Basic Information

Type: gene

Biological Identity

Species

fragaria_vesca

Chromosome

Fvb3

Orthogroup ID

OG0008054

Physical Location & Seq

Genomic Coordinates Forward (+)

7197637 .. 7201347

Gene Structure 3711 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

FvH4_3g12140.t2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 897 bp

ATGGGCGGGAGGAATCTGGTGCATGACTGTGGTCTTACTCGGTCTATTGGCTATTTCTTGGAGCCTTTGATTGTGCTTGGTCTCTTTGCTAAAAAACCTATTTCCATTAAACTTAAAGGAATTACAAATGATTCAAAGGATCCATCTGTTGATACCTTTCGGTCCACTACCTTTCCCATGTTAAAACGCTTTGGAGTTCCTTCAGAAGGGTTGGAGCTAAAAATAGAGAATCGTGGATCTCCTCCTCTGGGAGGTGGTGAAGTGTTTTTGGCAATTCCGGTTGTGCAAAGTCTCACTGCAGTAAAGTGGACTGATGAGGGGATGGTTAAGAGGATCAGAGGGGTTACATTCTCAACAAGAGTGTCTTCACAGTTTGAAAATACCATGGTTTTTGCTGCTCGTGGAATCTTTAATTCCTTCCTTCCTGATGTTCACATATTCACTGACCACAGAGCTGGTGTACATGCTGGAAATTCACCTGGTTATGGAATTTCACTGGTTGCGGAAACAACTTCTGGTTGCTATCTCTCTGCTGATACAGCAATTTCTTATACACATGAGGAAGAAACAGCTGGACTTGAAGATGAAAAGAAAGAGCTGATGCCTCCAGATGAAGTTGGCGTACAAATTGCTTCTGTTTTGCTTGGGGAGATTGAGCAGGGTGGAGTGGTAGATTCAACACACCAGGGTTTGTTGTTTCTTCTTTGTGCATTATGTCCACCTGATGTTTCAAAAGTTCGGGTCGGAAAGCTCTCTCCTTATGGAATAGAAACACTACGACACATCAAAGATTTTCTTGGAGTTCAATTTGTGATTACAGCTGACCCAACCACGGGTACTGTTATGCTCAAGTGTATTGGCTGTGGGCTTAAGAACCTATCTAGAAAGGTTTCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000469 GO:0000478 GO:0000479 GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004540 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0016787 GO:0016788 GO:0022613 GO:0031974 GO:0031981 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0140098 GO:1901360

KEGG Pathways

Metabolic & Signaling

ko03008 map03008

Pfam Domains

Protein Families

RTC RTC_insert

Protein Analysis

299

Amino Acids

32.13

Weight (kDa)

6.39

Isoelectric Point (pI)

33.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RTC	PF01137	10 - 351	1.5e-59	RNA 3'-terminal phosphate cyclase
RTC_insert	PF05189	183 - 298	9.2e-27	RNA 3'-terminal phosphate cyclase (RTC), insert 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: OG0008054)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G22100
fragaria_vesca	FvH4_3g12140 FvH4_3g12140 FvH4_3g12140 FvH4_3g12140 FvH4_3g12140 FvH4_3g12140
malus_domestica	MD05G1254500.v1.1 MD10G1234700.v1.1
prunus_persica	Prupe.4G110100_v2.0.a1
pyrus_communis	pycom05g23230 pycom10g19650
rosa_chinensis	RchiOBHm_Chr5g0019871
rosa_laevigata	RLG00000032480
rosa_multiflora	Rmu_sc0000344.1_g000019 Rmu_sc0001319.1_g000005
rosa_roxburghii	Rroxscaffold_1G00058300
rosa_rugosa	Rorug05G0054600.1 Rorug05G0054700
rosa_samantha	Rh5AG144800 Rh5BG144000 Rh5CG155700 Rh5DG143700
rosa_wichuraiana	Rw5G012790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	6, 503
AclWI	GGATC	4 cut(s)	134, 147, 244, 341
AcsI	RAATTY	2 cut(s)	472, 489
AcuI	CTGAAG	1 cut(s)	186
AfaI	GTAC	3 cut(s)	462, 624, 838
AfiI	CCNNNNNNNGG	6 cut(s)	206, 248, 251, 485, 832, 833
AflII	CTTAAG	1 cut(s)	869
AgsI	TTSAA	6 cut(s)	135, 377, 581, 678, 732, 806
AjnI	CCWGG	2 cut(s)	478, 684
AluBI	AGCT	6 cut(s)	217, 455, 572, 598, 751, 821
AluI	AGCT	6 cut(s)	217, 455, 572, 598, 751, 821
Alw26I	GTCTC	2 cut(s)	86, 296
AlwI	GGATC	4 cut(s)	134, 147, 244, 341
ApeKI	GCWGC	1 cut(s)	395
ApoI	RAATTY	2 cut(s)	472, 489
Asp700I	GAANNNNTTC	1 cut(s)	889
AspS9I	GGNCC	1 cut(s)	162
AsuHPI	GGTGA	2 cut(s)	269, 468
AvaII	GGWCC	1 cut(s)	162
BamHI	GGATCC	1 cut(s)	139
BarI	GAAGNNNNNNTAC	2 cut(s)	606, 638
BauI	CACGAG	1 cut(s)	399
BbsI	GAAGAC	1 cut(s)	357
BbvI	GCAGC	1 cut(s)	382
BccI	CCATC	2 cut(s)	151, 316
BciT130I	CCWGG	2 cut(s)	480, 686
BcoDI	GTCTC	2 cut(s)	86, 296
BfaI	CTAG	1 cut(s)	882
BfmI	CTRYAG	1 cut(s)	297
BfrI	CTTAAG	1 cut(s)	869
BisI	GCNGC	1 cut(s)	396
BlsI	GCNGC	1 cut(s)	397
Bme1390I	CCNGG	2 cut(s)	480, 686
Bme18I	GGWCC	1 cut(s)	162
BmgT120I	GGNCC	1 cut(s)	162
BmiI	GGNNCC	2 cut(s)	63, 141
BmrFI	CCNGG	2 cut(s)	480, 686
BmsI	GCATC	1 cut(s)	591
BoxI	GACNNNNGTC	1 cut(s)	30
BpiI	GAAGAC	1 cut(s)	357
BpmI	CTGGAG	1 cut(s)	591
BpuEI	CTTGAG	1 cut(s)	833
BsaI	GGTCTC	1 cut(s)	86
BsaJI	CCNNGG	3 cut(s)	384, 685, 831
BsaWI	WCCGGW	1 cut(s)	277
Bsc4I	CCNNNNNNNGG	6 cut(s)	206, 248, 251, 485, 832, 833
Bse1I	ACTGG	1 cut(s)	501
BseBI	CCWGG	2 cut(s)	480, 686
BseDI	CCNNGG	3 cut(s)	384, 685, 831
BseGI	GGATG	1 cut(s)	327
BseLI	CCNNNNNNNGG	6 cut(s)	206, 248, 251, 485, 832, 833
BseNI	ACTGG	1 cut(s)	501
BseRI	GAGGAG	2 cut(s)	231, 234
BseXI	GCAGC	1 cut(s)	382
BsiSI	CCGG	1 cut(s)	278
BslI	CCNNNNNNNGG	6 cut(s)	206, 248, 251, 485, 832, 833
BsmAI	GTCTC	2 cut(s)	86, 296
Bso31I	GGTCTC	1 cut(s)	86
Bsp1407I	TGTACA	1 cut(s)	460
Bsp143I	GATC	3 cut(s)	139, 236, 333
Bsp19I	CCATGG	1 cut(s)	384
BspACI	CCGC	2 cut(s)	6, 503
BspHI	TCATGA	1 cut(s)	893
BspLI	GGNNCC	2 cut(s)	63, 141
BspMAI	CTGCAG	1 cut(s)	301
BspPI	GGATC	4 cut(s)	134, 147, 244, 341
BspTI	CTTAAG	1 cut(s)	869
BspTNI	GGTCTC	1 cut(s)	86
BsrGI	TGTACA	1 cut(s)	460
BsrI	ACTGG	1 cut(s)	501
BssECI	CCNNGG	3 cut(s)	384, 685, 831
BssMI	GATC	3 cut(s)	139, 236, 333
BssSI	CACGAG	1 cut(s)	399
BssT1I	CCWWGG	1 cut(s)	384
Bst2BI	CACGAG	1 cut(s)	399
Bst2UI	CCWGG	2 cut(s)	480, 686
Bst4CI	ACNGT	3 cut(s)	29, 372, 841
BstAFI	CTTAAG	1 cut(s)	869
BstAUI	TGTACA	1 cut(s)	460
BstDSI	CCRYGG	2 cut(s)	384, 831
BstENI	CCTNNNNNAGG	2 cut(s)	204, 249
BstF5I	GGATG	1 cut(s)	327
BstKTI	GATC	3 cut(s)	142, 239, 336
BstMAI	GTCTC	2 cut(s)	86, 296
BstMBI	GATC	3 cut(s)	139, 236, 333
BstMWI	GCNNNNNNNGC	1 cut(s)	539
BstNI	CCWGG	2 cut(s)	480, 686
BstNSI	RCATGY	1 cut(s)	467
BstPAI	GACNNNNGTC	1 cut(s)	30
BstSCI	CCNGG	2 cut(s)	478, 684
BstSFI	CTRYAG	1 cut(s)	297
BstV1I	GCAGC	1 cut(s)	382
BstV2I	GAAGAC	1 cut(s)	357
BstX2I	RGATCY	2 cut(s)	139, 236
BstXI	CCANNNNNNTGG	1 cut(s)	455
BstYI	RGATCY	2 cut(s)	139, 236
BtgI	CCRYGG	2 cut(s)	384, 831
BtsCI	GGATG	1 cut(s)	327
BtsI	GCAGTG	1 cut(s)	294
BtsIMutI	CAGTG	3 cut(s)	294, 441, 494
CciI	TCATGA	1 cut(s)	893
Cfr13I	GGNCC	1 cut(s)	162
CsiI	ACCWGGT	1 cut(s)	478
Csp6I	GTAC	3 cut(s)	461, 623, 837
CviAII	CATG	6 cut(s)	23, 178, 385, 464, 557, 894
CviQI	GTAC	3 cut(s)	461, 623, 837
DpnI	GATC	3 cut(s)	141, 238, 335
DpnII	GATC	3 cut(s)	139, 236, 333
Eco130I	CCWWGG	1 cut(s)	384
Eco31I	GGTCTC	1 cut(s)	86
Eco47I	GGWCC	1 cut(s)	162
Eco57I	CTGAAG	1 cut(s)	186
EcoNI	CCTNNNNNAGG	2 cut(s)	204, 249
EcoRII	CCWGG	2 cut(s)	478, 684
EcoT14I	CCWWGG	1 cut(s)	384
ErhI	CCWWGG	1 cut(s)	384
FaeI	CATG	6 cut(s)	26, 181, 388, 467, 560, 897
FalI	AAGNNNNNCTT	4 cut(s)	349, 381, 780, 812
FatI	CATG	6 cut(s)	22, 177, 384, 463, 556, 893
Fnu4HI	GCNGC	1 cut(s)	396
FokI	GGATG	1 cut(s)	334
Fsp4HI	GCNGC	1 cut(s)	396
FspBI	CTAG	1 cut(s)	882
GluI	GCNGC	1 cut(s)	396
GsuI	CTGGAG	1 cut(s)	591
HapII	CCGG	1 cut(s)	278
Hin1II	CATG	6 cut(s)	26, 181, 388, 467, 560, 897
HinfI	GANTC	5 cut(s)	13, 131, 229, 405, 674
HpaII	CCGG	1 cut(s)	278
HphI	GGTGA	2 cut(s)	269, 468
Hpy166II	GTNNAC	5 cut(s)	165, 309, 433, 461, 719
Hpy188I	TCNGA	3 cut(s)	205, 338, 746
Hpy188III	TCNNGA	4 cut(s)	425, 608, 882, 894
Hpy8I	GTNNAC	5 cut(s)	165, 309, 433, 461, 719
HpyAV	CCTTC	4 cut(s)	200, 210, 427, 431
HpyCH4III	ACNGT	3 cut(s)	29, 372, 841
HpyCH4V	TGCA	4 cut(s)	22, 286, 299, 710
HpyF10VI	GCNNNNNNNGC	1 cut(s)	539
Hsp92II	CATG	6 cut(s)	26, 181, 388, 467, 560, 897
Kzo9I	GATC	3 cut(s)	139, 236, 333
LmnI	GCTCC	2 cut(s)	61, 214
Lsp1109I	GCAGC	1 cut(s)	382
LweI	GCATC	1 cut(s)	591
MabI	ACCWGGT	1 cut(s)	478
MaeI	CTAG	1 cut(s)	882
MaeIII	GTNAC	1 cut(s)	343
MalI	GATC	3 cut(s)	141, 238, 335
MboI	GATC	3 cut(s)	139, 236, 333
MboII	GAAGA	4 cut(s)	357, 575, 593, 692
MflI	RGATCY	2 cut(s)	139, 236
MluCI	AATT	8 cut(s)	120, 273, 412, 472, 489, 543, 627, 806
MmeI	TCCRAC	2 cut(s)	192, 724
MnlI	CCTC	9 cut(s)	3, 245, 252, 255, 310, 324, 332, 553, 615
MroXI	GAANNNNTTC	1 cut(s)	889
MseI	TTAA	6 cut(s)	108, 114, 182, 327, 411, 870
MslI	CAYNNNNRTG	1 cut(s)	27
MspA1I	CMGCKG	2 cut(s)	572, 821
MspCI	CTTAAG	1 cut(s)	869
MspI	CCGG	1 cut(s)	278
MspR9I	CCNGG	2 cut(s)	480, 686
MvaI	CCWGG	2 cut(s)	480, 686
MwoI	GCNNNNNNNGC	1 cut(s)	539
NcoI	CCATGG	1 cut(s)	384
NdeII	GATC	3 cut(s)	139, 236, 333
NlaIII	CATG	6 cut(s)	26, 181, 388, 467, 560, 897
NlaIV	GGNNCC	2 cut(s)	63, 141
NspI	RCATGY	1 cut(s)	467
PagI	TCATGA	1 cut(s)	893
PdmI	GAANNNNTTC	1 cut(s)	889
PfeI	GAWTC	5 cut(s)	13, 131, 229, 405, 674
PkrI	GCNGC	1 cut(s)	397
PshAI	GACNNNNGTC	1 cut(s)	30
Psp6I	CCWGG	2 cut(s)	478, 684
PspGI	CCWGG	2 cut(s)	478, 684
PspN4I	GGNNCC	2 cut(s)	63, 141
PspPI	GGNCC	1 cut(s)	162
PstI	CTGCAG	1 cut(s)	301
PsuI	RGATCY	2 cut(s)	139, 236
PvuII	CAGCTG	2 cut(s)	572, 821
RsaI	GTAC	3 cut(s)	462, 624, 838
RsaNI	GTAC	3 cut(s)	461, 623, 837
RseI	CAYNNNNRTG	1 cut(s)	27
SaqAI	TTAA	6 cut(s)	108, 114, 182, 327, 411, 870
SatI	GCNGC	1 cut(s)	396
Sau3AI	GATC	3 cut(s)	139, 236, 333
Sau96I	GGNCC	1 cut(s)	162
ScrFI	CCNGG	2 cut(s)	480, 686
SexAI	ACCWGGT	1 cut(s)	478
SfaNI	GCATC	1 cut(s)	591
SfcI	CTRYAG	1 cut(s)	297
SinI	GGWCC	1 cut(s)	162
SmiMI	CAYNNNNRTG	1 cut(s)	27
SmlI	CTYRAG	2 cut(s)	848, 869
SmoI	CTYRAG	2 cut(s)	848, 869
Sse9I	AATT	8 cut(s)	120, 273, 412, 472, 489, 543, 627, 806
SsiI	CCGC	2 cut(s)	6, 503
SspMI	CTAG	1 cut(s)	882
StyD4I	CCNGG	2 cut(s)	478, 684
StyI	CCWWGG	1 cut(s)	384
TaaI	ACNGT	3 cut(s)	29, 372, 841
TaqII	GACCGA	2 cut(s)	30, 150
TasI	AATT	8 cut(s)	120, 273, 412, 472, 489, 543, 627, 806
TatI	WGTACW	1 cut(s)	460
TfiI	GAWTC	5 cut(s)	13, 131, 229, 405, 674
Tru1I	TTAA	6 cut(s)	108, 114, 182, 327, 411, 870
Tru9I	TTAA	6 cut(s)	108, 114, 182, 327, 411, 870
TscAI	CASTG	3 cut(s)	301, 448, 501
TseI	GCWGC	1 cut(s)	395
TspDTI	ATGAA	3 cut(s)	600, 627, 882
TspRI	CASTG	3 cut(s)	301, 448, 501
Vha464I	CTTAAG	1 cut(s)	869
VpaK11BI	GGWCC	1 cut(s)	162
XagI	CCTNNNNNAGG	2 cut(s)	204, 249
XapI	RAATTY	2 cut(s)	472, 489
XbaI	TCTAGA	1 cut(s)	881
XceI	RCATGY	1 cut(s)	467
XmnI	GAANNNNTTC	1 cut(s)	889
XspI	CTAG	1 cut(s)	882

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