV	GGNNCC	4 cut(s)	284, 512, 683, 710
NmeAIII	GCCGAG	1 cut(s)	710
NmuCI	GTSAC	1 cut(s)	654
NspV	TTCGAA	1 cut(s)	318
PagI	TCATGA	1 cut(s)	19
PcsI	WCGNNNNNNNCGW	1 cut(s)	151
PctI	GAATGC	1 cut(s)	497
PdmI	GAANNNNTTC	1 cut(s)	428
PfeI	GAWTC	1 cut(s)	332
PkrI	GCNGC	3 cut(s)	385, 490, 631
PleI	GAGTC	1 cut(s)	193
PpsI	GAGTC	1 cut(s)	193
Psp6I	CCWGG	1 cut(s)	517
PspGI	CCWGG	1 cut(s)	517
PspN4I	GGNNCC	4 cut(s)	284, 512, 683, 710
PspPI	GGNCC	1 cut(s)	682
PsuI	RGATCY	1 cut(s)	56
RseI	CAYNNNNRTG	1 cut(s)	24
SatI	GCNGC	3 cut(s)	384, 489, 630
Sau3AI	GATC	6 cut(s)	16, 28, 47, 56, 67, 612
Sau96I	GGNCC	1 cut(s)	682
SchI	GAGTC	1 cut(s)	194
ScrFI	CCNGG	2 cut(s)	300, 519
SduI	GDGCHC	3 cut(s)	258, 476, 513
SetI	ASST	7 cut(s)	144, 169, 231, 422, 631, 691, 697
SfuI	TTCGAA	1 cut(s)	318
SmiMI	CAYNNNNRTG	1 cut(s)	24
SmlI	CTYRAG	1 cut(s)	605
SmoI	CTYRAG	1 cut(s)	605
Sse9I	AATT	6 cut(s)	259, 323, 573, 585, 715, 763
SsiI	CCGC	3 cut(s)	383, 439, 489
SspMI	CTAG	1 cut(s)	696
StyD4I	CCNGG	2 cut(s)	298, 517
StyI	CCWWGG	1 cut(s)	558
TaaI	ACNGT	1 cut(s)	705
TaiI	ACGT	2 cut(s)	169, 231
TaqI	TCGA	3 cut(s)	145, 318, 615
TasI	AATT	6 cut(s)	259, 323, 573, 585, 715, 763
TauI	GCSGC	2 cut(s)	386, 491
TfiI	GAWTC	1 cut(s)	332
TscAI	CASTG	1 cut(s)	710
TseFI	GTSAC	1 cut(s)	654
TseI	GCWGC	1 cut(s)	629
Tsp45I	GTSAC	1 cut(s)	654
TspDTI	ATGAA	5 cut(s)	110, 222, 382, 581, 637
TspGWI	ACGGA	3 cut(s)	275, 491, 673
TspRI	CASTG	1 cut(s)	710
VneI	GTGCAC	1 cut(s)	472
XapI	RAATTY	1 cut(s)	573
XmiI	GTMKAC	2 cut(s)	700, 745
XmnI	GAANNNNTTC	1 cut(s)	428
XspI	CTAG	1 cut(s)	696

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.