Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0002039

Physical Location & Seq

Genomic Coordinates Forward (+)

2930695 .. 2960279

Gene Structure 29585 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG040200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 858 bp

ATGAATTCTAGTAGGCACTTGCGAAACCCTCAAGCTGATGAGCAGCAGATACTGCAATGGCAGACGAAATCTGAACCCTCTTACTCTGTACATGATCAAAGACGATCTGCAAATTACAAGCCAAATATTTGGAAGTATGAGTTCCTCGAATCCCTTAACAGCAAATTTGATGGAGAATGTTCTCGAATTCAGATTCAGAAGCTAATAGAAGATGTAAAGGAAATGTTTGTTGATTGTAAGGAATCAGATTTAATAACCAAGTTGGAGCTGATTGACAGCATCCAAAAACTAGGCCTCAACAACAATTTTGAAAAGGAAATCAAGAAAGCCCTAGACACCATAGCATTTGTTGAACTCGAAAGCAACAGCAATCCATACATTAGTTCAACAGGTGATCTCTATGCTGCTGCACTACTCTTTAAGATTCTTAGGCAGCATGGTTATAAAGTTTCACAAGATATATTTGGTGGTTTGATGGATGAAATGGGTACATTAAAGAAGAACACATTTGGGGATGTGAAAGGAATGCTTGAAATGTTGGAGGCCTCAAACCTAGCTTTAGAAGGTGAAAATATCCTAGAGGATGCTAAAGCTTTCTTAATGGTCACTCTCAGAGATACCAATACTAGGTGTGATGATATAGACAATTGCATTTCTAAGCATGTGACTTATGCCCTGGAGCTTCCATCACAAAGGAGAGTGCAGTGGTTTAATGTGAAATGGCACATCAAATCCTACGAGAAAGACCATACTGATCAAGCCAACATGACCACTTTACTTGAGTTGGCTAAACTTAACTTCAATATGGTTCAAGCCACACTCCAAAAAGATCTAAGGGAAGTATCCATATTGAGTTGA

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

285

Amino Acids

32.91

Weight (kDa)

5.39

Isoelectric Point (pI)

40.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Terpene_synth	PF01397	43 - 226	4.5e-41	Terpene synthase, N-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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: 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)
AanI	TTATAA	1 cut(s)	444
AcsI	RAATTY	3 cut(s)	4, 164, 186
AfaI	GTAC	2 cut(s)	90, 490
AfiI	CCNNNNNNNGG	1 cut(s)	627
AgsI	TTSAA	6 cut(s)	311, 353, 387, 533, 802, 812
AjnI	CCWGG	1 cut(s)	675
AluBI	AGCT	6 cut(s)	35, 202, 268, 557, 593, 682
AluI	AGCT	6 cut(s)	35, 202, 268, 557, 593, 682
AlwNI	CAGNNNCTG	1 cut(s)	52
AoxI	GGCC	2 cut(s)	292, 543
ApeKI	GCWGC	4 cut(s)	43, 404, 407, 433
ApoI	RAATTY	3 cut(s)	4, 164, 186
AsuHPI	GGTGA	2 cut(s)	404, 578
BbvI	GCAGC	4 cut(s)	55, 391, 394, 445
BccI	CCATC	3 cut(s)	164, 469, 694
BciT130I	CCWGG	1 cut(s)	677
BciVI	GTATCC	1 cut(s)	853
BclI	TGATCA	2 cut(s)	94, 754
BfaI	CTAG	6 cut(s)	9, 290, 332, 554, 578, 627
BfuI	GTATCC	1 cut(s)	853
BglII	AGATCT	1 cut(s)	829
BisI	GCNGC	4 cut(s)	44, 405, 408, 434
BlsI	GCNGC	4 cut(s)	45, 406, 409, 435
Bme1390I	CCNGG	1 cut(s)	677
BmrFI	CCNGG	1 cut(s)	677
BmsI	GCATC	2 cut(s)	288, 574
BpmI	CTGGAG	1 cut(s)	698
BpuEI	CTTGAG	2 cut(s)	15, 800
BsaJI	CCNNGG	1 cut(s)	675
Bsc4I	CCNNNNNNNGG	1 cut(s)	627
Bse3DI	GCAATG	1 cut(s)	62
BseBI	CCWGG	1 cut(s)	677
BseDI	CCNNGG	1 cut(s)	675
BseGI	GGATG	4 cut(s)	279, 484, 520, 589
BseLI	CCNNNNNNNGG	1 cut(s)	627
BseMI	GCAATG	1 cut(s)	62
BseMII	CTCAG	1 cut(s)	625
BseXI	GCAGC	4 cut(s)	55, 391, 394, 445
BsgI	GTGCAG	2 cut(s)	393, 722
BshFI	GGCC	2 cut(s)	294, 545
BslI	CCNNNNNNNGG	1 cut(s)	627
BsmI	GAATGC	1 cut(s)	531
BsnI	GGCC	2 cut(s)	294, 545
Bsp1407I	TGTACA	1 cut(s)	88
Bsp143I	GATC	5 cut(s)	94, 104, 394, 754, 829
BspANI	GGCC	2 cut(s)	294, 545
BspCNI	CTCAG	1 cut(s)	624
BsrDI	GCAATG	1 cut(s)	62
BsrGI	TGTACA	1 cut(s)	88
BssECI	CCNNGG	1 cut(s)	675
BssMI	GATC	5 cut(s)	94, 104, 394, 754, 829
Bst2UI	CCWGG	1 cut(s)	677
BstAPI	GCANNNNNTGC	1 cut(s)	52
BstAUI	TGTACA	1 cut(s)	88
BstDEI	CTNAG	4 cut(s)	428, 611, 657, 833
BstF5I	GGATG	4 cut(s)	279, 484, 520, 589
BstKTI	GATC	5 cut(s)	97, 107, 397, 757, 832
BstMBI	GATC	5 cut(s)	94, 104, 394, 754, 829
BstMWI	GCNNNNNNNGC	1 cut(s)	52
BstNI	CCWGG	1 cut(s)	677
BstNSI	RCATGY	1 cut(s)	665
BstSCI	CCNGG	1 cut(s)	675
BstV1I	GCAGC	4 cut(s)	55, 391, 394, 445
BstX2I	RGATCY	1 cut(s)	829
BstXI	CCANNNNNNTGG	1 cut(s)	129
BstYI	RGATCY	1 cut(s)	829
BsuI	GTATCC	1 cut(s)	853
BsuRI	GGCC	2 cut(s)	294, 545
BtsCI	GGATG	4 cut(s)	279, 484, 520, 589
BtsI	GCAGTG	1 cut(s)	710
BtsIMutI	CAGTG	1 cut(s)	710
CaiI	CAGNNNCTG	1 cut(s)	52
Csp6I	GTAC	2 cut(s)	89, 489
CspCI	CAANNNNNGTGG	2 cut(s)	760, 795
CviAII	CATG	4 cut(s)	92, 437, 662, 766
CviQI	GTAC	2 cut(s)	89, 489
DdeI	CTNAG	4 cut(s)	428, 611, 657, 833
DpnI	GATC	5 cut(s)	96, 106, 396, 756, 831
DpnII	GATC	5 cut(s)	94, 104, 394, 754, 829
Eco147I	AGGCCT	2 cut(s)	294, 545
EcoRI	GAATTC	2 cut(s)	4, 186
EcoRII	CCWGG	1 cut(s)	675
FaeI	CATG	4 cut(s)	95, 440, 665, 769
FalI	AAGNNNNNCTT	2 cut(s)	513, 545
FatI	CATG	4 cut(s)	91, 436, 661, 765
FbaI	TGATCA	2 cut(s)	94, 754
Fnu4HI	GCNGC	4 cut(s)	44, 405, 408, 434
FokI	GGATG	4 cut(s)	266, 491, 527, 596
Fsp4HI	GCNGC	4 cut(s)	44, 405, 408, 434
FspBI	CTAG	6 cut(s)	9, 290, 332, 554, 578, 627
GluI	GCNGC	4 cut(s)	44, 405, 408, 434
GsuI	CTGGAG	1 cut(s)	698
HaeIII	GGCC	2 cut(s)	294, 545
Hin1II	CATG	4 cut(s)	95, 440, 665, 769
HindIII	AAGCTT	1 cut(s)	591
HinfI	GANTC	4 cut(s)	149, 193, 242, 424
HphI	GGTGA	2 cut(s)	404, 578
Hpy188I	TCNGA	5 cut(s)	73, 192, 198, 247, 614
Hpy188III	TCNNGA	2 cut(s)	183, 322
HpyAV	CCTTC	1 cut(s)	557
HpyCH4V	TGCA	5 cut(s)	55, 110, 410, 651, 703
HpyF10VI	GCNNNNNNNGC	1 cut(s)	52
HpyF3I	CTNAG	4 cut(s)	428, 611, 657, 833
Hsp92II	CATG	4 cut(s)	95, 440, 665, 769
Ksp22I	TGATCA	2 cut(s)	94, 754
Kzo9I	GATC	5 cut(s)	94, 104, 394, 754, 829
LmnI	GCTCC	2 cut(s)	265, 679
LpnPI	CCDG	3 cut(s)	375, 662, 689
Lsp1109I	GCAGC	4 cut(s)	55, 391, 394, 445
LweI	GCATC	2 cut(s)	288, 574
MaeI	CTAG	6 cut(s)	9, 290, 332, 554, 578, 627
MaeIII	GTNAC	2 cut(s)	604, 664
MalI	GATC	5 cut(s)	96, 106, 396, 756, 831
MboI	GATC	5 cut(s)	94, 104, 394, 754, 829
MboII	GAAGA	2 cut(s)	221, 511
MfeI	CAATTG	1 cut(s)	646
MflI	RGATCY	1 cut(s)	829
MluCI	AATT	6 cut(s)	4, 112, 164, 186, 304, 646
MmeI	TCCRAC	2 cut(s)	243, 519
MnlI	CCTC	7 cut(s)	39, 88, 155, 305, 535, 556, 574
MseI	TTAA	7 cut(s)	156, 251, 420, 494, 599, 711, 795
MspR9I	CCNGG	1 cut(s)	677
MunI	CAATTG	1 cut(s)	646
Mva1269I	GAATGC	1 cut(s)	531
MvaI	CCWGG	1 cut(s)	677
MwoI	GCNNNNNNNGC	1 cut(s)	52
NdeII	GATC	5 cut(s)	94, 104, 394, 754, 829
NlaIII	CATG	4 cut(s)	95, 440, 665, 769
NmuCI	GTSAC	2 cut(s)	604, 664
NspI	RCATGY	1 cut(s)	665
PceI	AGGCCT	2 cut(s)	294, 545
PctI	GAATGC	1 cut(s)	531
PfeI	GAWTC	4 cut(s)	149, 193, 242, 424
PkrI	GCNGC	4 cut(s)	45, 406, 409, 435
PsiI	TTATAA	1 cut(s)	444
Psp6I	CCWGG	1 cut(s)	675
PspGI	CCWGG	1 cut(s)	675
PstNI	CAGNNNCTG	1 cut(s)	52
PsuI	RGATCY	1 cut(s)	829
RsaI	GTAC	2 cut(s)	90, 490
RsaNI	GTAC	2 cut(s)	89, 489
SaqAI	TTAA	7 cut(s)	156, 251, 420, 494, 599, 711, 795
SatI	GCNGC	4 cut(s)	44, 405, 408, 434
Sau3AI	GATC	5 cut(s)	94, 104, 394, 754, 829
ScrFI	CCNGG	1 cut(s)	677
SfaNI	GCATC	2 cut(s)	288, 574
SmlI	CTYRAG	2 cut(s)	30, 779
SmoI	CTYRAG	2 cut(s)	30, 779
Sse9I	AATT	6 cut(s)	4, 112, 164, 186, 304, 646
SseBI	AGGCCT	2 cut(s)	294, 545
SspI	AATATT	1 cut(s)	127
SspMI	CTAG	6 cut(s)	9, 290, 332, 554, 578, 627
StuI	AGGCCT	2 cut(s)	294, 545
StyD4I	CCNGG	1 cut(s)	675
TaqI	TCGA	3 cut(s)	147, 184, 357
TasI	AATT	6 cut(s)	4, 112, 164, 186, 304, 646
TatI	WGTACW	1 cut(s)	88
TfiI	GAWTC	4 cut(s)	149, 193, 242, 424
Tru1I	TTAA	7 cut(s)	156, 251, 420, 494, 599, 711, 795
Tru9I	TTAA	7 cut(s)	156, 251, 420, 494, 599, 711, 795
TscAI	CASTG	1 cut(s)	710
TseFI	GTSAC	2 cut(s)	604, 664
TseI	GCWGC	4 cut(s)	43, 404, 407, 433
Tsp45I	GTSAC	2 cut(s)	604, 664
TspDTI	ATGAA	2 cut(s)	17, 495
TspRI	CASTG	1 cut(s)	710
XapI	RAATTY	3 cut(s)	4, 164, 186
XceI	RCATGY	1 cut(s)	665
XspI	CTAG	6 cut(s)	9, 290, 332, 554, 578, 627

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