Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0002039

Physical Location & Seq

Genomic Coordinates Forward (+)

2886736 .. 2887062

Gene Structure 327 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG039600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 327 bp

ATGCTCGAACTTTTGGAGGCCTCAAACTTAGCTTTAGAAGGTGAAAACATCCTAGATGAGGCTAAAGCTTTCTTAATGGTCACTCTCAGAGATACCAATACCATGTGTGATGATATAAACCGTTGCATTTCCAAGCATGTGGCCTATGCCTTGAAGCTTTCATCACAAAGGAGAGTCCAGTGGTTTAATGTGAAATGGCATATCAAAGCCTACGGGGAAGACAATACGAAGCAAGTCAACATGACCACTTTACTTGAACTAGCTAAACTTAACTTCAACATGGTTCAAGCCACACTCCAAAAAGATCTAAGGGAAGCATCCAAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0006629 GO:0006720 GO:0008150 GO:0008152 GO:0008299 GO:0008610 GO:0009058 GO:0009987 GO:0010333 GO:0010334 GO:0016829 GO:0016835 GO:0016838 GO:0042214 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0046246 GO:0051761 GO:0051762 GO:0071704 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00909 ko01110 map00909 map01110

Pfam Domains

Protein Families

Terpene_synth Terpene_synth_C

Protein Analysis

108

Amino Acids

12.45

Weight (kDa)

6.72

Isoelectric Point (pI)

32.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Terpene_synth	PF01397	1 - 51	6.5e-06	Terpene synthase, N-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0002039)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g03000
malus_domestica	MD10G1311000.v1.1
prunus_persica	Prupe.4G029900_v2.0.a1 Prupe.4G125200_v2.0.a1 Prupe.4G125300_v2.0.a1 Prupe.4G125300_v2.0.a1 Prupe.4G125500_v2.0.a1 Prupe.4G126400_v2.0.a1 Prupe.4G126600_v2.0.a1 Prupe.4G126600_v2.0.a1
pyrus_communis	pycom10g26190
rosa_chinensis	RchiOBHm_Chr1g0331201 RchiOBHm_Chr1g0331211 RchiOBHm_Chr5g0004591 RchiOBHm_Chr5g0004631 RchiOBHm_Chr5g0029171 RchiOBHm_Chr5g0029181 RchiOBHm_Chr5g0029221 RchiOBHm_Chr5g0029231
rosa_laevigata	RLG00000031243 RLG00000031247 RLG00000031248
rosa_multiflora	Rmu_sc0003758.1_g000015 Rmu_sc0005711.1_g000009 Rmu_sc0012347.1_g000002
rosa_roxburghii	Rroxscaffold_1G00070900 Rroxscaffold_1G00070960
rosa_rugosa	Rorug04G0412300 Rorug04G0412700 Rorug04G0412800 Rorug04G0412900 Rorug04G0413000
rosa_samantha	Rh1AG116200 Rh1DG120600 Rh5AG040400 Rh5BG039900 Rh5CG043700 Rh5CG044200 Rh5CG224800 Rh5DG039500 Rh5DG039600 Rh5DG040200
rosa_wichuraiana	Rw1G009340 Rw5G003880 Rw5G003920

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AfiI	CCNNNNNNNGG	1 cut(s)	58
AgsI	TTSAA	4 cut(s)	154, 257, 277, 287
AluBI	AGCT	4 cut(s)	32, 68, 157, 263
AluI	AGCT	4 cut(s)	32, 68, 157, 263
AoxI	GGCC	2 cut(s)	18, 141
AsuHPI	GGTGA	1 cut(s)	53
BbsI	GAAGAC	1 cut(s)	225
BfaI	CTAG	2 cut(s)	53, 260
BglII	AGATCT	1 cut(s)	304
BpiI	GAAGAC	1 cut(s)	225
Bsc4I	CCNNNNNNNGG	1 cut(s)	58
Bse1I	ACTGG	1 cut(s)	178
BseGI	GGATG	2 cut(s)	48, 317
BseLI	CCNNNNNNNGG	1 cut(s)	58
BseMII	CTCAG	1 cut(s)	100
BseNI	ACTGG	1 cut(s)	178
BshFI	GGCC	2 cut(s)	20, 143
BslI	CCNNNNNNNGG	1 cut(s)	58
BsnI	GGCC	2 cut(s)	20, 143
Bsp143I	GATC	1 cut(s)	304
BspANI	GGCC	2 cut(s)	20, 143
BspCNI	CTCAG	1 cut(s)	99
BsrI	ACTGG	1 cut(s)	178
BssMI	GATC	1 cut(s)	304
Bst4CI	ACNGT	1 cut(s)	122
BstDEI	CTNAG	3 cut(s)	28, 86, 308
BstENI	CCTNNNNNAGG	1 cut(s)	56
BstF5I	GGATG	2 cut(s)	48, 317
BstKTI	GATC	1 cut(s)	307
BstMBI	GATC	1 cut(s)	304
BstNSI	RCATGY	1 cut(s)	140
BstV2I	GAAGAC	1 cut(s)	225
BstX2I	RGATCY	1 cut(s)	304
BstXI	CCANNNNNNTGG	1 cut(s)	139
BstYI	RGATCY	1 cut(s)	304
BsuRI	GGCC	2 cut(s)	20, 143
BtsCI	GGATG	2 cut(s)	48, 317
BtsIMutI	CAGTG	1 cut(s)	185
CspCI	CAANNNNNGTGG	2 cut(s)	235, 270
CviAII	CATG	4 cut(s)	103, 137, 241, 280
CviJI	RGCY	9 cut(s)	20, 32, 62, 68, 143, 157, 209, 263, 290
CviKI_1	RGCY	9 cut(s)	20, 32, 62, 68, 143, 157, 209, 263, 290
DdeI	CTNAG	3 cut(s)	28, 86, 308
DpnI	GATC	1 cut(s)	306
DpnII	GATC	1 cut(s)	304
Eco147I	AGGCCT	1 cut(s)	20
EcoNI	CCTNNNNNAGG	1 cut(s)	56
FaeI	CATG	4 cut(s)	106, 140, 244, 283
FaiI	YATR	7 cut(s)	104, 116, 138, 147, 201, 242, 281
FatI	CATG	4 cut(s)	102, 136, 240, 279
FokI	GGATG	2 cut(s)	35, 304
FspBI	CTAG	2 cut(s)	53, 260
HaeIII	GGCC	2 cut(s)	20, 143
Hin1II	CATG	4 cut(s)	106, 140, 244, 283
HincII	GTYRAC	1 cut(s)	238
HindII	GTYRAC	1 cut(s)	238
HindIII	AAGCTT	2 cut(s)	66, 155
HinfI	GANTC	1 cut(s)	174
HphI	GGTGA	1 cut(s)	53
Hpy166II	GTNNAC	1 cut(s)	238
Hpy188I	TCNGA	1 cut(s)	89
Hpy8I	GTNNAC	1 cut(s)	238
HpyAV	CCTTC	1 cut(s)	32
HpyCH4III	ACNGT	1 cut(s)	122
HpyCH4V	TGCA	1 cut(s)	126
HpyF3I	CTNAG	3 cut(s)	28, 86, 308
Hsp92II	CATG	4 cut(s)	106, 140, 244, 283
Kzo9I	GATC	1 cut(s)	304
LpnPI	CCDG	1 cut(s)	191
MaeI	CTAG	2 cut(s)	53, 260
MaeIII	GTNAC	1 cut(s)	79
MalI	GATC	1 cut(s)	306
MboI	GATC	1 cut(s)	304
MboII	GAAGA	1 cut(s)	230
MflI	RGATCY	1 cut(s)	304
MlyI	GAGTC	1 cut(s)	183
MnlI	CCTC	3 cut(s)	10, 31, 52
MseI	TTAA	3 cut(s)	74, 186, 270
NdeII	GATC	1 cut(s)	304
NlaIII	CATG	4 cut(s)	106, 140, 244, 283
NmuCI	GTSAC	1 cut(s)	79
NspI	RCATGY	1 cut(s)	140
PceI	AGGCCT	1 cut(s)	20
PleI	GAGTC	1 cut(s)	182
PpsI	GAGTC	1 cut(s)	182
PsuI	RGATCY	1 cut(s)	304
SaqAI	TTAA	3 cut(s)	74, 186, 270
Sau3AI	GATC	1 cut(s)	304
SchI	GAGTC	1 cut(s)	183
SetI	ASST	5 cut(s)	34, 43, 70, 159, 265
SseBI	AGGCCT	1 cut(s)	20
SspMI	CTAG	2 cut(s)	53, 260
StuI	AGGCCT	1 cut(s)	20
TaaI	ACNGT	1 cut(s)	122
TaqI	TCGA	1 cut(s)	6
Tru1I	TTAA	3 cut(s)	74, 186, 270
Tru9I	TTAA	3 cut(s)	74, 186, 270
TscAI	CASTG	1 cut(s)	185
TseFI	GTSAC	1 cut(s)	79
Tsp45I	GTSAC	1 cut(s)	79
TspDTI	ATGAA	1 cut(s)	150
TspRI	CASTG	1 cut(s)	185
XagI	CCTNNNNNAGG	1 cut(s)	56
XceI	RCATGY	1 cut(s)	140
XspI	CTAG	2 cut(s)	53, 260

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