Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0000979

Physical Location & Seq

Genomic Coordinates Reverse (-)

72436818 .. 72449537

Gene Structure 12720 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG454000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 426 bp

ATGGAGCAGTTCCCGGAGACTGCTGCCTCTATTGTCTCCTTCAAGGTCGACTCCGACGTCATGTTCCTCGACGGTCGCGACTTCCTCAAAACCGACGCCGAGATCGGCGACGACGGCAAGCTCCACGTCAAGTTCGAGCAAAAGAGAGGACATGTTGCCTCGGCTGTGGAATGTTACATGAAACAATACGGTGCGACAGAAGAAGAAACCATAATTGAATTTCGTAAACAAGTGAGTGATGCATGGAAGGACATAAATGAAGAGTGCCTCCACCCTACACCTCTTGACATGTCCCTCTTAATGCGAGTTCTGAATCTCACACGCGTGATAGATGTAGTATACAAGTCTGAAGATGGCTACACTCACGCTGGAACCATTCTCAAAGATTTTGTAGCTTCTCTACTTATCGAACCTGTGCCTGTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00909 map00909

Pfam Domains

Protein Families

Terpene_synth Terpene_synth_C

Protein Analysis

141

Amino Acids

15.96

Weight (kDa)

4.69

Isoelectric Point (pI)

48.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Terpene_synth_C	PF03936	43 - 84	1.2e-12	Terpene synthase family, metal binding domain
Terpene_syn_C_2	PF19086	43 - 84	6.1e-10	Terpene synthase family 2, C-terminal metal binding

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)

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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: OG0000979)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g22161 FvH4_3g32081 FvH4_3g32180 FvH4_5g06450 FvH4_6g19300
malus_domestica	MD12G1162800.v1.1 MD12G1163200.v1.1 MD12G1163600.v1.1
prunus_persica	Prupe.4G194000_v2.0.a1 Prupe.4G194700_v2.0.a1 Prupe.4G198800_v2.0.a1
pyrus_communis	pycom07g03220
rosa_chinensis	RchiOBHm_Chr0c17g0499941 RchiOBHm_Chr1g0326031 RchiOBHm_Chr1g0326301 RchiOBHm_Chr4g0406361 RchiOBHm_Chr6g0274881
rosa_laevigata	RLG00000008723 RLG00000014166 RLG00000033702
rosa_multiflora	Rmu_sc0000149.1_g000030 Rmu_sc0001353.1_g000008 Rmu_sc0006272.1_g000013 Rmu_sc0008056.1_g000001 Rmu_sc0011910.1_g000003 Rmu_sc0019563.1_g000001
rosa_roxburghii	Rroxscaffold_1G00044360 Rroxscaffold_2G00123050 Rroxscaffold_2G00127900 Rroxscaffold_2G00128770 Rroxscaffold_3G00225480 Rroxscaffold_3G00235290 Rroxscaffold_4G00317180 Rroxscaffold_4G00320650 Rroxscaffold_4G00320660 Rroxscaffold_6G00393300
rosa_samantha	Rh1BG062100 Rh1CG074300 Rh1DG080600 Rh1DG081600 Rh3BG331000 Rh3CG216000 Rh3CG216300 Rh3CG216700 Rh3DG216700 Rh3DG328000 Rh3DG328300 Rh4CG145600 Rh5CG282500 Rh5DG271000 Rh5DG275500 Rh5DG312500 Rh5DG416000 Rh5DG454000 Rh6BG141200 Rh6BG178000 Rh6BG178100 Rh6BG178200 Rh6CG137600 Rh6CG174100 Rh6CG205100 Rh6CG272400 Rh6DG195900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	56
AatII	GACGTC	1 cut(s)	60
AccI	GTMKAC	2 cut(s)	48, 339
AccII	CGCG	2 cut(s)	78, 324
AcsI	RAATTY	1 cut(s)	218
AcuI	CTGAAG	1 cut(s)	369
AcyI	GRCGYC	2 cut(s)	57, 96
AflIII	ACRYGT	3 cut(s)	151, 288, 322
AgsI	TTSAA	2 cut(s)	43, 218
AjiI	CACGTC	1 cut(s)	127
AleI	CACNNNNGTG	1 cut(s)	323
AluBI	AGCT	2 cut(s)	121, 395
AluI	AGCT	2 cut(s)	121, 395
Alw26I	GTCTC	2 cut(s)	11, 40
ApeKI	GCWGC	1 cut(s)	23
ApoI	RAATTY	1 cut(s)	218
AsuC2I	CCSGG	1 cut(s)	14
BbvI	GCAGC	1 cut(s)	10
BccI	CCATC	1 cut(s)	347
BceAI	ACGGC	1 cut(s)	130
BcnI	CCSGG	1 cut(s)	14
BcoDI	GTCTC	2 cut(s)	11, 40
BisI	GCNGC	1 cut(s)	24
BlsI	GCNGC	1 cut(s)	25
Bme1390I	CCNGG	1 cut(s)	14
BmgBI	CACGTC	1 cut(s)	127
BmiI	GGNNCC	1 cut(s)	373
BmrFI	CCNGG	1 cut(s)	14
BmsI	GCATC	1 cut(s)	229
BpuMI	CCSGG	1 cut(s)	14
BsaHI	GRCGYC	2 cut(s)	57, 96
BsaJI	CCNNGG	1 cut(s)	159
BseDI	CCNNGG	1 cut(s)	159
BseXI	GCAGC	1 cut(s)	10
Bsh1236I	CGCG	2 cut(s)	78, 324
Bsh1285I	CGRYCG	1 cut(s)	76
BsiEI	CGRYCG	1 cut(s)	76
BsiSI	CCGG	1 cut(s)	14
BslFI	GGGAC	1 cut(s)	277
BsmAI	GTCTC	2 cut(s)	11, 40
BsmFI	GGGAC	1 cut(s)	277
Bsp143I	GATC	1 cut(s)	102
Bsp68I	TCGCGA	1 cut(s)	78
BspFNI	CGCG	2 cut(s)	78, 324
BspLI	GGNNCC	1 cut(s)	373
BssECI	CCNNGG	1 cut(s)	159
BssMI	GATC	1 cut(s)	102
BssNAI	GTATAC	1 cut(s)	340
BssNI	GRCGYC	2 cut(s)	57, 96
Bst1107I	GTATAC	1 cut(s)	340
Bst4CI	ACNGT	2 cut(s)	74, 191
Bst6I	CTCTTC	1 cut(s)	255
BstACI	GRCGYC	2 cut(s)	57, 96
BstC8I	GCNNGC	1 cut(s)	119
BstFNI	CGCG	2 cut(s)	78, 324
BstKTI	GATC	1 cut(s)	105
BstMAI	GTCTC	2 cut(s)	11, 40
BstMBI	GATC	1 cut(s)	102
BstMCI	CGRYCG	1 cut(s)	76
BstMWI	GCNNNNNNNGC	1 cut(s)	114
BstNSI	RCATGY	2 cut(s)	155, 292
BstSCI	CCNGG	1 cut(s)	12
BstUI	CGCG	2 cut(s)	78, 324
BstV1I	GCAGC	1 cut(s)	10
BstZ17I	GTATAC	1 cut(s)	340
BtrI	CACGTC	1 cut(s)	127
BtuMI	TCGCGA	1 cut(s)	78
Cac8I	GCNNGC	1 cut(s)	119
CseI	GACGC	1 cut(s)	104
CviAII	CATG	5 cut(s)	61, 152, 178, 243, 289
CviJI	RGCY	4 cut(s)	121, 164, 357, 395
CviKI_1	RGCY	4 cut(s)	121, 164, 357, 395
DpnI	GATC	1 cut(s)	104
DpnII	GATC	1 cut(s)	102
DrdI	GACNNNNNNGTC	1 cut(s)	56
DseDI	GACNNNNNNGTC	1 cut(s)	56
Eam1104I	CTCTTC	1 cut(s)	255
EarI	CTCTTC	1 cut(s)	255
Eco57I	CTGAAG	1 cut(s)	369
EcoT22I	ATGCAT	1 cut(s)	244
FaeI	CATG	5 cut(s)	64, 155, 181, 246, 292
FaiI	YATR	9 cut(s)	62, 153, 179, 212, 244, 254, 290, 340, 424
FaqI	GGGAC	1 cut(s)	277
FatI	CATG	5 cut(s)	60, 151, 177, 242, 288
FblI	GTMKAC	2 cut(s)	48, 339
Fnu4HI	GCNGC	1 cut(s)	24
Fsp4HI	GCNGC	1 cut(s)	24
GluI	GCNGC	1 cut(s)	24
HapII	CCGG	1 cut(s)	14
HgaI	GACGC	1 cut(s)	104
Hin1I	GRCGYC	2 cut(s)	57, 96
Hin1II	CATG	5 cut(s)	64, 155, 181, 246, 292
HincII	GTYRAC	1 cut(s)	49
HindII	GTYRAC	1 cut(s)	49
HinfI	GANTC	2 cut(s)	50, 313
HpaII	CCGG	1 cut(s)	14
Hpy166II	GTNNAC	3 cut(s)	49, 227, 340
Hpy188I	TCNGA	3 cut(s)	55, 312, 349
Hpy188III	TCNNGA	2 cut(s)	77, 284
Hpy8I	GTNNAC	3 cut(s)	49, 227, 340
Hpy99I	CGWCG	5 cut(s)	59, 74, 98, 113, 116
HpyAV	CCTTC	2 cut(s)	49, 241
HpyCH4III	ACNGT	2 cut(s)	74, 191
HpyCH4IV	ACGT	2 cut(s)	57, 126
HpyCH4V	TGCA	1 cut(s)	242
HpyF10VI	GCNNNNNNNGC	1 cut(s)	114
HpySE526I	ACGT	2 cut(s)	57, 126
Hsp92I	GRCGYC	2 cut(s)	57, 96
Hsp92II	CATG	5 cut(s)	64, 155, 181, 246, 292
Kzo9I	GATC	1 cut(s)	102
LmnI	GCTCC	2 cut(s)	4, 126
LpnPI	CCDG	2 cut(s)	27, 354
Lsp1109I	GCAGC	1 cut(s)	10
LweI	GCATC	1 cut(s)	229
MaeII	ACGT	2 cut(s)	57, 126
MaeIII	GTNAC	1 cut(s)	173
MalI	GATC	1 cut(s)	104
MboI	GATC	1 cut(s)	102
MboII	GAAGA	4 cut(s)	212, 215, 272, 362
MluCI	AATT	2 cut(s)	213, 218
MluI	ACGCGT	1 cut(s)	322
MlyI	GAGTC	1 cut(s)	44
MmeI	TCCRAC	1 cut(s)	78
MnlI	CCTC	8 cut(s)	37, 77, 95, 140, 169, 278, 291, 305
Mph1103I	ATGCAT	1 cut(s)	244
MseI	TTAA	1 cut(s)	299
MslI	CAYNNNNRTG	1 cut(s)	323
MspI	CCGG	1 cut(s)	14
MspR9I	CCNGG	1 cut(s)	14
MvnI	CGCG	2 cut(s)	78, 324
MwoI	GCNNNNNNNGC	1 cut(s)	114
NciI	CCSGG	1 cut(s)	14
NdeII	GATC	1 cut(s)	102
NlaIII	CATG	5 cut(s)	64, 155, 181, 246, 292
NlaIV	GGNNCC	1 cut(s)	373
NmeAIII	GCCGAG	2 cut(s)	124, 140
NruI	TCGCGA	1 cut(s)	78
NsiI	ATGCAT	1 cut(s)	244
NspI	RCATGY	2 cut(s)	155, 292
OliI	CACNNNNGTG	1 cut(s)	323
PciI	ACATGT	2 cut(s)	151, 288
PcsI	WCGNNNNNNNCGW	3 cut(s)	54, 75, 132
PfeI	GAWTC	1 cut(s)	313
PfoI	TCCNGGA	1 cut(s)	12
PkrI	GCNGC	1 cut(s)	25
PleI	GAGTC	1 cut(s)	44
PpsI	GAGTC	1 cut(s)	44
PscI	ACATGT	2 cut(s)	151, 288
PspN4I	GGNNCC	1 cut(s)	373
RruI	TCGCGA	1 cut(s)	78
RseI	CAYNNNNRTG	1 cut(s)	323
SalI	GTCGAC	1 cut(s)	47
SaqAI	TTAA	1 cut(s)	299
SatI	GCNGC	1 cut(s)	24
Sau3AI	GATC	1 cut(s)	102
SchI	GAGTC	1 cut(s)	44
ScrFI	CCNGG	1 cut(s)	14
SetI	ASST	7 cut(s)	48, 60, 123, 129, 283, 397, 415
SfaNI	GCATC	1 cut(s)	229
SmiMI	CAYNNNNRTG	1 cut(s)	323
Sse9I	AATT	2 cut(s)	213, 218
StyD4I	CCNGG	1 cut(s)	12
TaaI	ACNGT	2 cut(s)	74, 191
TaiI	ACGT	2 cut(s)	60, 129
TaqI	TCGA	4 cut(s)	48, 69, 135, 408
TasI	AATT	2 cut(s)	213, 218
TfiI	GAWTC	1 cut(s)	313
Tru1I	TTAA	1 cut(s)	299
Tru9I	TTAA	1 cut(s)	299
TseI	GCWGC	1 cut(s)	23
TspDTI	ATGAA	2 cut(s)	194, 273
XapI	RAATTY	1 cut(s)	218
XceI	RCATGY	2 cut(s)	155, 292
XmiI	GTMKAC	2 cut(s)	48, 339
ZraI	GACGTC	1 cut(s)	58
Zsp2I	ATGCAT	1 cut(s)	244

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