Basic Information

Type: gene

Biological Identity

Species

fragaria_vesca

Chromosome

Fvb1

Orthogroup ID

OG0003237

Physical Location & Seq

Genomic Coordinates Reverse (-)

19152699 .. 19157334

Gene Structure 4636 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

FvH4_1g27480.t1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1257 bp

ATGTCTGTAGCATTAGTCTGGGTGGTTTCCCCCAGCACAAAGGTGTTGAATTGCTTTGGGGTTTTGGATTCCTCAACTTTTGCTTTGGGACATGGAAGAGAAAAGATGGGTAGGAAGCAGAAATGGAGTTCATGCTGTCTGTGTAGTAGTACAGAAGTCAAGTATTCTAGCACTTCTGGCTTACAAAGTGAAACAAAATTCCCCATTTTGTCAAGCATGGTGGCCAACCCTGCCGAAGAAATAGCAGTGTCATCGGAACAGATGGTTTACGATGTGGTGCTGAAGCAGGCAGCCTTGGTGGAGAAGCAGTTGAGGACTAGTGGAGATGATGTTGATGTGAAGCCTGATATTATTCTTCCAGGGAATCTGAGCTTGTTAAGTGAAGCTTATGACAGGTGCAGAGAAGTTTGTGCAGAGTATGCCAAGACTTTTTACCTGGGTACTCTGCTAATGACCCCTGAGAGAAGAAGAGCTATCTGGGCAATATATGTGTGGTGTCGAAGAACTGATGAGCTTGTAGATGGGCCTAATGCTTCACACATAACACCACAAGCTTTAGACAGGTGGGAGTCAAGGTTGGAAGATCTTTTCCAGGGTCGTCCATTCGATATGCTCGATGCTGCTTTGTCAGATACGGTTACCCTTTTTCCTATTGACATTCAGCCATTCAAGGATATGATAGAGGGAATGAGAATGGACCTTAGGAAATCAACATACAGGAGCTTTGATGAACTATACCTCTACTGTTATTATGTTGCTGGGACTGTTGGACTAATGAGTGTTCCAGTTATGGGCATAGCACCTGATTCGCAAGCAACAACAGAATCTGTATATAATGCTGCGTTAGCATTAGGGATTGCAAATCAGCTAACTAACATTCTAAGGGATGTTGGAGAAGATGCAAGGAGGGGACGTATTTATTTACCACAGGATGAGCTTGCACAAGCAGGACTTTCTGATGCTGACATATATGCCGGAAAGGTCACAGATAAATGGAGGAGTTTCATGAAGAGTCAGATTAAGAGAGCAAGGATGTTCTTTGATGAGGCAGAGAAAGGAGTCACCGAGCTCAGTGAAGCCAGCAGATGGCCAGTGTTGGCATCCTTACTTTTGTATCGCCAAATTTTGGATGAGATAGAAGCTAATGACTATAATAACTTCACAAAGAGGGCTTATGTAAGCAAAGCTAAGAAATTACTTGCTTTGCCTATGGCATACACTAAATCCCTGATTCGTTCATCAAGAACACTCAAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko00906 ko01062 ko01100 ko01110 map00906 map01062 map01100 map01110

Pfam Domains

Protein Families

SQS_PSY

Protein Analysis

419

Amino Acids

47.0

Weight (kDa)

5.97

Isoelectric Point (pI)

56.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SQS_PSY	PF00494	139 - 396	4.1e-79	Squalene/phytoene synthase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003237)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G17230 AT5G17230 AT5G17230 AT5G17230
fragaria_vesca	FvH4_1g27480 FvH4_6g38780
malus_domestica	MD09G1146800.v1.1 MD09G1281300.v1.1 MD17G1133400.v1.1
prunus_persica	Prupe.3G013200_v2.0.a1 Prupe.3G013200_v2.0.a1 Prupe.3G178500_v2.0.a1
pyrus_communis	pycom09g06720 pycom09g18890 pycom17g12790
rosa_chinensis	RchiOBHm_Chr2g0152351 RchiOBHm_Chr3g0488531
rosa_laevigata	RLG00000020629 RLG00000022946
rosa_multiflora	Rmu_sc0005885.1_g000002 Rmu_sc0019526.1_g000003
rosa_roxburghii	Rroxscaffold_2G00095770 Rroxscaffold_6G00394200
rosa_rugosa	Rorug02G0432500 Rorug03G0238700 Rorug03G0238800 Rorug03G0238900 Rorug03G0239000
rosa_samantha	Rh2AG494000 Rh2BG506300 Rh2CG480300 Rh2DG517400 Rh3AG287700 Rh3CG321800 Rh3DG320600
rosa_wichuraiana	Rw2G040650 Rw3G025470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	2 cut(s)	1086, 1126
AcoI	YGGCCR	2 cut(s)	222, 1088
AcsI	RAATTY	2 cut(s)	197, 1122
AcuI	CTGAAG	1 cut(s)	302
AfaI	GTAC	2 cut(s)	151, 442
AfiI	CCNNNNNNNGG	3 cut(s)	791, 1086, 1126
AgsI	TTSAA	2 cut(s)	49, 670
AhlI	ACTAGT	1 cut(s)	317
AjnI	CCWGG	3 cut(s)	358, 435, 591
AleI	CACNNNNGTG	1 cut(s)	41
Alw21I	GWGCWC	1 cut(s)	1071
AlwNI	CAGNNNCTG	1 cut(s)	827
AoxI	GGCC	3 cut(s)	222, 524, 1088
ApeKI	GCWGC	3 cut(s)	290, 620, 839
ApoI	RAATTY	2 cut(s)	197, 1122
AspS9I	GGNCC	2 cut(s)	524, 697
AsuHPI	GGTGA	1 cut(s)	1054
AvaII	GGWCC	1 cut(s)	697
AxyI	CCTNAGG	1 cut(s)	701
BaeI	ACNNNNGTAYC	2 cut(s)	1097, 1130
BalI	TGGCCA	2 cut(s)	224, 1090
BanII	GRGCYC	1 cut(s)	1071
Bbv12I	GWGCWC	1 cut(s)	1071
BbvI	GCAGC	3 cut(s)	302, 607, 826
BccI	CCATC	4 cut(s)	100, 256, 515, 1080
BcgI	CGANNNNNNTGC	4 cut(s)	234, 268, 789, 823
BciT130I	CCWGG	3 cut(s)	360, 437, 593
BcuI	ACTAGT	1 cut(s)	317
BfaI	CTAG	2 cut(s)	168, 318
BfmI	CTRYAG	1 cut(s)	6
BglII	AGATCT	1 cut(s)	583
BisI	GCNGC	3 cut(s)	291, 621, 840
BlsI	GCNGC	3 cut(s)	292, 622, 841
Bme1390I	CCNGG	3 cut(s)	360, 437, 593
Bme18I	GGWCC	1 cut(s)	697
BmgT120I	GGNCC	2 cut(s)	524, 697
BmrFI	CCNGG	3 cut(s)	360, 437, 593
BmsI	GCATC	4 cut(s)	607, 889, 949, 1109
BsaJI	CCNNGG	4 cut(s)	294, 359, 436, 592
BsaXI	ACNNNNNCTCC	8 cut(s)	293, 315, 323, 345, 560, 590, 898, 928
Bsc4I	CCNNNNNNNGG	3 cut(s)	791, 1086, 1126
Bse1I	ACTGG	2 cut(s)	785, 1091
Bse21I	CCTNAGG	1 cut(s)	701
BseBI	CCWGG	3 cut(s)	360, 437, 593
BseDI	CCNNGG	4 cut(s)	294, 359, 436, 592
BseGI	GGATG	5 cut(s)	892, 937, 1038, 1100, 1135
BseLI	CCNNNNNNNGG	3 cut(s)	791, 1086, 1126
BseMII	CTCAG	3 cut(s)	359, 450, 1084
BseNI	ACTGG	2 cut(s)	785, 1091
BseRI	GAGGAG	1 cut(s)	1012
BseXI	GCAGC	3 cut(s)	302, 607, 826
BseYI	CCCAGC	2 cut(s)	32, 758
BsgI	GTGCAG	2 cut(s)	418, 432
BshFI	GGCC	3 cut(s)	224, 526, 1090
BsiHKAI	GWGCWC	1 cut(s)	1071
BsiSI	CCGG	1 cut(s)	975
BslFI	GGGAC	3 cut(s)	102, 775, 924
BslI	CCNNNNNNNGG	3 cut(s)	791, 1086, 1126
BsmFI	GGGAC	3 cut(s)	102, 775, 924
BsnI	GGCC	3 cut(s)	224, 526, 1090
Bsp1286I	GDGCHC	1 cut(s)	1071
Bsp143I	GATC	1 cut(s)	583
BspANI	GGCC	3 cut(s)	224, 526, 1090
BspCNI	CTCAG	3 cut(s)	360, 451, 1083
BspHI	TCATGA	1 cut(s)	1005
BspQI	GCTCTTC	1 cut(s)	463
BsrI	ACTGG	2 cut(s)	785, 1091
BssECI	CCNNGG	4 cut(s)	294, 359, 436, 592
BssMI	GATC	1 cut(s)	583
BssT1I	CCWWGG	1 cut(s)	294
Bst2UI	CCWGG	3 cut(s)	360, 437, 593
Bst4CI	ACNGT	3 cut(s)	637, 746, 766
Bst6I	CTCTTC	3 cut(s)	91, 463, 1004
BstAPI	GCANNNNNTGC	1 cut(s)	419
BstC8I	GCNNGC	4 cut(s)	288, 813, 939, 1081
BstDEI	CTNAG	6 cut(s)	368, 459, 701, 881, 1070, 1188
BstEII	GGTNACC	1 cut(s)	637
BstF5I	GGATG	5 cut(s)	892, 937, 1038, 1100, 1135
BstKTI	GATC	1 cut(s)	586
BstMBI	GATC	1 cut(s)	583
BstMWI	GCNNNNNNNGC	5 cut(s)	177, 230, 419, 479, 845
BstNI	CCWGG	3 cut(s)	360, 437, 593
BstPI	GGTNACC	1 cut(s)	637
BstSCI	CCNGG	3 cut(s)	358, 435, 591
BstSFI	CTRYAG	1 cut(s)	6
BstV1I	GCAGC	3 cut(s)	302, 607, 826
BstX2I	RGATCY	1 cut(s)	583
BstYI	RGATCY	1 cut(s)	583
Bsu36I	CCTNAGG	1 cut(s)	701
BsuRI	GGCC	3 cut(s)	224, 526, 1090
BtsCI	GGATG	5 cut(s)	892, 937, 1038, 1100, 1135
BtsI	GCAGTG	1 cut(s)	252
BtsIMutI	CAGTG	3 cut(s)	252, 1078, 1098
Cac8I	GCNNGC	4 cut(s)	288, 813, 939, 1081
CaiI	CAGNNNCTG	1 cut(s)	827
CciI	TCATGA	1 cut(s)	1005
Cfr13I	GGNCC	2 cut(s)	524, 697
Csp6I	GTAC	2 cut(s)	150, 441
CspCI	CAANNNNNGTGG	2 cut(s)	201, 236
CviAII	CATG	4 cut(s)	92, 132, 217, 1006
CviQI	GTAC	2 cut(s)	150, 441
DdeI	CTNAG	6 cut(s)	368, 459, 701, 881, 1070, 1188
DpnI	GATC	1 cut(s)	585
DpnII	GATC	1 cut(s)	583
EaeI	YGGCCR	2 cut(s)	222, 1088
Eam1104I	CTCTTC	3 cut(s)	91, 463, 1004
EarI	CTCTTC	3 cut(s)	91, 463, 1004
Ecl136II	GAGCTC	1 cut(s)	1069
Eco130I	CCWWGG	1 cut(s)	294
Eco24I	GRGCYC	1 cut(s)	1071
Eco47I	GGWCC	1 cut(s)	697
Eco53kI	GAGCTC	1 cut(s)	1069
Eco57I	CTGAAG	1 cut(s)	302
Eco81I	CCTNAGG	1 cut(s)	701
Eco91I	GGTNACC	1 cut(s)	637
EcoICRI	GAGCTC	1 cut(s)	1069
EcoO65I	GGTNACC	1 cut(s)	637
EcoRII	CCWGG	3 cut(s)	358, 435, 591
EcoT14I	CCWWGG	1 cut(s)	294
EcoT38I	GRGCYC	1 cut(s)	1071
ErhI	CCWWGG	1 cut(s)	294
FaeI	CATG	4 cut(s)	95, 135, 220, 1009
FalI	AAGNNNNNCTT	4 cut(s)	370, 402, 936, 968
FaqI	GGGAC	3 cut(s)	102, 775, 924
FatI	CATG	4 cut(s)	91, 131, 216, 1005
Fnu4HI	GCNGC	3 cut(s)	291, 621, 840
FokI	GGATG	5 cut(s)	899, 944, 1045, 1087, 1142
FriOI	GRGCYC	1 cut(s)	1071
Fsp4HI	GCNGC	3 cut(s)	291, 621, 840
FspBI	CTAG	2 cut(s)	168, 318
GluI	GCNGC	3 cut(s)	291, 621, 840
GsaI	CCCAGC	2 cut(s)	36, 762
HaeIII	GGCC	3 cut(s)	224, 526, 1090
HapII	CCGG	1 cut(s)	975
Hin1II	CATG	4 cut(s)	95, 135, 220, 1009
HindIII	AAGCTT	2 cut(s)	384, 552
HinfI	GANTC	8 cut(s)	68, 364, 569, 806, 824, 1012, 1059, 1231
HpaII	CCGG	1 cut(s)	975
HphI	GGTGA	1 cut(s)	1054
Hpy166II	GTNNAC	1 cut(s)	268
Hpy188I	TCNGA	5 cut(s)	256, 369, 631, 958, 1017
Hpy188III	TCNNGA	2 cut(s)	1006, 1242
Hpy8I	GTNNAC	1 cut(s)	268
HpyCH4III	ACNGT	3 cut(s)	637, 746, 766
HpyCH4IV	ACGT	1 cut(s)	913
HpyCH4V	TGCA	5 cut(s)	399, 413, 860, 902, 941
HpyF10VI	GCNNNNNNNGC	5 cut(s)	177, 230, 419, 479, 845
HpyF3I	CTNAG	6 cut(s)	368, 459, 701, 881, 1070, 1188
HpySE526I	ACGT	1 cut(s)	913
Hsp92II	CATG	4 cut(s)	95, 135, 220, 1009
Kzo9I	GATC	1 cut(s)	583
LguI	GCTCTTC	1 cut(s)	463
LmnI	GCTCC	1 cut(s)	720
Lsp1109I	GCAGC	3 cut(s)	302, 607, 826
LweI	GCATC	4 cut(s)	607, 889, 949, 1109
MaeI	CTAG	2 cut(s)	168, 318
MaeII	ACGT	1 cut(s)	913
MaeIII	GTNAC	3 cut(s)	637, 982, 1060
MalI	GATC	1 cut(s)	585
MboI	GATC	1 cut(s)	583
MboII	GAAGA	9 cut(s)	108, 248, 347, 477, 480, 513, 593, 908, 1021
MflI	RGATCY	1 cut(s)	583
MhlI	GDGCHC	1 cut(s)	1071
MlsI	TGGCCA	2 cut(s)	224, 1090
MluCI	AATT	4 cut(s)	49, 197, 1122, 1193
MluNI	TGGCCA	2 cut(s)	224, 1090
MlyI	GAGTC	3 cut(s)	578, 1021, 1068
MmeI	TCCRAC	3 cut(s)	558, 748, 871
MnlI	CCTC	8 cut(s)	82, 306, 676, 749, 900, 990, 1039, 1161
Mox20I	TGGCCA	2 cut(s)	224, 1090
MscI	TGGCCA	2 cut(s)	224, 1090
MseI	TTAA	2 cut(s)	377, 1020
MslI	CAYNNNNRTG	1 cut(s)	41
Msp20I	TGGCCA	2 cut(s)	224, 1090
MspI	CCGG	1 cut(s)	975
MspR9I	CCNGG	3 cut(s)	360, 437, 593
MvaI	CCWGG	3 cut(s)	360, 437, 593
MwoI	GCNNNNNNNGC	5 cut(s)	177, 230, 419, 479, 845
NdeII	GATC	1 cut(s)	583
NlaIII	CATG	4 cut(s)	95, 135, 220, 1009
NmuCI	GTSAC	2 cut(s)	982, 1060
OliI	CACNNNNGTG	1 cut(s)	41
PagI	TCATGA	1 cut(s)	1005
PciSI	GCTCTTC	1 cut(s)	463
PcsI	WCGNNNNNNNCGW	1 cut(s)	612
PfeI	GAWTC	5 cut(s)	68, 364, 806, 824, 1231
PflMI	CCANNNNNTGG	2 cut(s)	1086, 1126
PkrI	GCNGC	3 cut(s)	292, 622, 841
PleI	GAGTC	3 cut(s)	577, 1020, 1067
PpsI	GAGTC	3 cut(s)	577, 1020, 1067
Psp124BI	GAGCTC	1 cut(s)	1071
Psp6I	CCWGG	3 cut(s)	358, 435, 591
PspEI	GGTNACC	1 cut(s)	637
PspFI	CCCAGC	2 cut(s)	32, 758
PspGI	CCWGG	3 cut(s)	358, 435, 591
PspPI	GGNCC	2 cut(s)	524, 697
PstNI	CAGNNNCTG	1 cut(s)	827
PsuI	RGATCY	1 cut(s)	583
RsaI	GTAC	2 cut(s)	151, 442
RsaNI	GTAC	2 cut(s)	150, 441
RseI	CAYNNNNRTG	1 cut(s)	41
SacI	GAGCTC	1 cut(s)	1071
SapI	GCTCTTC	1 cut(s)	463
SaqAI	TTAA	2 cut(s)	377, 1020
SatI	GCNGC	3 cut(s)	291, 621, 840
Sau3AI	GATC	1 cut(s)	583
Sau96I	GGNCC	2 cut(s)	524, 697
SchI	GAGTC	3 cut(s)	578, 1021, 1068
ScrFI	CCNGG	3 cut(s)	360, 437, 593
SduI	GDGCHC	1 cut(s)	1071
SfaNI	GCATC	4 cut(s)	607, 889, 949, 1109
SfcI	CTRYAG	1 cut(s)	6
SinI	GGWCC	1 cut(s)	697
SmiMI	CAYNNNNRTG	1 cut(s)	41
SpeI	ACTAGT	1 cut(s)	317
Sse9I	AATT	4 cut(s)	49, 197, 1122, 1193
SspMI	CTAG	2 cut(s)	168, 318
SstI	GAGCTC	1 cut(s)	1071
StyD4I	CCNGG	3 cut(s)	358, 435, 591
StyI	CCWWGG	1 cut(s)	294
TaaI	ACNGT	3 cut(s)	637, 746, 766
TaiI	ACGT	1 cut(s)	916
TaqI	TCGA	3 cut(s)	499, 606, 615
TasI	AATT	4 cut(s)	49, 197, 1122, 1193
TatI	WGTACW	1 cut(s)	149
TfiI	GAWTC	5 cut(s)	68, 364, 806, 824, 1231
Tru1I	TTAA	2 cut(s)	377, 1020
Tru9I	TTAA	2 cut(s)	377, 1020
TscAI	CASTG	3 cut(s)	252, 1078, 1098
TseFI	GTSAC	2 cut(s)	982, 1060
TseI	GCWGC	3 cut(s)	290, 620, 839
Tsp45I	GTSAC	2 cut(s)	982, 1060
TspDTI	ATGAA	5 cut(s)	120, 744, 994, 1022, 1227
TspRI	CASTG	3 cut(s)	252, 1078, 1098
Van91I	CCANNNNNTGG	2 cut(s)	1086, 1126
VpaK11BI	GGWCC	1 cut(s)	697
XapI	RAATTY	2 cut(s)	197, 1122
XspI	CTAG	2 cut(s)	168, 318

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