Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0002039

Physical Location & Seq

Genomic Coordinates Forward (+)

3031055 .. 3034420

Gene Structure 3366 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG040400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1071 bp

ATGGATTGTGGTATGCACTTGCATAACCATCAAGCTGATGAGCAACAGATACTGCAATGGCAGACGAAATCTGAACCCCCTTCCTCGGTACATGATCAAAGACGATCTGCCAATTACAAGCCGAATATTTGGAAGTATGATTTCGTTGAATCTCTTAACAGCAAATTTGATGGAGAATGTTATCGAATTCAGATTCAGAAGCTAATAGAAGATGTTAAGGATTTGTTTGGTGAATGTAAGGAATTGGGTTTACTAGCTAAGTTGGAGCTGATTGACAGCATCCAAAAACTAGGCCTGAACAGCTACTTTGAGAAGGAAATCAAGGAAACCCTAGACACCATAGTATCTGTCGAACTGAAAAACAACAGCAATCCCTTCATTAGTTCAGAGGGTGATCTCTATGCTACGGCACTACTCTTTAAGATTCTGAGGCAGCATGGTTATAAAGTTTCACAAGATGTATTTGGTGTTTTCATAGACGAAATTGGTACATTAAAGAAGAGCACATTTGGGGATGTGAAAGGAATGTTCGAACTTTTGGAGGCCTCAAACTTAGCTTTAGAAGGTGAAAACATCCTAGATGAGGCTAAGGCTTTCTTAATGGTCACTCTCAGAGATACCAATACCATGTGTGATGATATAGACCGTTGCATTTCCAAGCATGTGGCCTATGCCTTGAAGCTTTCATCACAAAGGAGAGTCCAGTGGTTTAATGTGAAATGGCACATCAAAGCCTACGAGGAAGACAATACGAAGCAAGCCAACATGACCACTTTACTTGAACTGGCTAAACTTAACTTCAACATGGTTCAAGCCACACTCCAAAAAGATCTAAGGGAAGCATCCAAGTGGTGGAACAATCTGGGTCTCACAAAGAACTTGGACTTTGCAAGAGATAGAATGGTCGAATGTTTCATGTGTGCTGTGGGATTAGCTTTCGAGCCTCAGTACAAGTCTTTTAGAAAATCGCTGACTAAAGTTATCAATTTGATACTTATCATAGATGACGTTTATGATGTTTATGGCTCGTTGGAAGAGCTAAATCACTTCACCAAAGCTGTTGAATGGTAG

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

356

Amino Acids

41.2

Weight (kDa)

5.42

Isoelectric Point (pI)

38.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Terpene_synth	PF01397	43 - 226	8.4e-43	Terpene synthase, N-terminal domain
Terpene_synth_C	PF03936	287 - 355	2.7e-25	Terpene synthase family, metal binding 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)

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Publication-ready

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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)
AanI	TTATAA	1 cut(s)	444
AccB7I	CCANNNNNTGG	1 cut(s)	852
AcsI	RAATTY	2 cut(s)	164, 186
AfaI	GTAC	3 cut(s)	90, 490, 950
AfiI	CCNNNNNNNGG	3 cut(s)	85, 583, 852
AgsI	TTSAA	6 cut(s)	149, 679, 782, 802, 812, 1064
Alw21I	GWGCWC	1 cut(s)	506
Alw26I	GTCTC	1 cut(s)	872
AlwNI	CAGNNNCTG	1 cut(s)	52
AoxI	GGCC	3 cut(s)	292, 543, 666
ApeKI	GCWGC	1 cut(s)	433
ApoI	RAATTY	2 cut(s)	164, 186
AsuHPI	GGTGA	4 cut(s)	242, 404, 578, 1042
AsuII	TTCGAA	1 cut(s)	531
BaeI	ACNNNNGTAYC	2 cut(s)	327, 360
BbsI	GAAGAC	1 cut(s)	750
Bbv12I	GWGCWC	1 cut(s)	506
BbvI	GCAGC	1 cut(s)	445
BccI	CCATC	2 cut(s)	36, 164
BceAI	ACGGC	1 cut(s)	423
BclI	TGATCA	1 cut(s)	94
BcoDI	GTCTC	1 cut(s)	872
BfaI	CTAG	4 cut(s)	254, 290, 332, 578
BglII	AGATCT	1 cut(s)	829
BisI	GCNGC	1 cut(s)	434
BlsI	GCNGC	1 cut(s)	435
BmsI	GCATC	2 cut(s)	288, 851
BpiI	GAAGAC	1 cut(s)	750
Bpu10I	CCTNAGC	1 cut(s)	588
Bpu14I	TTCGAA	1 cut(s)	531
BsaBI	GATNNNNATC	1 cut(s)	995
BsaI	GGTCTC	1 cut(s)	872
BsaJI	CCNNGG	1 cut(s)	84
Bsc4I	CCNNNNNNNGG	3 cut(s)	85, 583, 852
Bse1I	ACTGG	2 cut(s)	703, 789
Bse3DI	GCAATG	1 cut(s)	62
Bse8I	GATNNNNATC	1 cut(s)	995
BseDI	CCNNGG	1 cut(s)	84
BseGI	GGATG	4 cut(s)	279, 520, 573, 842
BseJI	GATNNNNATC	1 cut(s)	995
BseLI	CCNNNNNNNGG	3 cut(s)	85, 583, 852
BseMI	GCAATG	1 cut(s)	62
BseMII	CTCAG	3 cut(s)	419, 625, 959
BseNI	ACTGG	2 cut(s)	703, 789
BseXI	GCAGC	1 cut(s)	445
BshFI	GGCC	3 cut(s)	294, 545, 668
BsiHKAI	GWGCWC	1 cut(s)	506
BslI	CCNNNNNNNGG	3 cut(s)	85, 583, 852
BsmAI	GTCTC	1 cut(s)	872
BsnI	GGCC	3 cut(s)	294, 545, 668
Bso31I	GGTCTC	1 cut(s)	872
Bsp119I	TTCGAA	1 cut(s)	531
Bsp1286I	GDGCHC	1 cut(s)	506
Bsp143I	GATC	4 cut(s)	94, 104, 394, 829
BspANI	GGCC	3 cut(s)	294, 545, 668
BspCNI	CTCAG	3 cut(s)	420, 624, 958
BspQI	GCTCTTC	2 cut(s)	494, 1029
BspT104I	TTCGAA	1 cut(s)	531
BspTNI	GGTCTC	1 cut(s)	872
BsrDI	GCAATG	1 cut(s)	62
BsrI	ACTGG	2 cut(s)	703, 789
BssECI	CCNNGG	1 cut(s)	84
BssMI	GATC	4 cut(s)	94, 104, 394, 829
Bst4CI	ACNGT	1 cut(s)	647
Bst6I	CTCTTC	2 cut(s)	494, 1029
BstBI	TTCGAA	1 cut(s)	531
BstC8I	GCNNGC	1 cut(s)	759
BstDEI	CTNAG	7 cut(s)	258, 428, 553, 588, 611, 833, 945
BstENI	CCTNNNNNAGG	1 cut(s)	581
BstF5I	GGATG	4 cut(s)	279, 520, 573, 842
BstKTI	GATC	4 cut(s)	97, 107, 397, 832
BstMAI	GTCTC	1 cut(s)	872
BstMBI	GATC	4 cut(s)	94, 104, 394, 829
BstMWI	GCNNNNNNNGC	1 cut(s)	300
BstNSI	RCATGY	1 cut(s)	665
BstV1I	GCAGC	1 cut(s)	445
BstV2I	GAAGAC	1 cut(s)	750
BstX2I	RGATCY	1 cut(s)	829
BstXI	CCANNNNNNTGG	1 cut(s)	664
BstYI	RGATCY	1 cut(s)	829
BsuRI	GGCC	3 cut(s)	294, 545, 668
BtsCI	GGATG	4 cut(s)	279, 520, 573, 842
BtsIMutI	CAGTG	1 cut(s)	710
Cac8I	GCNNGC	1 cut(s)	759
CaiI	CAGNNNCTG	1 cut(s)	52
Csp6I	GTAC	3 cut(s)	89, 489, 949
CspCI	CAANNNNNGTGG	2 cut(s)	760, 795
CviAII	CATG	7 cut(s)	92, 437, 628, 662, 766, 805, 916
CviQI	GTAC	3 cut(s)	89, 489, 949
DdeI	CTNAG	7 cut(s)	258, 428, 553, 588, 611, 833, 945
DpnI	GATC	4 cut(s)	96, 106, 396, 831
DpnII	GATC	4 cut(s)	94, 104, 394, 829
Eam1104I	CTCTTC	2 cut(s)	494, 1029
EarI	CTCTTC	2 cut(s)	494, 1029
Eco147I	AGGCCT	2 cut(s)	294, 545
Eco31I	GGTCTC	1 cut(s)	872
EcoNI	CCTNNNNNAGG	1 cut(s)	581
EcoRI	GAATTC	1 cut(s)	186
FaeI	CATG	7 cut(s)	95, 440, 631, 665, 769, 808, 919
FalI	AAGNNNNNCTT	2 cut(s)	581, 613
FatI	CATG	7 cut(s)	91, 436, 627, 661, 765, 804, 915
FbaI	TGATCA	1 cut(s)	94
Fnu4HI	GCNGC	1 cut(s)	434
FokI	GGATG	4 cut(s)	266, 527, 560, 829
Fsp4HI	GCNGC	1 cut(s)	434
FspBI	CTAG	4 cut(s)	254, 290, 332, 578
GluI	GCNGC	1 cut(s)	434
HaeIII	GGCC	3 cut(s)	294, 545, 668
Hin1II	CATG	7 cut(s)	95, 440, 631, 665, 769, 808, 919
HindIII	AAGCTT	1 cut(s)	680
HinfI	GANTC	4 cut(s)	149, 193, 424, 699
HphI	GGTGA	4 cut(s)	242, 404, 578, 1042
Hpy166II	GTNNAC	1 cut(s)	251
Hpy188I	TCNGA	6 cut(s)	73, 192, 198, 388, 429, 614
Hpy8I	GTNNAC	1 cut(s)	251
HpyAV	CCTTC	4 cut(s)	90, 307, 385, 557
HpyCH4III	ACNGT	1 cut(s)	647
HpyCH4IV	ACGT	1 cut(s)	1008
HpyCH4V	TGCA	5 cut(s)	16, 22, 55, 651, 890
HpyF10VI	GCNNNNNNNGC	1 cut(s)	300
HpyF3I	CTNAG	7 cut(s)	258, 428, 553, 588, 611, 833, 945
HpySE526I	ACGT	1 cut(s)	1008
Hsp92II	CATG	7 cut(s)	95, 440, 631, 665, 769, 808, 919
Ksp22I	TGATCA	1 cut(s)	94
Kzo9I	GATC	4 cut(s)	94, 104, 394, 829
LguI	GCTCTTC	2 cut(s)	494, 1029
LmnI	GCTCC	1 cut(s)	265
LpnPI	CCDG	4 cut(s)	308, 716, 770, 848
Lsp1109I	GCAGC	1 cut(s)	445
LweI	GCATC	2 cut(s)	288, 851
MaeI	CTAG	4 cut(s)	254, 290, 332, 578
MaeII	ACGT	1 cut(s)	1008
MaeIII	GTNAC	1 cut(s)	604
MalI	GATC	4 cut(s)	96, 106, 396, 831
MboI	GATC	4 cut(s)	94, 104, 394, 829
MboII	GAAGA	4 cut(s)	221, 511, 755, 1046
MflI	RGATCY	1 cut(s)	829
MhlI	GDGCHC	1 cut(s)	506
MluCI	AATT	6 cut(s)	112, 164, 186, 242, 483, 985
MlyI	GAGTC	1 cut(s)	708
MmeI	TCCRAC	2 cut(s)	243, 1011
MnlI	CCTC	8 cut(s)	94, 382, 423, 535, 556, 577, 733, 954
MseI	TTAA	7 cut(s)	156, 216, 420, 494, 599, 711, 795
MslI	CAYNNNNRTG	1 cut(s)	847
MwoI	GCNNNNNNNGC	1 cut(s)	300
NdeII	GATC	4 cut(s)	94, 104, 394, 829
NlaIII	CATG	7 cut(s)	95, 440, 631, 665, 769, 808, 919
NmuCI	GTSAC	1 cut(s)	604
NspI	RCATGY	1 cut(s)	665
NspV	TTCGAA	1 cut(s)	531
PceI	AGGCCT	2 cut(s)	294, 545
PciSI	GCTCTTC	2 cut(s)	494, 1029
PfeI	GAWTC	3 cut(s)	149, 193, 424
PflMI	CCANNNNNTGG	1 cut(s)	852
PkrI	GCNGC	1 cut(s)	435
PleI	GAGTC	1 cut(s)	707
PpsI	GAGTC	1 cut(s)	707
PsiI	TTATAA	1 cut(s)	444
PstNI	CAGNNNCTG	1 cut(s)	52
PsuI	RGATCY	1 cut(s)	829
RsaI	GTAC	3 cut(s)	90, 490, 950
RsaNI	GTAC	3 cut(s)	89, 489, 949
RseI	CAYNNNNRTG	1 cut(s)	847
SapI	GCTCTTC	2 cut(s)	494, 1029
SaqAI	TTAA	7 cut(s)	156, 216, 420, 494, 599, 711, 795
SatI	GCNGC	1 cut(s)	434
Sau3AI	GATC	4 cut(s)	94, 104, 394, 829
SchI	GAGTC	1 cut(s)	708
SduI	GDGCHC	1 cut(s)	506
SfaNI	GCATC	2 cut(s)	288, 851
SfuI	TTCGAA	1 cut(s)	531
SmiMI	CAYNNNNRTG	1 cut(s)	847
Sse9I	AATT	6 cut(s)	112, 164, 186, 242, 483, 985
SseBI	AGGCCT	2 cut(s)	294, 545
SspI	AATATT	1 cut(s)	127
SspMI	CTAG	4 cut(s)	254, 290, 332, 578
StuI	AGGCCT	2 cut(s)	294, 545
TaaI	ACNGT	1 cut(s)	647
TaiI	ACGT	1 cut(s)	1011
TaqI	TCGA	5 cut(s)	184, 351, 531, 906, 939
TasI	AATT	6 cut(s)	112, 164, 186, 242, 483, 985
TatI	WGTACW	1 cut(s)	948
TfiI	GAWTC	3 cut(s)	149, 193, 424
Tru1I	TTAA	7 cut(s)	156, 216, 420, 494, 599, 711, 795
Tru9I	TTAA	7 cut(s)	156, 216, 420, 494, 599, 711, 795
TscAI	CASTG	1 cut(s)	710
TseFI	GTSAC	1 cut(s)	604
TseI	GCWGC	1 cut(s)	433
Tsp45I	GTSAC	1 cut(s)	604
TspDTI	ATGAA	4 cut(s)	367, 463, 675, 904
TspRI	CASTG	1 cut(s)	710
Van91I	CCANNNNNTGG	1 cut(s)	852
XagI	CCTNNNNNAGG	1 cut(s)	581
XapI	RAATTY	2 cut(s)	164, 186
XceI	RCATGY	1 cut(s)	665
XspI	CTAG	4 cut(s)	254, 290, 332, 578

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