Basic Information

Type: gene

Biological Identity

Species

fragaria_vesca

Chromosome

Fvb2

Orthogroup ID

OG0007480

Physical Location & Seq

Genomic Coordinates Forward (+)

4549257 .. 4550573

Gene Structure 1317 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

FvH4_2g05501.t1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1317 bp

ATGATTCACGTACGAGATGTCTTAAAGTTACTACAAGACAATCAACTATGTTTGAATGCAAAGAAGTGTGAGTTTGCGCAGAAGGAATTGGTGTATCTCGGGTTTATAGTTGGTGGAGGTCAACTGAAGATTGATCCAAGGAAGGTTGAGGTCATCTCTAAGTGGCCTAGACCCAAGACAGTAACAGAAGTCCGAAGTTTCGTGGGAGCTTGCCAGTATGTACGCAAGTTTATTCGAGATTTCTCTACTCATGCAGCACCTTTGCACGGGCTGACAAAAGCTGGACAGAAATTTGAGTGGAGTGAAAAGCATGAAGAAGCTTTCCAGCTTTTAAAGAGGAAAATTTCAGAAGCTCCAGTACTAGCCCTGCCGAGTCTGCAACGCCTTTTTGAGGTGGAGACTGACGCGTCTACCTATGCTATGGGAGCCGTTCTGTTACAAGATGGGAAGCCAGTAGAATACTACTCTGAGTTATTCACTGGATCCATCAGAAACTATCCAACCTACGACAAGGAGTTTTATGCACTTTACCAAGCCATCAAGCATTGGAGGGTGTACTTGTTAGGGAAGGAGGTAGTAGTACATTTAGATCACAAGCCATTGGAATATCTTCATGCTCAAACCAAGCTACAACAAGCCAGGCACATGAAGTGGATGTCATATTTAATGACTTTTGACATTGTCATCCGATACAAGAAGGGGATCACCAACAAGTTGGTTGATATGTTGTCAAGACCACCTGTGAGAGTTTGTGCCTTGGTAGTGGCTATGCGTATACAACCTTTGGTTCCAACTGAGTATGCAACTTTGTATGAATCAGATAAAGGTTTCAAGGAAGTATATGAGCAAGCAAAACGAGTGCAGAAAGGGGAGTTTGAGATACGAGATGGTTTGTTGTATAAGGGATCATTGTTATGCATACCGGAAGAGGGAGATCGATTACAGTGGATTCGAGAAGCACATACTTCAAGAGTGGCTGGACACTTTGGAGTTAATAAGACTTTGTTGAATTTACGGCGTTATGTCTTCTGGCCTAAGATGCAGGATGATGTTTCCAGATTTGTTCGAGGGTGTAAGTTGTGTTGTACTTCGAAACCAGCGAACAGGAAGAGAGGGTTGTATCTACCGTTGCTTGTACCGTCTCGTCCTTGGGAAAGTATTTCCATAGATTTCTTGGGAGGTTTACCGAAGGCCAAGTCTGGGAATGACTATTTATATGTTGTGGTCGATCGTTTCAGTAAAATGGTGGTTCTCATTCCTTGCAAGAAGACCATTACAGGGGCTGGTGCAGCTAAGTTATTCTTTGAGAATGTCTGA

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 zf-CCHC

Protein Analysis

439

Amino Acids

50.46

Weight (kDa)

9.51

Isoelectric Point (pI)

35.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RT_RNaseH_2	PF17919	100 - 194	7.1e-30	RNase H-like domain found in reverse transcriptase
RT_RNaseH	PF17917	127 - 225	3.7e-29	RNase H-like domain found in reverse transcriptase
Integrase_H2C2	PF17921	312 - 366	2.8e-17	Integrase zinc binding domain

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

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Orthologous Genes (Group: OG0007480)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g20082 FvH4_1g29103 FvH4_1g29431 FvH4_1g29732 FvH4_1g29761 FvH4_2g03391 FvH4_2g05501 FvH4_2g12792 FvH4_2g19253 FvH4_3g31261 FvH4_4g12741 FvH4_4g33447 FvH4_5g39021 FvH4_6g15231 FvH4_6g15232 FvH4_7g32351
malus_domestica	MD07G1221100.v1.1
prunus_persica	Prupe.8G084500_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0097291 RchiOBHm_Chr3g0497281 RchiOBHm_Chr5g0015161 RchiOBHm_Chr7g0243211 RchiOBHm_Chr7g0243231
rosa_roxburghii	Rroxscaffold_7G00175870
rosa_wichuraiana	Rw4G015470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	406
Acc16I	TGCGCA	1 cut(s)	78
AccI	GTMKAC	2 cut(s)	410, 775
AccII	CGCG	1 cut(s)	407
AclWI	GGATC	5 cut(s)	128, 477, 490, 710, 913
AcsI	RAATTY	3 cut(s)	290, 342, 1009
AcuI	CTGAAG	1 cut(s)	146
AfaI	GTAC	7 cut(s)	12, 222, 360, 557, 582, 1087, 1137
AfiI	CCNNNNNNNGG	5 cut(s)	266, 391, 929, 1200, 1278
AflIII	ACRYGT	1 cut(s)	405
AgsI	TTSAA	4 cut(s)	55, 832, 969, 1009
AjnI	CCWGG	1 cut(s)	638
AluBI	AGCT	7 cut(s)	209, 281, 320, 328, 353, 628, 1292
AluI	AGCT	7 cut(s)	209, 281, 320, 328, 353, 628, 1292
Alw26I	GTCTC	2 cut(s)	392, 1146
AlwI	GGATC	5 cut(s)	128, 477, 490, 710, 913
AlwNI	CAGNNNCTG	1 cut(s)	1283
Ama87I	CYCGRG	1 cut(s)	98
AoxI	GGCC	3 cut(s)	164, 1031, 1191
ApeKI	GCWGC	2 cut(s)	254, 1289
ApoI	RAATTY	3 cut(s)	290, 342, 1009
ArsI	GACNNNNNNTTYG	2 cut(s)	1181, 1213
Asp700I	GAANNNNTTC	1 cut(s)	609
AspLEI	GCGC	1 cut(s)	79
AsuHPI	GGTGA	1 cut(s)	697
AsuII	TTCGAA	1 cut(s)	1091
AvaI	CYCGRG	1 cut(s)	98
BamHI	GGATCC	1 cut(s)	482
BarI	GAAGNNNNNNTAC	2 cut(s)	342, 374
BbsI	GAAGAC	2 cut(s)	1018, 1274
BbvI	GCAGC	2 cut(s)	266, 1301
BccI	CCATC	4 cut(s)	437, 494, 545, 881
BceAI	ACGGC	2 cut(s)	413, 1031
BciT130I	CCWGG	1 cut(s)	640
BcoDI	GTCTC	2 cut(s)	392, 1146
BfaI	CTAG	2 cut(s)	168, 362
BisI	GCNGC	2 cut(s)	255, 1290
BlsI	GCNGC	2 cut(s)	256, 1291
BmcAI	AGTACT	1 cut(s)	360
Bme1390I	CCNGG	1 cut(s)	640
BmeT110I	CYCGRG	1 cut(s)	98
BmiI	GGNNCC	3 cut(s)	427, 484, 789
BmrFI	CCNGG	1 cut(s)	640
BmsI	GCATC	1 cut(s)	1029
BpiI	GAAGAC	2 cut(s)	1018, 1274
BplI	GAGNNNNNCTC	2 cut(s)	140, 172
BpmI	CTGGAG	1 cut(s)	339
Bpu14I	TTCGAA	1 cut(s)	1091
Bsa29I	ATCGAT	1 cut(s)	937
BsaAI	YACGTR	1 cut(s)	10
BsaJI	CCNNGG	3 cut(s)	137, 756, 1148
BsaWI	WCCGGW	1 cut(s)	922
Bsc4I	CCNNNNNNNGG	5 cut(s)	266, 391, 929, 1200, 1278
Bse1I	ACTGG	4 cut(s)	214, 356, 452, 484
BseBI	CCWGG	1 cut(s)	640
BseCI	ATCGAT	1 cut(s)	937
BseDI	CCNNGG	3 cut(s)	137, 756, 1148
BseGI	GGATG	3 cut(s)	660, 684, 1051
BseLI	CCNNNNNNNGG	5 cut(s)	266, 391, 929, 1200, 1278
BseMII	CTCAG	2 cut(s)	459, 786
BseNI	ACTGG	4 cut(s)	214, 356, 452, 484
BseXI	GCAGC	2 cut(s)	266, 1301
BsgI	GTGCAG	2 cut(s)	881, 1308
Bsh1236I	CGCG	1 cut(s)	407
Bsh1285I	CGRYCG	1 cut(s)	1231
BshFI	GGCC	3 cut(s)	166, 1033, 1193
BshVI	ATCGAT	1 cut(s)	937
BsiEI	CGRYCG	1 cut(s)	1231
BsiHKCI	CYCGRG	1 cut(s)	98
BsiSI	CCGG	1 cut(s)	923
BsiWI	CGTACG	1 cut(s)	10
BslI	CCNNNNNNNGG	5 cut(s)	266, 391, 929, 1200, 1278
BsmAI	GTCTC	2 cut(s)	392, 1146
BsmBI	CGTCTC	1 cut(s)	1146
BsmI	GAATGC	1 cut(s)	61
BsnI	GGCC	3 cut(s)	166, 1033, 1193
BsoBI	CYCGRG	1 cut(s)	98
Bsp119I	TTCGAA	1 cut(s)	1091
Bsp143I	GATC	7 cut(s)	133, 482, 589, 702, 905, 934, 1228
BspANI	GGCC	3 cut(s)	166, 1033, 1193
BspCNI	CTCAG	2 cut(s)	460, 787
BspDI	ATCGAT	1 cut(s)	937
BspFNI	CGCG	1 cut(s)	407
BspLI	GGNNCC	3 cut(s)	427, 484, 789
BspPI	GGATC	5 cut(s)	128, 477, 490, 710, 913
BspT104I	TTCGAA	1 cut(s)	1091
BsrI	ACTGG	4 cut(s)	214, 356, 452, 484
BssECI	CCNNGG	3 cut(s)	137, 756, 1148
BssMI	GATC	7 cut(s)	133, 482, 589, 702, 905, 934, 1228
BssNAI	GTATAC	1 cut(s)	776
BssT1I	CCWWGG	3 cut(s)	137, 756, 1148
Bst1107I	GTATAC	1 cut(s)	776
Bst2UI	CCWGG	1 cut(s)	640
Bst4CI	ACNGT	4 cut(s)	181, 945, 1128, 1140
Bst6I	CTCTTC	2 cut(s)	921, 1103
BstBAI	YACGTR	1 cut(s)	10
BstBI	TTCGAA	1 cut(s)	1091
BstC8I	GCNNGC	2 cut(s)	211, 849
BstDEI	CTNAG	5 cut(s)	159, 468, 795, 1035, 1293
BstENI	CCTNNNNNAGG	1 cut(s)	389
BstF5I	GGATG	3 cut(s)	660, 684, 1051
BstFNI	CGCG	1 cut(s)	407
BstHHI	GCGC	1 cut(s)	79
BstKTI	GATC	7 cut(s)	136, 485, 592, 705, 908, 937, 1231
BstMAI	GTCTC	2 cut(s)	392, 1146
BstMBI	GATC	7 cut(s)	133, 482, 589, 702, 905, 934, 1228
BstMCI	CGRYCG	1 cut(s)	1231
BstMWI	GCNNNNNNNGC	4 cut(s)	376, 425, 1039, 1289
BstNI	CCWGG	1 cut(s)	640
BstSCI	CCNGG	1 cut(s)	638
BstUI	CGCG	1 cut(s)	407
BstV1I	GCAGC	2 cut(s)	266, 1301
BstV2I	GAAGAC	2 cut(s)	1018, 1274
BstX2I	RGATCY	1 cut(s)	482
BstXI	CCANNNNNNTGG	1 cut(s)	715
BstYI	RGATCY	1 cut(s)	482
BstZ17I	GTATAC	1 cut(s)	776
Bsu15I	ATCGAT	1 cut(s)	937
BsuRI	GGCC	3 cut(s)	166, 1033, 1193
BsuTUI	ATCGAT	1 cut(s)	937
BtsCI	GGATG	3 cut(s)	660, 684, 1051
BtsIMutI	CAGTG	2 cut(s)	477, 950
Cac8I	GCNNGC	2 cut(s)	211, 849
CaiI	CAGNNNCTG	1 cut(s)	1283
CfoI	GCGC	1 cut(s)	79
ClaI	ATCGAT	1 cut(s)	937
CseI	GACGC	2 cut(s)	396, 413
Csp6I	GTAC	7 cut(s)	11, 221, 359, 556, 581, 1086, 1136
CviAII	CATG	4 cut(s)	251, 311, 614, 646
CviQI	GTAC	7 cut(s)	11, 221, 359, 556, 581, 1086, 1136
DdeI	CTNAG	5 cut(s)	159, 468, 795, 1035, 1293
DpnI	GATC	7 cut(s)	135, 484, 591, 704, 907, 936, 1230
DpnII	GATC	7 cut(s)	133, 482, 589, 702, 905, 934, 1228
DraI	TTTAAA	1 cut(s)	333
DrdI	GACNNNNNNGTC	1 cut(s)	406
DseDI	GACNNNNNNGTC	1 cut(s)	406
Eam1104I	CTCTTC	2 cut(s)	921, 1103
EarI	CTCTTC	2 cut(s)	921, 1103
Eco130I	CCWWGG	3 cut(s)	137, 756, 1148
Eco57I	CTGAAG	1 cut(s)	146
Eco88I	CYCGRG	1 cut(s)	98
EcoNI	CCTNNNNNAGG	1 cut(s)	389
EcoRII	CCWGG	1 cut(s)	638
EcoT14I	CCWWGG	3 cut(s)	137, 756, 1148
EcoT22I	ATGCAT	1 cut(s)	920
ErhI	CCWWGG	3 cut(s)	137, 756, 1148
Esp3I	CGTCTC	1 cut(s)	1146
FaeI	CATG	4 cut(s)	254, 314, 617, 649
FalI	AAGNNNNNCTT	1 cut(s)	1286
FatI	CATG	4 cut(s)	250, 310, 613, 645
FblI	GTMKAC	2 cut(s)	410, 775
Fnu4HI	GCNGC	2 cut(s)	255, 1290
FokI	GGATG	3 cut(s)	667, 671, 1058
Fsp4HI	GCNGC	2 cut(s)	255, 1290
FspBI	CTAG	2 cut(s)	168, 362
FspI	TGCGCA	1 cut(s)	78
GlaI	GCGC	1 cut(s)	78
GluI	GCNGC	2 cut(s)	255, 1290
GsuI	CTGGAG	1 cut(s)	339
HaeIII	GGCC	3 cut(s)	166, 1033, 1193
HapII	CCGG	1 cut(s)	923
HgaI	GACGC	2 cut(s)	396, 413
HhaI	GCGC	1 cut(s)	79
Hin1II	CATG	4 cut(s)	254, 314, 617, 649
Hin6I	GCGC	1 cut(s)	77
HinP1I	GCGC	1 cut(s)	77
HincII	GTYRAC	1 cut(s)	122
HindII	GTYRAC	1 cut(s)	122
HindIII	AAGCTT	1 cut(s)	318
HinfI	GANTC	4 cut(s)	4, 373, 815, 949
HpaII	CCGG	1 cut(s)	923
HphI	GGTGA	1 cut(s)	697
Hpy166II	GTNNAC	5 cut(s)	122, 411, 556, 776, 1184
Hpy188I	TCNGA	7 cut(s)	194, 349, 469, 491, 689, 820, 1316
Hpy188III	TCNNGA	5 cut(s)	236, 732, 953, 969, 1056
Hpy8I	GTNNAC	5 cut(s)	122, 411, 556, 776, 1184
HpyAV	CCTTC	5 cut(s)	76, 136, 562, 691, 1183
HpyCH4III	ACNGT	4 cut(s)	181, 945, 1128, 1140
HpyCH4IV	ACGT	1 cut(s)	9
HpyF10VI	GCNNNNNNNGC	4 cut(s)	376, 425, 1039, 1289
HpyF3I	CTNAG	5 cut(s)	159, 468, 795, 1035, 1293
HpySE526I	ACGT	1 cut(s)	9
Hsp92II	CATG	4 cut(s)	254, 314, 617, 649
HspAI	GCGC	1 cut(s)	77
Kzo9I	GATC	7 cut(s)	133, 482, 589, 702, 905, 934, 1228
LmnI	GCTCC	3 cut(s)	206, 358, 425
Lsp1109I	GCAGC	2 cut(s)	266, 1301
LweI	GCATC	1 cut(s)	1029
MaeI	CTAG	2 cut(s)	168, 362
MaeII	ACGT	1 cut(s)	9
MaeIII	GTNAC	3 cut(s)	27, 181, 435
MalI	GATC	7 cut(s)	135, 484, 591, 704, 907, 936, 1230
MboI	GATC	7 cut(s)	133, 482, 589, 702, 905, 934, 1228
MboII	GAAGA	7 cut(s)	139, 326, 602, 938, 1018, 1120, 1279
MflI	RGATCY	1 cut(s)	482
MluCI	AATT	4 cut(s)	86, 290, 342, 1009
MluI	ACGCGT	1 cut(s)	405
MlyI	GAGTC	1 cut(s)	382
MmeI	TCCRAC	2 cut(s)	524, 815
Mph1103I	ATGCAT	1 cut(s)	920
MroXI	GAANNNNTTC	1 cut(s)	609
MseI	TTAA	4 cut(s)	23, 332, 665, 993
MslI	CAYNNNNRTG	1 cut(s)	913
MspI	CCGG	1 cut(s)	923
MspR9I	CCNGG	1 cut(s)	640
Mva1269I	GAATGC	1 cut(s)	61
MvaI	CCWGG	1 cut(s)	640
MvnI	CGCG	1 cut(s)	407
MwoI	GCNNNNNNNGC	4 cut(s)	376, 425, 1039, 1289
NdeII	GATC	7 cut(s)	133, 482, 589, 702, 905, 934, 1228
NlaIII	CATG	4 cut(s)	254, 314, 617, 649
NlaIV	GGNNCC	3 cut(s)	427, 484, 789
NmeAIII	GCCGAG	1 cut(s)	396
NsbI	TGCGCA	1 cut(s)	78
NsiI	ATGCAT	1 cut(s)	920
NspV	TTCGAA	1 cut(s)	1091
PcsI	WCGNNNNNNNCGW	1 cut(s)	1097
PctI	GAATGC	1 cut(s)	61
PdmI	GAANNNNTTC	1 cut(s)	609
PfeI	GAWTC	3 cut(s)	4, 815, 949
Pfl23II	CGTACG	1 cut(s)	10
PflFI	GACNNNGTC	1 cut(s)	680
PkrI	GCNGC	2 cut(s)	256, 1291
Ple19I	CGATCG	1 cut(s)	1231
PleI	GAGTC	1 cut(s)	381
PpsI	GAGTC	1 cut(s)	381
Ppu21I	YACGTR	1 cut(s)	10
Psp6I	CCWGG	1 cut(s)	638
PspGI	CCWGG	1 cut(s)	638
PspLI	CGTACG	1 cut(s)	10
PspN4I	GGNNCC	3 cut(s)	427, 484, 789
PstNI	CAGNNNCTG	1 cut(s)	1283
PsuI	RGATCY	1 cut(s)	482
PsyI	GACNNNGTC	1 cut(s)	680
PvuI	CGATCG	1 cut(s)	1231
RsaI	GTAC	7 cut(s)	12, 222, 360, 557, 582, 1087, 1137
RsaNI	GTAC	7 cut(s)	11, 221, 359, 556, 581, 1086, 1136
RseI	CAYNNNNRTG	1 cut(s)	913
SaqAI	TTAA	4 cut(s)	23, 332, 665, 993
SatI	GCNGC	2 cut(s)	255, 1290
Sau3AI	GATC	7 cut(s)	133, 482, 589, 702, 905, 934, 1228
ScaI	AGTACT	1 cut(s)	360
SchI	GAGTC	1 cut(s)	382
ScrFI	CCNGG	1 cut(s)	640
SfaNI	GCATC	1 cut(s)	1029
SfuI	TTCGAA	1 cut(s)	1091
SmiMI	CAYNNNNRTG	1 cut(s)	913
Sse9I	AATT	4 cut(s)	86, 290, 342, 1009
SspMI	CTAG	2 cut(s)	168, 362
StyD4I	CCNGG	1 cut(s)	638
StyI	CCWWGG	3 cut(s)	137, 756, 1148
TaaI	ACNGT	4 cut(s)	181, 945, 1128, 1140
TaiI	ACGT	1 cut(s)	12
TaqI	TCGA	6 cut(s)	235, 937, 952, 1066, 1091, 1227
TasI	AATT	4 cut(s)	86, 290, 342, 1009
TatI	WGTACW	4 cut(s)	358, 555, 580, 1085
TfiI	GAWTC	3 cut(s)	4, 815, 949
Tru1I	TTAA	4 cut(s)	23, 332, 665, 993
Tru9I	TTAA	4 cut(s)	23, 332, 665, 993
TscAI	CASTG	2 cut(s)	484, 950
TseI	GCWGC	2 cut(s)	254, 1289
TspDTI	ATGAA	4 cut(s)	327, 602, 662, 828
TspRI	CASTG	2 cut(s)	484, 950
Tth111I	GACNNNGTC	1 cut(s)	680
XagI	CCTNNNNNAGG	1 cut(s)	389
XapI	RAATTY	3 cut(s)	290, 342, 1009
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1171
XmiI	GTMKAC	2 cut(s)	410, 775
XmnI	GAANNNNTTC	1 cut(s)	609
XspI	CTAG	2 cut(s)	168, 362
ZrmI	AGTACT	1 cut(s)	360
Zsp2I	ATGCAT	1 cut(s)	920

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