Basic Information

Type: gene

Biological Identity

Species

fragaria_vesca

Chromosome

Fvb1

Orthogroup ID

OG0013588

Physical Location & Seq

Genomic Coordinates Forward (+)

20348548 .. 20349210

Gene Structure 663 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

FvH4_1g28421.t1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 585 bp

ATGTCCAAAACAGAAAAGTGGTCTGATGGATGTTGGCATTATGGGAAGCCCGAACATGTCAAGAAAGATTGTAACCAATGGAAGAATGATATGAAGGTGGCAAACACAGCTGAGTTTGATTCAGATGCACTGGTACTGAGTGTTAAAGAAGCACCATTGGAGGCATGGATCGTAGACTCTAGAGCATCTTTTCACTCAACTTCACAACAGAAGCTCATGGTAAATTACCAAGGTGGTAATTTTGGCAAAGTGTTTCTTGCTGATGGTGGAGCCTTGGATATTGTGGAAAGGGGTGATGTAAAGATCTCGCTCGGGAATGGTGGAACATGGACCTTGACCAATGTTAGGCACATACTGCGATTGAAGAGACATTTAATCTTTGTGGCTCGTGGAATCAAGACAGGATCACTCTATACGACCTTAAATATTATTGTTGCTGTTGAGAACAATGAAGGCACTGTGATCGTTGAGAAAAATGAGGATGCAAACTTATGGCATCGTAGACTTGGGCATATCAGCGAGAAAGGTATGGGTGTACTTCAGTCGAAGGGAAAACTACATGGTGTGAACTCTGTGAAGATTTGA

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 Retrotran_gag_2 Retrotran_gag_3 Retrotrans_gag gag_pre-integrs rve zf-CCHC

Protein Analysis

195

Amino Acids

21.6

Weight (kDa)

9.19

Isoelectric Point (pI)

31.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pol_BBD	PF22936	56 - 130	4.7e-15	Pol polyprotein, beta-barrel domain
gag_pre-integrs	PF13976	153 - 193	7.1e-10	GAG-pre-integrase domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0013588)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g09706 FvH4_1g28421 FvH4_1g29881 FvH4_3g13401 FvH4_3g18841 FvH4_3g18841 FvH4_3g36542 FvH4_6g48813
malus_domestica	MD06G1148500.v1.1
pyrus_communis	pycom06g13750 pycom06g13790
rosa_chinensis	RchiOBHm_Chr5g0031651 RchiOBHm_Chr5g0031681 RchiOBHm_Chr5g0031721
rosa_roxburghii	Rroxscaffold_1G00048590 Rroxscaffold_1G00048620 Rroxscaffold_5G00385110
rosa_wichuraiana	Rw5G020190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	174, 502
AclWI	GGATC	2 cut(s)	176, 412
AcuI	CTGAAG	1 cut(s)	524
AfaI	GTAC	2 cut(s)	135, 537
AfiI	CCNNNNNNNGG	1 cut(s)	345
AflIII	ACRYGT	1 cut(s)	55
AgsI	TTSAA	1 cut(s)	364
AluBI	AGCT	2 cut(s)	110, 214
AluI	AGCT	2 cut(s)	110, 214
Alw26I	GTCTC	1 cut(s)	361
AlwI	GGATC	2 cut(s)	176, 412
Ama87I	CYCGRG	1 cut(s)	311
AspS9I	GGNCC	1 cut(s)	330
AsuHPI	GGTGA	1 cut(s)	305
AvaI	CYCGRG	1 cut(s)	311
AvaII	GGWCC	1 cut(s)	330
BauI	CACGAG	1 cut(s)	387
BccI	CCATC	2 cut(s)	20, 257
BcgI	CGANNNNNNTGC	2 cut(s)	445, 479
BcoDI	GTCTC	1 cut(s)	361
BfaI	CTAG	1 cut(s)	180
BglII	AGATCT	1 cut(s)	303
Bme18I	GGWCC	1 cut(s)	330
BmeT110I	CYCGRG	1 cut(s)	311
BmgT120I	GGNCC	1 cut(s)	330
BmiI	GGNNCC	1 cut(s)	271
BmsI	GCATC	4 cut(s)	115, 194, 472, 505
BsaJI	CCNNGG	2 cut(s)	229, 273
Bsc4I	CCNNNNNNNGG	1 cut(s)	345
Bse1I	ACTGG	1 cut(s)	135
BseDI	CCNNGG	2 cut(s)	229, 273
BseGI	GGATG	2 cut(s)	35, 487
BseLI	CCNNNNNNNGG	1 cut(s)	345
BseMII	CTCAG	2 cut(s)	102, 128
BseNI	ACTGG	1 cut(s)	135
BsiHKCI	CYCGRG	1 cut(s)	311
BslI	CCNNNNNNNGG	1 cut(s)	345
BsmAI	GTCTC	1 cut(s)	361
BsoBI	CYCGRG	1 cut(s)	311
Bsp143I	GATC	4 cut(s)	168, 303, 404, 462
BspCNI	CTCAG	2 cut(s)	103, 129
BspLI	GGNNCC	1 cut(s)	271
BspPI	GGATC	2 cut(s)	176, 412
BsrI	ACTGG	1 cut(s)	135
BssECI	CCNNGG	2 cut(s)	229, 273
BssMI	GATC	4 cut(s)	168, 303, 404, 462
BssSI	CACGAG	1 cut(s)	387
BssT1I	CCWWGG	2 cut(s)	229, 273
Bst2BI	CACGAG	1 cut(s)	387
Bst4CI	ACNGT	1 cut(s)	460
Bst6I	CTCTTC	1 cut(s)	359
BstAPI	GCANNNNNTGC	1 cut(s)	355
BstDEI	CTNAG	2 cut(s)	111, 137
BstF5I	GGATG	2 cut(s)	35, 487
BstKTI	GATC	4 cut(s)	171, 306, 407, 465
BstMAI	GTCTC	1 cut(s)	361
BstMBI	GATC	4 cut(s)	168, 303, 404, 462
BstMWI	GCNNNNNNNGC	2 cut(s)	107, 355
BstNSI	RCATGY	1 cut(s)	59
BstX2I	RGATCY	1 cut(s)	303
BstYI	RGATCY	1 cut(s)	303
BtsCI	GGATG	2 cut(s)	35, 487
BtsIMutI	CAGTG	2 cut(s)	128, 456
Cfr13I	GGNCC	1 cut(s)	330
Csp6I	GTAC	2 cut(s)	134, 536
CviAII	CATG	5 cut(s)	56, 165, 217, 327, 560
CviJI	RGCY	5 cut(s)	49, 110, 214, 272, 386
CviKI_1	RGCY	5 cut(s)	49, 110, 214, 272, 386
CviQI	GTAC	2 cut(s)	134, 536
DdeI	CTNAG	2 cut(s)	111, 137
DpnI	GATC	4 cut(s)	170, 305, 406, 464
DpnII	GATC	4 cut(s)	168, 303, 404, 462
Eam1104I	CTCTTC	1 cut(s)	359
EarI	CTCTTC	1 cut(s)	359
Eco130I	CCWWGG	2 cut(s)	229, 273
Eco47I	GGWCC	1 cut(s)	330
Eco57I	CTGAAG	1 cut(s)	524
Eco88I	CYCGRG	1 cut(s)	311
EcoT14I	CCWWGG	2 cut(s)	229, 273
ErhI	CCWWGG	2 cut(s)	229, 273
FaeI	CATG	5 cut(s)	59, 168, 220, 330, 563
FalI	AAGNNNNNCTT	2 cut(s)	240, 272
FatI	CATG	5 cut(s)	55, 164, 216, 326, 559
FblI	GTMKAC	2 cut(s)	174, 502
FokI	GGATG	2 cut(s)	42, 494
FspBI	CTAG	1 cut(s)	180
Hin1II	CATG	5 cut(s)	59, 168, 220, 330, 563
HinfI	GANTC	3 cut(s)	119, 176, 393
HphI	GGTGA	1 cut(s)	305
Hpy166II	GTNNAC	4 cut(s)	175, 503, 536, 568
Hpy188I	TCNGA	2 cut(s)	25, 124
Hpy188III	TCNNGA	4 cut(s)	61, 180, 313, 397
Hpy8I	GTNNAC	4 cut(s)	175, 503, 536, 568
HpyAV	CCTTC	3 cut(s)	88, 446, 541
HpyCH4III	ACNGT	1 cut(s)	460
HpyCH4V	TGCA	2 cut(s)	128, 485
HpyF10VI	GCNNNNNNNGC	2 cut(s)	107, 355
HpyF3I	CTNAG	2 cut(s)	111, 137
Hsp92II	CATG	5 cut(s)	59, 168, 220, 330, 563
Kzo9I	GATC	4 cut(s)	168, 303, 404, 462
LmnI	GCTCC	1 cut(s)	269
LpnPI	CCDG	2 cut(s)	116, 387
LweI	GCATC	4 cut(s)	115, 194, 472, 505
MaeI	CTAG	1 cut(s)	180
MaeIII	GTNAC	1 cut(s)	71
MalI	GATC	4 cut(s)	170, 305, 406, 464
MboI	GATC	4 cut(s)	168, 303, 404, 462
MboII	GAAGA	2 cut(s)	94, 376
MflI	RGATCY	1 cut(s)	303
MluCI	AATT	2 cut(s)	223, 238
MlyI	GAGTC	1 cut(s)	170
MnlI	CCTC	2 cut(s)	154, 472
MseI	TTAA	3 cut(s)	144, 374, 422
MspA1I	CMGCKG	1 cut(s)	110
MwoI	GCNNNNNNNGC	2 cut(s)	107, 355
NdeII	GATC	4 cut(s)	168, 303, 404, 462
NlaIII	CATG	5 cut(s)	59, 168, 220, 330, 563
NlaIV	GGNNCC	1 cut(s)	271
NspI	RCATGY	1 cut(s)	59
PciI	ACATGT	1 cut(s)	55
PfeI	GAWTC	2 cut(s)	119, 393
PleI	GAGTC	1 cut(s)	170
PpsI	GAGTC	1 cut(s)	170
PscI	ACATGT	1 cut(s)	55
PspN4I	GGNNCC	1 cut(s)	271
PspPI	GGNCC	1 cut(s)	330
PsuI	RGATCY	1 cut(s)	303
PvuII	CAGCTG	1 cut(s)	110
RsaI	GTAC	2 cut(s)	135, 537
RsaNI	GTAC	2 cut(s)	134, 536
SaqAI	TTAA	3 cut(s)	144, 374, 422
Sau3AI	GATC	4 cut(s)	168, 303, 404, 462
Sau96I	GGNCC	1 cut(s)	330
SchI	GAGTC	1 cut(s)	170
SetI	ASST	7 cut(s)	99, 112, 216, 235, 335, 422, 529
SfaNI	GCATC	4 cut(s)	115, 194, 472, 505
SinI	GGWCC	1 cut(s)	330
Sse9I	AATT	2 cut(s)	223, 238
SspI	AATATT	1 cut(s)	427
SspMI	CTAG	1 cut(s)	180
StyI	CCWWGG	2 cut(s)	229, 273
TaaI	ACNGT	1 cut(s)	460
TaqI	TCGA	1 cut(s)	545
TasI	AATT	2 cut(s)	223, 238
TatI	WGTACW	1 cut(s)	535
TfiI	GAWTC	2 cut(s)	119, 393
Tru1I	TTAA	3 cut(s)	144, 374, 422
Tru9I	TTAA	3 cut(s)	144, 374, 422
TscAI	CASTG	2 cut(s)	135, 463
TspDTI	ATGAA	2 cut(s)	107, 465
TspRI	CASTG	2 cut(s)	135, 463
VpaK11BI	GGWCC	1 cut(s)	330
XbaI	TCTAGA	1 cut(s)	179
XceI	RCATGY	1 cut(s)	59
XcmI	CCANNNNNNNNNTGG	1 cut(s)	162
XmiI	GTMKAC	2 cut(s)	174, 502
XspI	CTAG	1 cut(s)	180

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