Basic Information

Type: gene

Biological Identity

Species

fragaria_vesca

Chromosome

Fvb4

Orthogroup ID

OG0006793

Physical Location & Seq

Genomic Coordinates Forward (+)

24596477 .. 24599003

Gene Structure 2527 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

FvH4_4g21570.t3

Sequence Viewer

CDS Protein Promoter (2k)

Length: 981 bp

ATGAGTAGCACTAGTGTATTAGCTGCAGGCCTTCCCTGTCATCCAAACCTTAACGCTACTATTTCTTCTCCAACTCCCACTAATACATCGAACACAAAGGATGGAGACAATTTGGTGATGAAGGTTGACGGGTTTAAGTGGCGTTTGGTCATAGCTTACGACGGCACCCGTTATGCAGGATGGCAATATCAGAGTTCACCACCTACCATTCAGCGCTATGTGGAGAAAGCTCTAATGGTAGCAACGCAGCTGGAAAGGAACGATCTTCATTTGGTTGGTGCAAGTAGGACAGATAAGGGTGTGCATGCTTGGGGTCAGGTTGCACACTTTATCACGCCATTCAACTACGACAGAATAGAACGAATTCATGCAGCTCTCAATGGTACTCTTCCAGAGGATATCCGTGTTAGGGAAATTAGCCCGGCTGTGCCTGAGTTTCATGCTCGATTTTCAGCCCAAAGGAAGGTGTACCATTACAGAATATATAATGACACATTCATGGATCCATTTCAGCGTCACAATGCTTACCATAGTGCTCATAAATTGAATCCTGCTGTTATGAGAGAAGCTGCAAAGTATTTTATTGGAAATCATGATTTCTCTGCTTTTGTAAATGCATCCCAGAAGGAGCGAGTGCGGGATCCAGTAAAGGATATATTCCGTTGTGATCTTGTTCAAAAGGGAGCTCTTTTACAGCTTGAAGTTGAAGGCTCGGGATTCTTATATAGACAAGTCCGGAACATGGTTGCTCTGCTACTTCAAATCGGAAGGGAAGCAGTTCCTCCTGACATTGTACCCAAGATATTGGCAACTCGAGATAGAAGGGAGCTTGCTAAATATACCTTGTTAGCTCCACCTCAAGGGCTTTGTCTTATGACAGTCAAGTATAACGAGGACCATCTACAGCTTCCAACTGGTTCTCCTAACACCAGTTTTGGTAGGCATTATACTATAAACTCTTGTAAGCTTCCATTCTACTAA

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

PseudoU_synth_1

Protein Analysis

327

Amino Acids

36.98

Weight (kDa)

9.33

Isoelectric Point (pI)

42.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PseudoU_synth_1	PF01416	12 - 111	1.2e-08	tRNA pseudouridine synthase
PseudoU_synth_1	PF01416	151 - 258	1.8e-26	tRNA pseudouridine synthase

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: OG0006793)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G06950
fragaria_vesca	FvH4_4g21570 FvH4_4g21570 FvH4_4g21570
malus_domestica	MD13G1140300.v1.1 MD16G1135500.v1.1
prunus_persica	Prupe.1G104700_v2.0.a1 Prupe.1G104700_v2.0.a1 Prupe.1G104700_v2.0.a1 Prupe.1G104700_v2.0.a1
pyrus_communis	pycom13g12200 pycom16g11950
rosa_chinensis	RchiOBHm_Chr4g0427681
rosa_laevigata	RLG00000007217
rosa_multiflora	Rmu_sc0003399.1_g000003 Rmu_sc0016038.1_g000001
rosa_roxburghii	Rroxscaffold_5G00369310
rosa_rugosa	Rorug04G0219100 Rorug04G0219200 Rorug04G0219300 Rorug04G0219400
rosa_samantha	Rh4AG275600 Rh4BG281600 Rh4CG297100 Rh4DG279000
rosa_wichuraiana	Rw4G023920

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	164
AccIII	TCCGGA	1 cut(s)	735
AciI	CCGC	1 cut(s)	637
AclWI	GGATC	4 cut(s)	497, 510, 635, 648
AcsI	RAATTY	1 cut(s)	363
AfaI	GTAC	3 cut(s)	385, 470, 795
AfeI	AGCGCT	1 cut(s)	215
AfiI	CCNNNNNNNGG	4 cut(s)	409, 463, 742, 860
AgsI	TTSAA	6 cut(s)	343, 547, 677, 701, 707, 761
AhlI	ACTAGT	1 cut(s)	11
Alw21I	GWGCWC	2 cut(s)	538, 688
Alw26I	GTCTC	1 cut(s)	99
AlwI	GGATC	4 cut(s)	497, 510, 635, 648
Ama87I	CYCGRG	2 cut(s)	712, 813
Aor13HI	TCCGGA	1 cut(s)	735
Aor51HI	AGCGCT	1 cut(s)	215
AoxI	GGCC	1 cut(s)	28
ApeKI	GCWGC	4 cut(s)	23, 247, 371, 569
ApoI	RAATTY	1 cut(s)	363
Asp700I	GAANNNNTTC	2 cut(s)	363, 777
AspLEI	GCGC	1 cut(s)	216
AspS9I	GGNCC	1 cut(s)	895
AsuC2I	CCSGG	1 cut(s)	422
AsuHPI	GGTGA	2 cut(s)	127, 189
AvaI	CYCGRG	2 cut(s)	712, 813
AvaII	GGWCC	1 cut(s)	895
BamHI	GGATCC	2 cut(s)	502, 640
BanI	GGYRCC	1 cut(s)	164
BanII	GRGCYC	1 cut(s)	688
Bbv12I	GWGCWC	2 cut(s)	538, 688
BbvI	GCAGC	4 cut(s)	10, 259, 383, 556
BccI	CCATC	3 cut(s)	95, 174, 906
BceAI	ACGGC	1 cut(s)	178
BcnI	CCSGG	1 cut(s)	422
BcoDI	GTCTC	1 cut(s)	99
BcuI	ACTAGT	1 cut(s)	11
BfaI	CTAG	1 cut(s)	12
BfmI	CTRYAG	2 cut(s)	24, 902
BfoI	RGCGCY	1 cut(s)	217
BisI	GCNGC	4 cut(s)	24, 248, 372, 570
BlsI	GCNGC	4 cut(s)	25, 249, 373, 571
Bme1390I	CCNGG	1 cut(s)	422
Bme18I	GGWCC	1 cut(s)	895
BmeT110I	CYCGRG	2 cut(s)	712, 813
BmgT120I	GGNCC	1 cut(s)	895
BmiI	GGNNCC	3 cut(s)	166, 504, 642
BmrFI	CCNGG	1 cut(s)	422
BmsI	GCATC	1 cut(s)	626
BpuEI	CTTGAG	1 cut(s)	843
BpuMI	CCSGG	1 cut(s)	422
BsaWI	WCCGGW	1 cut(s)	735
BsaXI	ACNNNNNCTCC	2 cut(s)	904, 934
Bsc4I	CCNNNNNNNGG	4 cut(s)	409, 463, 742, 860
Bse1I	ACTGG	3 cut(s)	644, 919, 930
BseAI	TCCGGA	1 cut(s)	735
BseGI	GGATG	4 cut(s)	40, 106, 185, 617
BseLI	CCNNNNNNNGG	4 cut(s)	409, 463, 742, 860
BseMII	CTCAG	1 cut(s)	423
BseNI	ACTGG	3 cut(s)	644, 919, 930
BseXI	GCAGC	4 cut(s)	10, 259, 383, 556
BshFI	GGCC	1 cut(s)	30
BshNI	GGYRCC	1 cut(s)	164
BsiHKAI	GWGCWC	2 cut(s)	538, 688
BsiHKCI	CYCGRG	2 cut(s)	712, 813
BsiSI	CCGG	2 cut(s)	422, 736
BslI	CCNNNNNNNGG	4 cut(s)	409, 463, 742, 860
BsmAI	GTCTC	1 cut(s)	99
BsnI	GGCC	1 cut(s)	30
BsoBI	CYCGRG	2 cut(s)	712, 813
Bsp1286I	GDGCHC	2 cut(s)	538, 688
Bsp13I	TCCGGA	1 cut(s)	735
Bsp143I	GATC	4 cut(s)	262, 502, 640, 667
BspACI	CCGC	1 cut(s)	637
BspANI	GGCC	1 cut(s)	30
BspCNI	CTCAG	1 cut(s)	424
BspEI	TCCGGA	1 cut(s)	735
BspHI	TCATGA	1 cut(s)	592
BspLI	GGNNCC	3 cut(s)	166, 504, 642
BspMAI	CTGCAG	1 cut(s)	28
BspPI	GGATC	4 cut(s)	497, 510, 635, 648
BspT107I	GGYRCC	1 cut(s)	164
BsrI	ACTGG	3 cut(s)	644, 919, 930
BssMI	GATC	4 cut(s)	262, 502, 640, 667
Bst4CI	ACNGT	1 cut(s)	880
Bst6I	CTCTTC	1 cut(s)	393
BstC8I	GCNNGC	3 cut(s)	28, 306, 831
BstDEI	CTNAG	1 cut(s)	432
BstF5I	GGATG	4 cut(s)	40, 106, 185, 617
BstH2I	RGCGCY	1 cut(s)	217
BstHHI	GCGC	1 cut(s)	216
BstKTI	GATC	4 cut(s)	265, 505, 643, 670
BstMAI	GTCTC	1 cut(s)	99
BstMBI	GATC	4 cut(s)	262, 502, 640, 667
BstNSI	RCATGY	1 cut(s)	308
BstSCI	CCNGG	1 cut(s)	420
BstSFI	CTRYAG	2 cut(s)	24, 902
BstV1I	GCAGC	4 cut(s)	10, 259, 383, 556
BstX2I	RGATCY	2 cut(s)	502, 640
BstXI	CCANNNNNNTGG	1 cut(s)	805
BstYI	RGATCY	2 cut(s)	502, 640
BsuRI	GGCC	1 cut(s)	30
BtsCI	GGATG	4 cut(s)	40, 106, 185, 617
Cac8I	GCNNGC	3 cut(s)	28, 306, 831
CciI	TCATGA	1 cut(s)	592
CfoI	GCGC	1 cut(s)	216
Cfr13I	GGNCC	1 cut(s)	895
CseI	GACGC	1 cut(s)	503
Csp6I	GTAC	3 cut(s)	384, 469, 794
CviAII	CATG	6 cut(s)	305, 368, 440, 499, 593, 742
CviQI	GTAC	3 cut(s)	384, 469, 794
DdeI	CTNAG	1 cut(s)	432
DpnI	GATC	4 cut(s)	264, 504, 642, 669
DpnII	GATC	4 cut(s)	262, 502, 640, 667
Eam1104I	CTCTTC	1 cut(s)	393
EarI	CTCTTC	1 cut(s)	393
Ecl136II	GAGCTC	1 cut(s)	686
Eco147I	AGGCCT	1 cut(s)	30
Eco24I	GRGCYC	1 cut(s)	688
Eco32I	GATATC	1 cut(s)	400
Eco47I	GGWCC	1 cut(s)	895
Eco47III	AGCGCT	1 cut(s)	215
Eco53kI	GAGCTC	1 cut(s)	686
Eco88I	CYCGRG	2 cut(s)	712, 813
EcoICRI	GAGCTC	1 cut(s)	686
EcoRI	GAATTC	1 cut(s)	363
EcoRV	GATATC	1 cut(s)	400
EcoT22I	ATGCAT	1 cut(s)	619
EcoT38I	GRGCYC	1 cut(s)	688
FaeI	CATG	6 cut(s)	308, 371, 443, 502, 596, 745
FatI	CATG	6 cut(s)	304, 367, 439, 498, 592, 741
FauI	CCCGC	1 cut(s)	630
Fnu4HI	GCNGC	4 cut(s)	24, 248, 372, 570
FokI	GGATG	4 cut(s)	27, 113, 192, 604
FriOI	GRGCYC	1 cut(s)	688
Fsp4HI	GCNGC	4 cut(s)	24, 248, 372, 570
FspBI	CTAG	1 cut(s)	12
GlaI	GCGC	1 cut(s)	215
GluI	GCNGC	4 cut(s)	24, 248, 372, 570
HaeII	RGCGCY	1 cut(s)	217
HaeIII	GGCC	1 cut(s)	30
HapII	CCGG	2 cut(s)	422, 736
HgaI	GACGC	1 cut(s)	503
HhaI	GCGC	1 cut(s)	216
Hin1II	CATG	6 cut(s)	308, 371, 443, 502, 596, 745
Hin6I	GCGC	1 cut(s)	214
HinP1I	GCGC	1 cut(s)	214
HincII	GTYRAC	1 cut(s)	127
HindII	GTYRAC	1 cut(s)	127
HindIII	AAGCTT	1 cut(s)	965
HinfI	GANTC	2 cut(s)	547, 717
HpaII	CCGG	2 cut(s)	422, 736
HphI	GGTGA	2 cut(s)	127, 189
Hpy166II	GTNNAC	3 cut(s)	127, 197, 469
Hpy188I	TCNGA	2 cut(s)	192, 767
Hpy188III	TCNNGA	6 cut(s)	392, 593, 714, 736, 785, 815
Hpy8I	GTNNAC	3 cut(s)	127, 197, 469
Hpy99I	CGWCG	1 cut(s)	164
HpyAV	CCTTC	7 cut(s)	41, 115, 457, 619, 701, 762, 816
HpyCH4III	ACNGT	1 cut(s)	880
HpyCH4V	TGCA	8 cut(s)	26, 176, 281, 304, 323, 371, 572, 617
HpyF3I	CTNAG	1 cut(s)	432
Hsp92II	CATG	6 cut(s)	308, 371, 443, 502, 596, 745
HspAI	GCGC	1 cut(s)	214
Kpn2I	TCCGGA	1 cut(s)	735
Kzo9I	GATC	4 cut(s)	262, 502, 640, 667
LmnI	GCTCC	4 cut(s)	628, 683, 826, 856
Lsp1109I	GCAGC	4 cut(s)	10, 259, 383, 556
LweI	GCATC	1 cut(s)	626
MaeI	CTAG	1 cut(s)	12
MaeIII	GTNAC	1 cut(s)	515
MalI	GATC	4 cut(s)	264, 504, 642, 669
MboI	GATC	4 cut(s)	262, 502, 640, 667
MboII	GAAGA	3 cut(s)	57, 257, 380
MflI	RGATCY	2 cut(s)	502, 640
MhlI	GDGCHC	2 cut(s)	538, 688
MluCI	AATT	4 cut(s)	109, 363, 414, 542
MmeI	TCCRAC	2 cut(s)	95, 935
MnlI	CCTC	4 cut(s)	388, 792, 867, 886
Mph1103I	ATGCAT	1 cut(s)	619
MroI	TCCGGA	1 cut(s)	735
MroXI	GAANNNNTTC	2 cut(s)	363, 777
MseI	TTAA	2 cut(s)	51, 135
MslI	CAYNNNNRTG	1 cut(s)	497
MspA1I	CMGCKG	1 cut(s)	250
MspI	CCGG	2 cut(s)	422, 736
MspR9I	CCNGG	1 cut(s)	422
NciI	CCSGG	1 cut(s)	422
NdeII	GATC	4 cut(s)	262, 502, 640, 667
NlaIII	CATG	6 cut(s)	308, 371, 443, 502, 596, 745
NlaIV	GGNNCC	3 cut(s)	166, 504, 642
NmuCI	GTSAC	1 cut(s)	515
NsiI	ATGCAT	1 cut(s)	619
NspI	RCATGY	1 cut(s)	308
PaeI	GCATGC	1 cut(s)	308
PaeR7I	CTCGAG	1 cut(s)	813
PagI	TCATGA	1 cut(s)	592
PceI	AGGCCT	1 cut(s)	30
PdmI	GAANNNNTTC	2 cut(s)	363, 777
PfeI	GAWTC	2 cut(s)	547, 717
PkrI	GCNGC	4 cut(s)	25, 249, 373, 571
Psp124BI	GAGCTC	1 cut(s)	688
PspN4I	GGNNCC	3 cut(s)	166, 504, 642
PspPI	GGNCC	1 cut(s)	895
PstI	CTGCAG	1 cut(s)	28
PsuI	RGATCY	2 cut(s)	502, 640
PvuII	CAGCTG	1 cut(s)	250
RsaI	GTAC	3 cut(s)	385, 470, 795
RsaNI	GTAC	3 cut(s)	384, 469, 794
RseI	CAYNNNNRTG	1 cut(s)	497
SacI	GAGCTC	1 cut(s)	688
SaqAI	TTAA	2 cut(s)	51, 135
SatI	GCNGC	4 cut(s)	24, 248, 372, 570
Sau3AI	GATC	4 cut(s)	262, 502, 640, 667
Sau96I	GGNCC	1 cut(s)	895
ScrFI	CCNGG	1 cut(s)	422
SduI	GDGCHC	2 cut(s)	538, 688
SfaNI	GCATC	1 cut(s)	626
SfcI	CTRYAG	2 cut(s)	24, 902
Sfr274I	CTCGAG	1 cut(s)	813
SinI	GGWCC	1 cut(s)	895
SlaI	CTCGAG	1 cut(s)	813
SmiMI	CAYNNNNRTG	1 cut(s)	497
SmlI	CTYRAG	2 cut(s)	813, 858
SmoI	CTYRAG	2 cut(s)	813, 858
SpeI	ACTAGT	1 cut(s)	11
SphI	GCATGC	1 cut(s)	308
Sse9I	AATT	4 cut(s)	109, 363, 414, 542
SseBI	AGGCCT	1 cut(s)	30
SsiI	CCGC	1 cut(s)	637
SspMI	CTAG	1 cut(s)	12
SstI	GAGCTC	1 cut(s)	688
StuI	AGGCCT	1 cut(s)	30
StyD4I	CCNGG	1 cut(s)	420
TaaI	ACNGT	1 cut(s)	880
TaqI	TCGA	3 cut(s)	89, 445, 814
TasI	AATT	4 cut(s)	109, 363, 414, 542
TfiI	GAWTC	2 cut(s)	547, 717
Tru1I	TTAA	2 cut(s)	51, 135
Tru9I	TTAA	2 cut(s)	51, 135
TseFI	GTSAC	1 cut(s)	515
TseI	GCWGC	4 cut(s)	23, 247, 371, 569
Tsp45I	GTSAC	1 cut(s)	515
TspDTI	ATGAA	5 cut(s)	134, 257, 356, 428, 487
TspGWI	ACGGA	2 cut(s)	392, 650
VpaK11BI	GGWCC	1 cut(s)	895
XapI	RAATTY	1 cut(s)	363
XceI	RCATGY	1 cut(s)	308
XhoI	CTCGAG	1 cut(s)	813
XmnI	GAANNNNTTC	2 cut(s)	363, 777
XspI	CTAG	1 cut(s)	12
Zsp2I	ATGCAT	1 cut(s)	619

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