Basic Information

Type: gene

Biological Identity

Species

fragaria_vesca

Chromosome

Fvb4

Orthogroup ID

OG0017998

Physical Location & Seq

Genomic Coordinates Reverse (-)

16440417 .. 16442058

Gene Structure 1642 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

FvH4_4g12771.t1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 909 bp

ATGCCAGATTGTTACCCATATTCAATGAAAGATGGTCATGTAGTTAGGTGGAAATGTGGAATCATTAAGAACCCGAAATTGACACTAGACCTCCTCAAACAAATAGAGTCATTCCTGTCCAACATGGACGACAACAAGAAACTTGAGCTATTCTCCAAAGTCCTTGAAAAAATGGAAGACTTCCGCCGCGGCCGAGGCCGCCCTTGCTATTCTCATTGCCCTATCCCCGCCTCCATTGAGGAACGCCGTGTCGTTGGGGGTCAACTTCAGTTCTTCGAAGACGGAAAACAGGTCGACTGCACTAAGACGCAGGGACGCAAAATCATCCCCGATATCGCCAACGTTAATGTGGAAGATATCAAGAGCAGTACTGCTAAGTTCATTTTAGTAGTCCAGAGGTATGAAGTGTATCGGGGAATGGCAGTGCCACGTGCTAATGAGAGTGCTGAGATATTTTACGAGCGTCATCCGTGTATAGTTGTGAATGTTGAAGAGGAACTTGATACGAAGACGAAGCTGTTTCTATGTGAGCTGAGGAAGGAGTTGAAGATTCCGATTCTTGCAAATGTGGACAGCAGTCCGGAGGGTGTTAAGATTATTTCAACAGTGTCTAAATGCTGCGGGTACAATGTAGGTTGGCTTGGGATGACACCAACCCAATTGGAGAAAGGTAGGTTTGCCATTCCTAATGACCCTAGGATAAGAGTGCCCATGACTGACAATGATTTGATAATATTAGATGATCTGATGGAGAATGACGAGTTTGTGAAAGAGAAAATGAGGGATCAGACATGGTTTGAGGACCTGACTCTGATGAAGAAGACCAAGACGAAAACCAAGGTTGAAGATTTTGATGATTTCATGAGCATGCTCCATAGTTATGGGTTGATAGAAATTATCTCTAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000280 GO:0000706 GO:0000729 GO:0001708 GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0003916 GO:0003918 GO:0004518 GO:0004519 GO:0004520 GO:0004536 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007127 GO:0007131 GO:0008094 GO:0008150 GO:0008152 GO:0008544 GO:0009888 GO:0009913 GO:0009957 GO:0009987 GO:0016043 GO:0016462 GO:0016787 GO:0016788 GO:0016817 GO:0016818 GO:0016853 GO:0016887 GO:0016889 GO:0016894 GO:0017111 GO:0022402 GO:0022414 GO:0030154 GO:0030855 GO:0031974 GO:0031981 GO:0032502 GO:0033554 GO:0034641 GO:0035825 GO:0042138 GO:0042623 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045165 GO:0046483 GO:0048285 GO:0048856 GO:0048869 GO:0050896 GO:0051321 GO:0051716 GO:0060429 GO:0061505 GO:0061982 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko04113 map04113

Pfam Domains

Protein Families

TP6A_N

Protein Analysis

303

Amino Acids

34.88

Weight (kDa)

5.96

Isoelectric Point (pI)

37.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	150 - 287	3.2e-13	Topoisomerase 6 subunit A/Spo11, Toprim 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: OG0017998)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g06051 FvH4_4g12771
rosa_laevigata	RLG00000003317 RLG00000003318
rosa_multiflora	Rmu_sc0003652.1_g000002 Rmu_sc0005065.1_g000016
rosa_roxburghii	Rroxscaffold_3G00251590
rosa_samantha	Rh7AG228500 Rh7BG224900 Rh7CG243100 Rh7CG243200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	294
AccII	CGCG	1 cut(s)	189
AccIII	TCCGGA	1 cut(s)	580
AciI	CCGC	6 cut(s)	184, 187, 189, 199, 228, 621
AclI	AACGTT	1 cut(s)	342
AclWI	GGATC	1 cut(s)	792
AcoI	YGGCCR	1 cut(s)	190
AcuI	CTGAAG	1 cut(s)	251
AcvI	CACGTG	1 cut(s)	431
AfaI	GTAC	2 cut(s)	370, 626
AgsI	TTSAA	6 cut(s)	24, 167, 491, 547, 603, 845
AluBI	AGCT	3 cut(s)	148, 517, 532
AluI	AGCT	3 cut(s)	148, 517, 532
AlwI	GGATC	1 cut(s)	792
Aor13HI	TCCGGA	1 cut(s)	580
AoxI	GGCC	2 cut(s)	190, 196
ApeKI	GCWGC	1 cut(s)	618
AspA2I	CCTAGG	1 cut(s)	695
AspS9I	GGNCC	1 cut(s)	802
AsuII	TTCGAA	1 cut(s)	276
AvaII	GGWCC	1 cut(s)	802
AvrII	CCTAGG	1 cut(s)	695
BaeGI	GKGCMC	1 cut(s)	711
BbrPI	CACGTG	1 cut(s)	431
BbsI	GAAGAC	4 cut(s)	183, 285, 515, 827
BbvCI	CCTCAGC	1 cut(s)	533
BbvI	GCAGC	1 cut(s)	605
BccI	CCATC	2 cut(s)	26, 742
BceAI	ACGGC	1 cut(s)	231
BfaI	CTAG	2 cut(s)	86, 696
BisI	GCNGC	4 cut(s)	187, 190, 199, 619
BlnI	CCTAGG	1 cut(s)	695
BlsI	GCNGC	4 cut(s)	188, 191, 200, 620
BmcAI	AGTACT	1 cut(s)	370
Bme18I	GGWCC	1 cut(s)	802
BmgT120I	GGNCC	1 cut(s)	802
BoxI	GACNNNNGTC	1 cut(s)	576
BpiI	GAAGAC	4 cut(s)	183, 285, 515, 827
BplI	GAGNNNNNCTC	2 cut(s)	137, 169
Bpu10I	CCTNAGC	1 cut(s)	533
Bpu14I	TTCGAA	1 cut(s)	276
BpuEI	CTTGAG	1 cut(s)	164
BsaAI	YACGTR	1 cut(s)	431
BsaJI	CCNNGG	4 cut(s)	187, 193, 695, 837
BsaWI	WCCGGW	1 cut(s)	580
BsaXI	ACNNNNNCTCC	2 cut(s)	75, 105
Bse3DI	GCAATG	1 cut(s)	214
BseAI	TCCGGA	1 cut(s)	580
BseDI	CCNNGG	4 cut(s)	187, 193, 695, 837
BseGI	GGATG	3 cut(s)	324, 466, 651
BseMI	GCAATG	1 cut(s)	214
BseMII	CTCAG	2 cut(s)	438, 524
BseRI	GAGGAG	1 cut(s)	83
BseSI	GKGCMC	1 cut(s)	711
BseX3I	CGGCCG	1 cut(s)	190
BseXI	GCAGC	1 cut(s)	605
BsgI	GTGCAG	1 cut(s)	283
Bsh1236I	CGCG	1 cut(s)	189
Bsh1285I	CGRYCG	1 cut(s)	193
BshFI	GGCC	2 cut(s)	192, 198
BsiEI	CGRYCG	1 cut(s)	193
BsiSI	CCGG	1 cut(s)	581
BslFI	GGGAC	1 cut(s)	327
BsmFI	GGGAC	1 cut(s)	327
BsnI	GGCC	2 cut(s)	192, 198
Bsp119I	TTCGAA	1 cut(s)	276
Bsp1286I	GDGCHC	1 cut(s)	711
Bsp13I	TCCGGA	1 cut(s)	580
Bsp143I	GATC	2 cut(s)	742, 784
BspACI	CCGC	6 cut(s)	184, 187, 189, 199, 228, 621
BspANI	GGCC	2 cut(s)	192, 198
BspCNI	CTCAG	2 cut(s)	439, 525
BspEI	TCCGGA	1 cut(s)	580
BspFNI	CGCG	1 cut(s)	189
BspHI	TCATGA	1 cut(s)	861
BspPI	GGATC	1 cut(s)	792
BspT104I	TTCGAA	1 cut(s)	276
BsrDI	GCAATG	1 cut(s)	214
BssECI	CCNNGG	4 cut(s)	187, 193, 695, 837
BssMI	GATC	2 cut(s)	742, 784
BssT1I	CCWWGG	2 cut(s)	695, 837
Bst4CI	ACNGT	1 cut(s)	607
Bst6I	CTCTTC	1 cut(s)	486
BstBAI	YACGTR	1 cut(s)	431
BstBI	TTCGAA	1 cut(s)	276
BstC8I	GCNNGC	1 cut(s)	869
BstDEI	CTNAG	4 cut(s)	303, 375, 447, 533
BstDSI	CCRYGG	1 cut(s)	187
BstF5I	GGATG	3 cut(s)	324, 466, 651
BstFNI	CGCG	1 cut(s)	189
BstKTI	GATC	2 cut(s)	745, 787
BstMBI	GATC	2 cut(s)	742, 784
BstMCI	CGRYCG	1 cut(s)	193
BstMWI	GCNNNNNNNGC	3 cut(s)	195, 198, 204
BstNSI	RCATGY	1 cut(s)	871
BstPAI	GACNNNNGTC	1 cut(s)	576
BstSLI	GKGCMC	1 cut(s)	711
BstUI	CGCG	1 cut(s)	189
BstV1I	GCAGC	1 cut(s)	605
BstV2I	GAAGAC	4 cut(s)	183, 285, 515, 827
BstXI	CCANNNNNNTGG	1 cut(s)	881
BstZI	CGGCCG	1 cut(s)	190
BsuRI	GGCC	2 cut(s)	192, 198
BtgI	CCRYGG	1 cut(s)	187
BtsCI	GGATG	3 cut(s)	324, 466, 651
BtsI	GCAGTG	1 cut(s)	429
BtsIMutI	CAGTG	2 cut(s)	429, 612
Cac8I	GCNNGC	1 cut(s)	869
CciI	TCATGA	1 cut(s)	861
Cfr13I	GGNCC	1 cut(s)	802
Cfr42I	CCGCGG	1 cut(s)	190
CseI	GACGC	3 cut(s)	316, 324, 452
Csp6I	GTAC	2 cut(s)	369, 625
CviAII	CATG	6 cut(s)	38, 124, 712, 792, 862, 868
CviJI	RGCY	6 cut(s)	148, 192, 198, 517, 532, 640
CviKI_1	RGCY	6 cut(s)	148, 192, 198, 517, 532, 640
CviQI	GTAC	2 cut(s)	369, 625
DdeI	CTNAG	4 cut(s)	303, 375, 447, 533
DpnI	GATC	2 cut(s)	744, 786
DpnII	GATC	2 cut(s)	742, 784
EaeI	YGGCCR	1 cut(s)	190
EagI	CGGCCG	1 cut(s)	190
Eam1104I	CTCTTC	1 cut(s)	486
EarI	CTCTTC	1 cut(s)	486
EciI	GGCGGA	1 cut(s)	173
EclXI	CGGCCG	1 cut(s)	190
Eco130I	CCWWGG	2 cut(s)	695, 837
Eco32I	GATATC	2 cut(s)	334, 358
Eco47I	GGWCC	1 cut(s)	802
Eco52I	CGGCCG	1 cut(s)	190
Eco57I	CTGAAG	1 cut(s)	251
Eco72I	CACGTG	1 cut(s)	431
EcoO109I	RGGNCCY	1 cut(s)	802
EcoRV	GATATC	2 cut(s)	334, 358
EcoT14I	CCWWGG	2 cut(s)	695, 837
ErhI	CCWWGG	2 cut(s)	695, 837
FaeI	CATG	6 cut(s)	41, 127, 715, 795, 865, 871
FalI	AAGNNNNNCTT	2 cut(s)	483, 515
FaqI	GGGAC	1 cut(s)	327
FatI	CATG	6 cut(s)	37, 123, 711, 791, 861, 867
FauI	CCCGC	2 cut(s)	235, 614
FblI	GTMKAC	1 cut(s)	294
Fnu4HI	GCNGC	4 cut(s)	187, 190, 199, 619
FokI	GGATG	3 cut(s)	311, 453, 658
Fsp4HI	GCNGC	4 cut(s)	187, 190, 199, 619
FspBI	CTAG	2 cut(s)	86, 696
GluI	GCNGC	4 cut(s)	187, 190, 199, 619
HaeIII	GGCC	2 cut(s)	192, 198
HapII	CCGG	1 cut(s)	581
HgaI	GACGC	3 cut(s)	316, 324, 452
Hin1II	CATG	6 cut(s)	41, 127, 715, 795, 865, 871
HincII	GTYRAC	2 cut(s)	263, 295
HindII	GTYRAC	2 cut(s)	263, 295
HinfI	GANTC	5 cut(s)	60, 107, 550, 556, 808
HpaII	CCGG	1 cut(s)	581
Hpy166II	GTNNAC	3 cut(s)	263, 295, 571
Hpy188I	TCNGA	4 cut(s)	555, 747, 789, 813
Hpy188III	TCNNGA	4 cut(s)	361, 394, 581, 862
Hpy8I	GTNNAC	3 cut(s)	263, 295, 571
HpyAV	CCTTC	1 cut(s)	532
HpyCH4III	ACNGT	1 cut(s)	607
HpyCH4IV	ACGT	2 cut(s)	342, 430
HpyCH4V	TGCA	2 cut(s)	300, 563
HpyF10VI	GCNNNNNNNGC	3 cut(s)	195, 198, 204
HpyF3I	CTNAG	4 cut(s)	303, 375, 447, 533
HpySE526I	ACGT	2 cut(s)	342, 430
Hsp92II	CATG	6 cut(s)	41, 127, 715, 795, 865, 871
Kpn2I	TCCGGA	1 cut(s)	580
KspI	CCGCGG	1 cut(s)	190
Kzo9I	GATC	2 cut(s)	742, 784
LmnI	GCTCC	1 cut(s)	876
LpnPI	CCDG	7 cut(s)	18, 128, 275, 296, 407, 594, 818
Lsp1109I	GCAGC	1 cut(s)	605
MaeI	CTAG	2 cut(s)	86, 696
MaeII	ACGT	2 cut(s)	342, 430
MaeIII	GTNAC	1 cut(s)	11
MalI	GATC	2 cut(s)	744, 786
MboI	GATC	2 cut(s)	742, 784
MfeI	CAATTG	1 cut(s)	659
MhlI	GDGCHC	1 cut(s)	711
MluCI	AATT	3 cut(s)	77, 659, 894
MlyI	GAGTC	2 cut(s)	116, 802
MmeI	TCCRAC	1 cut(s)	144
MroI	TCCGGA	1 cut(s)	580
MseI	TTAA	3 cut(s)	66, 345, 591
MslI	CAYNNNNRTG	2 cut(s)	866, 879
MspA1I	CMGCKG	1 cut(s)	189
MspI	CCGG	1 cut(s)	581
MunI	CAATTG	1 cut(s)	659
MvnI	CGCG	1 cut(s)	189
MwoI	GCNNNNNNNGC	3 cut(s)	195, 198, 204
NdeII	GATC	2 cut(s)	742, 784
NlaIII	CATG	6 cut(s)	41, 127, 715, 795, 865, 871
NmeAIII	GCCGAG	1 cut(s)	218
NspI	RCATGY	1 cut(s)	871
NspV	TTCGAA	1 cut(s)	276
PaeI	GCATGC	1 cut(s)	871
PagI	TCATGA	1 cut(s)	861
PfeI	GAWTC	3 cut(s)	60, 550, 556
PkrI	GCNGC	4 cut(s)	188, 191, 200, 620
PleI	GAGTC	2 cut(s)	115, 802
PmaCI	CACGTG	1 cut(s)	431
PmlI	CACGTG	1 cut(s)	431
PpsI	GAGTC	2 cut(s)	115, 802
Ppu21I	YACGTR	1 cut(s)	431
PpuMI	RGGWCCY	1 cut(s)	802
PshAI	GACNNNNGTC	1 cut(s)	576
Psp1406I	AACGTT	1 cut(s)	342
Psp5II	RGGWCCY	1 cut(s)	802
PspCI	CACGTG	1 cut(s)	431
PspPI	GGNCC	1 cut(s)	802
PspPPI	RGGWCCY	1 cut(s)	802
RsaI	GTAC	2 cut(s)	370, 626
RsaNI	GTAC	2 cut(s)	369, 625
RseI	CAYNNNNRTG	2 cut(s)	866, 879
SacII	CCGCGG	1 cut(s)	190
SalI	GTCGAC	1 cut(s)	293
SaqAI	TTAA	3 cut(s)	66, 345, 591
SatI	GCNGC	4 cut(s)	187, 190, 199, 619
Sau3AI	GATC	2 cut(s)	742, 784
Sau96I	GGNCC	1 cut(s)	802
ScaI	AGTACT	1 cut(s)	370
SchI	GAGTC	2 cut(s)	116, 802
SduI	GDGCHC	1 cut(s)	711
Sfr303I	CCGCGG	1 cut(s)	190
SfuI	TTCGAA	1 cut(s)	276
SgrBI	CCGCGG	1 cut(s)	190
SinI	GGWCC	1 cut(s)	802
SmiMI	CAYNNNNRTG	2 cut(s)	866, 879
SmlI	CTYRAG	1 cut(s)	143
SmoI	CTYRAG	1 cut(s)	143
SphI	GCATGC	1 cut(s)	871
Sse9I	AATT	3 cut(s)	77, 659, 894
SsiI	CCGC	6 cut(s)	184, 187, 189, 199, 228, 621
SspI	AATATT	1 cut(s)	735
SspMI	CTAG	2 cut(s)	86, 696
StyI	CCWWGG	2 cut(s)	695, 837
TaaI	ACNGT	1 cut(s)	607
TaiI	ACGT	2 cut(s)	345, 433
TaqI	TCGA	2 cut(s)	276, 294
TasI	AATT	3 cut(s)	77, 659, 894
TatI	WGTACW	1 cut(s)	368
TauI	GCSGC	3 cut(s)	189, 192, 201
TfiI	GAWTC	3 cut(s)	60, 550, 556
Tru1I	TTAA	3 cut(s)	66, 345, 591
Tru9I	TTAA	3 cut(s)	66, 345, 591
TscAI	CASTG	2 cut(s)	429, 612
TseI	GCWGC	1 cut(s)	618
TspDTI	ATGAA	5 cut(s)	41, 370, 417, 830, 850
TspGWI	ACGGA	2 cut(s)	297, 459
TspRI	CASTG	2 cut(s)	429, 612
VpaK11BI	GGWCC	1 cut(s)	802
XceI	RCATGY	1 cut(s)	871
XcmI	CCANNNNNNNNNTGG	1 cut(s)	346
XmaJI	CCTAGG	1 cut(s)	695
XmiI	GTMKAC	1 cut(s)	294
XspI	CTAG	2 cut(s)	86, 696
ZrmI	AGTACT	1 cut(s)	370

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