Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0000979

Physical Location & Seq

Genomic Coordinates Reverse (-)

14953843 .. 14960536

Gene Structure 6694 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG081600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1062 bp

ATGCAGTTTGAGCAAAAGAGAGAACACATTGCATCAGCAGTGGAATGCTACATGAAGCAATATGGTGTCACAGAAGAAGAAGCAGAGGTCGAGCTAACTAAACAAGTGAATGACGCATGGAAAGACATAAACGAAGAGTGGCTCGATGCCACCTCTATCCCTAGGCCCCTACTCTTGCTGATTTTGAACTTTGCACGTTCTAGTGAAATTCTATACAAGGGGGAGGATGTGTACACTCATTCTGGAAATGTGCTCAAGGGTCATGCTGACGATGGCGAAGAGGCGGAAGCTGAGTGTTTCTGTGCTCTCGGCGTTTCTCAGTTTCGCCTTTTCACCGGGTTGTTCTCCTATCTTCCGAAGGACGATGAGCATGACATGGATGTTGATACTGCAACTTTTGCTACTCAAAGTCCCCTAAGAAACTTGTTGGTGCTGATTTTTCTGATTGATCAGAAAAAATACAGTGAGGCTAAAGCTTGTGCCACAACTATCATTGCTCGACTAAATAACATGAATGGGGGAACTATTGATGTCCTGTCCTGGCATCAAGGCTTTACTTCTATTACTCTCTTAGCTATGAATATGAGGGTGATATCGCAGAAATTAGAGGGTGGACATGCTGCAGGATGGCAAGATGTGCAGCCTCATGATCCTCAAGTTCAAGATGCAGCCAACCATGCTGTGAAGAGCCTTAAGCAAAAGTCCAATTCATTGTTCCCTTATGAGCTTCAAGAGATTGCCCATGCTAAGGCAGAGAATGCTTCTCCGGAAAAATCAAAAGATGGAAAAGATGCTGAAACTGCAGAAGCTGGACCCTCCTCGAGCAAGGATGCTTCTTCTAAAAAATCAACCTGTGGAAATGACGTTGAAACTTCAGGAGCTGGACCATTAAGCAAGGATGTGTCCCCTCAAACTGAAGCAAGAGGTGTAAATGATGCTGAGTCATCAGGAGCTGGACCTTCCTCAAGCAAGGTTGCTTCTGTAGAAAATGATCCAAGTGGTGGAAGTGAGGTTGAAACTCTCCTCCTTAAGCAAGGTTTTTCTTCTATGCCCAAACCTTGA

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

353

Amino Acids

38.3

Weight (kDa)

4.82

Isoelectric Point (pI)

44.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Terpene_synth_C	PF03936	2 - 42	1.1e-10	Terpene synthase family, metal binding domain
Terpene_syn_C_2	PF19086	2 - 42	1.4e-08	Terpene synthase family 2, C-terminal metal binding
TPR_PSMD3_N	PF25573	141 - 180	9.2e-06	PSMD3-like, N-terminal TPR repeats

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: 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)
AccB7I	CCANNNNNTGG	1 cut(s)	1001
AccIII	TCCGGA	1 cut(s)	766
AciI	CCGC	1 cut(s)	284
AclWI	GGATC	2 cut(s)	644, 986
AcsI	RAATTY	1 cut(s)	207
AcuI	CTGAAG	2 cut(s)	858, 936
AfaI	GTAC	1 cut(s)	233
AfiI	CCNNNNNNNGG	2 cut(s)	748, 1001
AflII	CTTAAG	2 cut(s)	692, 1028
AgsI	TTSAA	5 cut(s)	187, 662, 731, 869, 1016
AjnI	CCWGG	1 cut(s)	539
AjuI	GAANNNNNNNTTGG	2 cut(s)	698, 730
AluBI	AGCT	8 cut(s)	94, 290, 476, 575, 727, 809, 881, 953
AluI	AGCT	8 cut(s)	94, 290, 476, 575, 727, 809, 881, 953
Alw21I	GWGCWC	2 cut(s)	255, 307
AlwI	GGATC	2 cut(s)	644, 986
AlwNI	CAGNNNCTG	3 cut(s)	809, 881, 953
Ama87I	CYCGRG	1 cut(s)	820
Aor13HI	TCCGGA	1 cut(s)	766
AoxI	GGCC	1 cut(s)	164
ApeKI	GCWGC	3 cut(s)	620, 640, 668
ApoI	RAATTY	1 cut(s)	207
AspA2I	CCTAGG	1 cut(s)	161
AspS9I	GGNCC	4 cut(s)	165, 812, 884, 956
AsuC2I	CCSGG	1 cut(s)	337
AsuHPI	GGTGA	2 cut(s)	325, 601
AvaI	CYCGRG	1 cut(s)	820
AvaII	GGWCC	3 cut(s)	812, 884, 956
AvrII	CCTAGG	1 cut(s)	161
Bbv12I	GWGCWC	2 cut(s)	255, 307
BbvI	GCAGC	3 cut(s)	607, 652, 680
BccI	CCATC	3 cut(s)	266, 621, 776
BciT130I	CCWGG	1 cut(s)	541
BclI	TGATCA	1 cut(s)	448
BcnI	CCSGG	1 cut(s)	337
BfaI	CTAG	2 cut(s)	162, 201
BfmI	CTRYAG	3 cut(s)	621, 801, 981
BfrI	CTTAAG	2 cut(s)	692, 1028
BisI	GCNGC	3 cut(s)	621, 641, 669
BlnI	CCTAGG	1 cut(s)	161
BlsI	GCNGC	3 cut(s)	622, 642, 670
Bme1390I	CCNGG	2 cut(s)	337, 541
Bme18I	GGWCC	3 cut(s)	812, 884, 956
BmeT110I	CYCGRG	1 cut(s)	820
BmgT120I	GGNCC	4 cut(s)	165, 812, 884, 956
BmiI	GGNNCC	2 cut(s)	167, 814
BmrFI	CCNGG	2 cut(s)	337, 541
BmsI	GCATC	7 cut(s)	41, 136, 553, 655, 781, 820, 925
Bpu10I	CCTNAGC	1 cut(s)	747
BpuEI	CTTGAG	3 cut(s)	239, 639, 949
BpuMI	CCSGG	1 cut(s)	337
BsaJI	CCNNGG	1 cut(s)	161
BsaWI	WCCGGW	1 cut(s)	766
BsaXI	ACNNNNNCTCC	2 cut(s)	215, 245
Bsc4I	CCNNNNNNNGG	2 cut(s)	748, 1001
Bse3DI	GCAATG	2 cut(s)	27, 492
BseAI	TCCGGA	1 cut(s)	766
BseBI	CCWGG	1 cut(s)	541
BseDI	CCNNGG	1 cut(s)	161
BseGI	GGATG	5 cut(s)	232, 385, 632, 835, 904
BseLI	CCNNNNNNNGG	2 cut(s)	748, 1001
BseMI	GCAATG	2 cut(s)	27, 492
BseMII	CTCAG	3 cut(s)	282, 332, 930
BseRI	GAGGAG	2 cut(s)	808, 1013
BseXI	GCAGC	3 cut(s)	607, 652, 680
BsgI	GTGCAG	1 cut(s)	659
BshFI	GGCC	1 cut(s)	166
BsiHKAI	GWGCWC	2 cut(s)	255, 307
BsiHKCI	CYCGRG	1 cut(s)	820
BsiSI	CCGG	2 cut(s)	336, 767
BslFI	GGGAC	2 cut(s)	396, 889
BslI	CCNNNNNNNGG	2 cut(s)	748, 1001
BsmFI	GGGAC	2 cut(s)	396, 889
BsmI	GAATGC	2 cut(s)	50, 763
BsnI	GGCC	1 cut(s)	166
BsoBI	CYCGRG	1 cut(s)	820
Bsp1286I	GDGCHC	2 cut(s)	255, 307
Bsp13I	TCCGGA	1 cut(s)	766
Bsp1407I	TGTACA	1 cut(s)	231
Bsp143I	GATC	3 cut(s)	448, 649, 991
BspACI	CCGC	1 cut(s)	284
BspANI	GGCC	1 cut(s)	166
BspCNI	CTCAG	3 cut(s)	283, 331, 931
BspEI	TCCGGA	1 cut(s)	766
BspHI	TCATGA	1 cut(s)	646
BspLI	GGNNCC	2 cut(s)	167, 814
BspMAI	CTGCAG	2 cut(s)	625, 805
BspPI	GGATC	2 cut(s)	644, 986
BspQI	GCTCTTC	1 cut(s)	680
BspTI	CTTAAG	2 cut(s)	692, 1028
BsrDI	GCAATG	2 cut(s)	27, 492
BsrGI	TGTACA	1 cut(s)	231
BssECI	CCNNGG	1 cut(s)	161
BssMI	GATC	3 cut(s)	448, 649, 991
BssT1I	CCWWGG	1 cut(s)	161
Bst2UI	CCWGG	1 cut(s)	541
Bst4CI	ACNGT	1 cut(s)	464
Bst6I	CTCTTC	3 cut(s)	129, 273, 680
BstAFI	CTTAAG	2 cut(s)	692, 1028
BstAPI	GCANNNNNTGC	3 cut(s)	398, 637, 758
BstAUI	TGTACA	1 cut(s)	231
BstDEI	CTNAG	6 cut(s)	291, 318, 416, 571, 747, 939
BstF5I	GGATG	5 cut(s)	232, 385, 632, 835, 904
BstKTI	GATC	3 cut(s)	451, 652, 994
BstMBI	GATC	3 cut(s)	448, 649, 991
BstMWI	GCNNNNNNNGC	6 cut(s)	10, 398, 637, 677, 758, 800
BstNI	CCWGG	1 cut(s)	541
BstNSI	RCATGY	1 cut(s)	620
BstSCI	CCNGG	2 cut(s)	335, 539
BstSFI	CTRYAG	3 cut(s)	621, 801, 981
BstV1I	GCAGC	3 cut(s)	607, 652, 680
BsuRI	GGCC	1 cut(s)	166
BtsCI	GGATG	5 cut(s)	232, 385, 632, 835, 904
BtsI	GCAGTG	1 cut(s)	45
BtsIMutI	CAGTG	2 cut(s)	45, 469
CaiI	CAGNNNCTG	3 cut(s)	809, 881, 953
CciI	TCATGA	1 cut(s)	646
Cfr13I	GGNCC	4 cut(s)	165, 812, 884, 956
CseI	GACGC	1 cut(s)	122
Csp6I	GTAC	1 cut(s)	232
CviQI	GTAC	1 cut(s)	232
DdeI	CTNAG	6 cut(s)	291, 318, 416, 571, 747, 939
DpnI	GATC	3 cut(s)	450, 651, 993
DpnII	GATC	3 cut(s)	448, 649, 991
Eam1104I	CTCTTC	3 cut(s)	129, 273, 680
EarI	CTCTTC	3 cut(s)	129, 273, 680
EciI	GGCGGA	1 cut(s)	299
Eco130I	CCWWGG	1 cut(s)	161
Eco32I	GATATC	1 cut(s)	594
Eco47I	GGWCC	3 cut(s)	812, 884, 956
Eco57I	CTGAAG	2 cut(s)	858, 936
Eco88I	CYCGRG	1 cut(s)	820
EcoO109I	RGGNCCY	1 cut(s)	165
EcoRII	CCWGG	1 cut(s)	539
EcoRV	GATATC	1 cut(s)	594
EcoT14I	CCWWGG	1 cut(s)	161
ErhI	CCWWGG	1 cut(s)	161
FaqI	GGGAC	2 cut(s)	396, 889
FbaI	TGATCA	1 cut(s)	448
Fnu4HI	GCNGC	3 cut(s)	621, 641, 669
FokI	GGATG	5 cut(s)	239, 392, 639, 842, 911
Fsp4HI	GCNGC	3 cut(s)	621, 641, 669
FspBI	CTAG	2 cut(s)	162, 201
GluI	GCNGC	3 cut(s)	621, 641, 669
HaeIII	GGCC	1 cut(s)	166
HapII	CCGG	2 cut(s)	336, 767
HgaI	GACGC	1 cut(s)	122
HindIII	AAGCTT	1 cut(s)	474
HinfI	GANTC	1 cut(s)	941
HpaII	CCGG	2 cut(s)	336, 767
HphI	GGTGA	2 cut(s)	325, 601
Hpy166II	GTNNAC	3 cut(s)	232, 234, 614
Hpy188I	TCNGA	3 cut(s)	357, 444, 453
Hpy188III	TCNNGA	7 cut(s)	243, 647, 662, 731, 767, 876, 948
Hpy8I	GTNNAC	3 cut(s)	232, 234, 614
HpyAV	CCTTC	2 cut(s)	352, 969
HpyCH4III	ACNGT	1 cut(s)	464
HpyCH4IV	ACGT	2 cut(s)	196, 864
HpyCH4V	TGCA	8 cut(s)	4, 32, 194, 392, 623, 640, 668, 803
HpyF10VI	GCNNNNNNNGC	6 cut(s)	10, 398, 637, 677, 758, 800
HpyF3I	CTNAG	6 cut(s)	291, 318, 416, 571, 747, 939
HpySE526I	ACGT	2 cut(s)	196, 864
Kpn2I	TCCGGA	1 cut(s)	766
Ksp22I	TGATCA	1 cut(s)	448
Kzo9I	GATC	3 cut(s)	448, 649, 991
LguI	GCTCTTC	1 cut(s)	680
LmnI	GCTCC	2 cut(s)	878, 950
Lsp1109I	GCAGC	3 cut(s)	607, 652, 680
LweI	GCATC	7 cut(s)	41, 136, 553, 655, 781, 820, 925
MaeI	CTAG	2 cut(s)	162, 201
MaeII	ACGT	2 cut(s)	196, 864
MaeIII	GTNAC	1 cut(s)	67
MalI	GATC	3 cut(s)	450, 651, 993
MboI	GATC	3 cut(s)	448, 649, 991
MboII	GAAGA	8 cut(s)	86, 89, 146, 290, 344, 697, 828, 1035
MhlI	GDGCHC	2 cut(s)	255, 307
MluCI	AATT	3 cut(s)	207, 602, 706
MlyI	GAGTC	1 cut(s)	950
MroI	TCCGGA	1 cut(s)	766
MseI	TTAA	3 cut(s)	693, 890, 1029
MspCI	CTTAAG	2 cut(s)	692, 1028
MspI	CCGG	2 cut(s)	336, 767
MspR9I	CCNGG	2 cut(s)	337, 541
Mva1269I	GAATGC	2 cut(s)	50, 763
MvaI	CCWGG	1 cut(s)	541
MwoI	GCNNNNNNNGC	6 cut(s)	10, 398, 637, 677, 758, 800
NciI	CCSGG	1 cut(s)	337
NdeII	GATC	3 cut(s)	448, 649, 991
NlaIV	GGNNCC	2 cut(s)	167, 814
NmeAIII	GCCGAG	1 cut(s)	288
NmuCI	GTSAC	1 cut(s)	67
NspI	RCATGY	1 cut(s)	620
PaeR7I	CTCGAG	1 cut(s)	820
PagI	TCATGA	1 cut(s)	646
PciSI	GCTCTTC	1 cut(s)	680
PctI	GAATGC	2 cut(s)	50, 763
PflMI	CCANNNNNTGG	1 cut(s)	1001
PkrI	GCNGC	3 cut(s)	622, 642, 670
PleI	GAGTC	1 cut(s)	949
PpsI	GAGTC	1 cut(s)	949
Psp6I	CCWGG	1 cut(s)	539
PspGI	CCWGG	1 cut(s)	539
PspN4I	GGNNCC	2 cut(s)	167, 814
PspPI	GGNCC	4 cut(s)	165, 812, 884, 956
PspXI	VCTCGAGB	1 cut(s)	820
PstI	CTGCAG	2 cut(s)	625, 805
PstNI	CAGNNNCTG	3 cut(s)	809, 881, 953
RsaI	GTAC	1 cut(s)	233
RsaNI	GTAC	1 cut(s)	232
SapI	GCTCTTC	1 cut(s)	680
SaqAI	TTAA	3 cut(s)	693, 890, 1029
SatI	GCNGC	3 cut(s)	621, 641, 669
Sau3AI	GATC	3 cut(s)	448, 649, 991
Sau96I	GGNCC	4 cut(s)	165, 812, 884, 956
SchI	GAGTC	1 cut(s)	950
ScrFI	CCNGG	2 cut(s)	337, 541
SduI	GDGCHC	2 cut(s)	255, 307
SfaNI	GCATC	7 cut(s)	41, 136, 553, 655, 781, 820, 925
SfcI	CTRYAG	3 cut(s)	621, 801, 981
Sfr274I	CTCGAG	1 cut(s)	820
SinI	GGWCC	3 cut(s)	812, 884, 956
SlaI	CTCGAG	1 cut(s)	820
SmlI	CTYRAG	6 cut(s)	254, 654, 692, 820, 964, 1028
SmoI	CTYRAG	6 cut(s)	254, 654, 692, 820, 964, 1028
Sse9I	AATT	3 cut(s)	207, 602, 706
SsiI	CCGC	1 cut(s)	284
SspMI	CTAG	2 cut(s)	162, 201
StyD4I	CCNGG	2 cut(s)	335, 539
StyI	CCWWGG	1 cut(s)	161
TaaI	ACNGT	1 cut(s)	464
TaiI	ACGT	2 cut(s)	199, 867
TaqI	TCGA	4 cut(s)	90, 144, 499, 821
TasI	AATT	3 cut(s)	207, 602, 706
TatI	WGTACW	1 cut(s)	231
Tru1I	TTAA	3 cut(s)	693, 890, 1029
Tru9I	TTAA	3 cut(s)	693, 890, 1029
TscAI	CASTG	2 cut(s)	45, 469
TseFI	GTSAC	1 cut(s)	67
TseI	GCWGC	3 cut(s)	620, 640, 668
Tsp45I	GTSAC	1 cut(s)	67
TspDTI	ATGAA	4 cut(s)	68, 527, 593, 699
TspRI	CASTG	2 cut(s)	45, 469
Van91I	CCANNNNNTGG	1 cut(s)	1001
Vha464I	CTTAAG	2 cut(s)	692, 1028
VpaK11BI	GGWCC	3 cut(s)	812, 884, 956
XapI	RAATTY	1 cut(s)	207
XceI	RCATGY	1 cut(s)	620
XhoI	CTCGAG	1 cut(s)	820
XmaJI	CCTAGG	1 cut(s)	161
XspI	CTAG	2 cut(s)	162, 201

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