Rroxscaffold_3G00246850

(-)-germacrene D synthase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000053
Physical Location & Seq
Forward (+)
40164479 .. 40168461
3983 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00246850.1

Sequence Viewer

Length: 432 bp
ATGATATATAAAGGCTCGTCTAATGGATTGCCTGGTGATATAGATATGTTCAACAAATTCAGGGAAGCAAATGATCAAAAATTTAAGGCATCTCTTCTGAGTGATGTATCAGGACTATTAAGCTTGTACGAAGCCACCCATCTTAGGATACATAGAAAAGACCTACTTGAAGAGGCACTTGACTTCACCACCACTCATCTTGAGTCGATCAAATGCAGTATAAGCCCTTCACTTTCAAAACAAGTAGTCCATTCCTTAAATCAGGCACTTCGGAGGGGCATCCCTAGGGTGGAAGCAAGATATTACTTGTCAATCTACGCAGAACATGATTCACATAACGAAGCTCTCCCGACTTTTGCAAAGTTAGATTTCAACCTACTGCAACAAGTCCATCAAAAGGAACTATATGAAATTACAAGGTTAATTAACTAG
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

143

Amino Acids

16.42

Weight (kDa)

6.65

Isoelectric Point (pI)

33.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Terpene_synth PF01397 15 - 86 4.9e-19 Terpene synthase, N-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000053)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G23960 AT5G23960
fragaria_vesca FvH4_1g04000 FvH4_1g04000 FvH4_1g05400 FvH4_3g01590 FvH4_3g21390 FvH4_3g21390 FvH4_3g21390 FvH4_3g21390 FvH4_3g21391 FvH4_3g21490 FvH4_3g21560 FvH4_3g22162 FvH4_3g32100 FvH4_4g27781 FvH4_4g27790 FvH4_4g27860 FvH4_4g27870 FvH4_4g27940 FvH4_4g27943 FvH4_4g27950 FvH4_4g27951 FvH4_4g27952 FvH4_5g06461 FvH4_5g06470 FvH4_5g06530 FvH4_5g35700 FvH4_5g35711 FvH4_5g35712 FvH4_6g06540 FvH4_6g11440 FvH4_6g19050 FvH4_6g19050 FvH4_6g19050 FvH4_6g19050 FvH4_6g19050 FvH4_7g03620 FvH4_7g13030 FvH4_7g13030 FvH4_7g13030 FvH4_7g13030 FvH4_7g33640 FvH4_7g33640 FvH4_7g33750 FvH4_7g33750
malus_domestica MD00G1215200.v1.1 MD03G1206700.v1.1 MD03G1207000.v1.1 MD03G1214900.v1.1 MD03G1218300.v1.1 MD03G1218400.v1.1 MD07G1269200.v1.1 MD11G1232100.v1.1 MD11G1232700.v1.1 MD11G1236200.v1.1 MD11G1236500.v1.1 MD11G1236600.v1.1 MD12G1162900.v1.1 MD12G1163000.v1.1 MD12G1163400.v1.1 MD12G1163700.v1.1 MD12G1163800.v1.1 MD16G1070800.v1.1
prunus_persica Prupe.4G190700_v2.0.a1 Prupe.4G190800_v2.0.a1 Prupe.4G191000_v2.0.a1 Prupe.4G194100_v2.0.a1 Prupe.4G194100_v2.0.a1 Prupe.4G194200_v2.0.a1 Prupe.4G194300_v2.0.a1 Prupe.4G194400_v2.0.a1 Prupe.4G194500_v2.0.a1 Prupe.4G194500_v2.0.a1 Prupe.4G194600_v2.0.a1 Prupe.4G197900_v2.0.a1 Prupe.4G198000_v2.0.a1 Prupe.4G198200_v2.0.a1 Prupe.4G198200_v2.0.a1 Prupe.4G198500_v2.0.a1 Prupe.4G198500_v2.0.a1 Prupe.4G198600_v2.0.a1 Prupe.4G198700_v2.0.a1 Prupe.4G199000_v2.0.a1 Prupe.4G199200_v2.0.a1 Prupe.4G199200_v2.0.a1 Prupe.4G199200_v2.0.a1 Prupe.4G199200_v2.0.a1 Prupe.4G199200_v2.0.a1 Prupe.4G199300_v2.0.a1 Prupe.4G199500_v2.0.a1 Prupe.4G199500_v2.0.a1 Prupe.4G200000_v2.0.a1 Prupe.4G200000_v2.0.a1 Prupe.4G200100_v2.0.a1 Prupe.4G200100_v2.0.a1 Prupe.4G238900_v2.0.a1
pyrus_communis pycom03g16780 pycom11g20550 pycom11g20570 pycom11g20780 pycom12g15470 pycom12g15530 pycom12g15590 pycom12g15600
rosa_chinensis RchiOBHm_Chr1g0313881 RchiOBHm_Chr1g0326011 RchiOBHm_Chr1g0326051 RchiOBHm_Chr1g0326061 RchiOBHm_Chr1g0326071 RchiOBHm_Chr1g0326251 RchiOBHm_Chr1g0326311 RchiOBHm_Chr1g0326331 RchiOBHm_Chr1g0326351 RchiOBHm_Chr1g0326391 RchiOBHm_Chr3g0474051 RchiOBHm_Chr3g0474411 RchiOBHm_Chr3g0474441 RchiOBHm_Chr3g0474501 RchiOBHm_Chr3g0474541 RchiOBHm_Chr3g0475221 RchiOBHm_Chr3g0490681 RchiOBHm_Chr4g0418071 RchiOBHm_Chr5g0036921 RchiOBHm_Chr5g0037011 RchiOBHm_Chr5g0037601 RchiOBHm_Chr5g0038021 RchiOBHm_Chr5g0038101 RchiOBHm_Chr5g0044191 RchiOBHm_Chr5g0059501 RchiOBHm_Chr5g0059511 RchiOBHm_Chr5g0059541 RchiOBHm_Chr5g0060241 RchiOBHm_Chr5g0060261 RchiOBHm_Chr5g0060571 RchiOBHm_Chr5g0065101 RchiOBHm_Chr6g0245681 RchiOBHm_Chr6g0245691 RchiOBHm_Chr6g0245751 RchiOBHm_Chr6g0246001 RchiOBHm_Chr6g0246011 RchiOBHm_Chr6g0265741 RchiOBHm_Chr6g0270581 RchiOBHm_Chr6g0274871 RchiOBHm_Chr6g0305391 RchiOBHm_Chr7g0210371 RchiOBHm_Chr7g0212441 RchiOBHm_Chr7g0227831 RchiOBHm_Chr7g0228501
rosa_laevigata RLG00000001556 RLG00000001557 RLG00000001562 RLG00000002890 RLG00000006572 RLG00000008725 RLG00000014163 RLG00000015277 RLG00000017042 RLG00000018206 RLG00000023912 RLG00000023916 RLG00000023920 RLG00000023955 RLG00000028351 RLG00000028821 RLG00000028822 RLG00000028823 RLG00000028824 RLG00000029856 RLG00000030075 RLG00000030076 RLG00000030080 RLG00000033743 RLG00000034250 RLG00000035299 RLG00000035350 RLG00000035387 RLG00000035755
rosa_multiflora Rmu_co8151952.1_g000001 Rmu_co8453003.1_g000001 Rmu_sc0000028.1_g000016 Rmu_sc0000208.1_g000003 Rmu_sc0000535.1_g000005 Rmu_sc0000535.1_g000015 Rmu_sc0000613.1_g000028 Rmu_sc0001217.1_g000009 Rmu_sc0001217.1_g000020 Rmu_sc0001353.1_g000001 Rmu_sc0001353.1_g000030 Rmu_sc0002281.1_g000004 Rmu_sc0002281.1_g000021 Rmu_sc0002670.1_g000004 Rmu_sc0002782.1_g000013 Rmu_sc0002915.1_g000015 Rmu_sc0003032.1_g000026 Rmu_sc0004042.1_g000001 Rmu_sc0004192.1_g000012 Rmu_sc0004192.1_g000022 Rmu_sc0004391.1_g000015 Rmu_sc0004507.1_g000042 Rmu_sc0004507.1_g000044 Rmu_sc0006021.1_g000024 Rmu_sc0006219.1_g000003 Rmu_sc0006435.1_g000010 Rmu_sc0007576.1_g000002 Rmu_sc0011334.1_g000013 Rmu_sc0024896.1_g000001 Rmu_ssc0000062.1_g000038 Rmu_ssc0000410.1_g000031
rosa_roxburghii Rroxscaffold_175G00432520 Rroxscaffold_1G00016230 Rroxscaffold_1G00040400 Rroxscaffold_1G00042840 Rroxscaffold_1G00042960 Rroxscaffold_1G00043940 Rroxscaffold_1G00044030 Rroxscaffold_2G00123010 Rroxscaffold_2G00123030 Rroxscaffold_2G00123040 Rroxscaffold_3G00231080 Rroxscaffold_3G00235280 Rroxscaffold_3G00246840 Rroxscaffold_3G00246850 Rroxscaffold_4G00303170 Rroxscaffold_4G00317190 Rroxscaffold_4G00323790 Rroxscaffold_4G00323810 Rroxscaffold_4G00323850 Rroxscaffold_4G00324000 Rroxscaffold_6G00407090 Rroxscaffold_6G00407140 Rroxscaffold_6G00407170 Rroxscaffold_6G00407190 Rroxscaffold_6G00407540 Rroxscaffold_7G00197730 Rroxscaffold_7G00197820 Rroxscaffold_7G00202480 Rroxscaffold_7G00215030
rosa_rugosa Rorug01G0058200 Rorug01G0058300 Rorug01G0058500 Rorug01G0060200 Rorug01G0225900 Rorug03G0137700 Rorug03G0137800 Rorug03G0137900 Rorug03G0138000 Rorug03G0138100 Rorug03G0140800 Rorug03G0141100 Rorug03G0141200 Rorug03G0245500 Rorug03G0295300 Rorug03G0295400 Rorug03G0295500 Rorug03G0295800 Rorug03G0296000 Rorug05G0158700 Rorug05G0158800 Rorug05G0158900 Rorug05G0159800 Rorug05G0159800 Rorug05G0170800 Rorug05G0170900 Rorug05G0170900 Rorug05G0211100 Rorug05G0211200 Rorug05G0246600 Rorug05G0328600 Rorug05G0367800 Rorug05G0518400 Rorug06G0018600 Rorug06G0055600 Rorug07G0250400 RorugMtG0003800.1 RorugMtG0003900.1 RorugMtG0004200.1
rosa_samantha Rh1AG007500 Rh1AG075300 Rh1AG075700 Rh1AG240100 Rh1BG060500 Rh1BG060600 Rh1BG061000 Rh1BG062200 Rh3BG217100 Rh3BG221000 Rh3BG221200 Rh3BG221600 Rh3BG222000 Rh3BG227500 Rh3DG212800 Rh3DG212900 Rh3DG216600 Rh3DG217100 Rh3DG217400 Rh5BG253400 Rh5BG261900 Rh5BG303800 Rh5BG399200 Rh5BG399300 Rh5BG399400 Rh5BG399600 Rh5BG405300 Rh5BG405400 Rh5BG441500 Rh5CG282400 Rh5CG285300 Rh5CG286100 Rh5CG290300 Rh5CG294000 Rh5CG331000 Rh5CG359600 Rh5CG423200 Rh5CG423300 Rh5CG423400 Rh5CG423700 Rh5CG429400 Rh5CG431900 Rh5CG464200 Rh5DG262000 Rh6AG030300 Rh6AG030500 Rh6AG030600 Rh6AG032900 Rh6AG140400 Rh6AG141200 Rh6AG270000 Rh6AG451900 Rh6CG137800 Rh6DG027700 Rh6DG124300 Rh6DG124700 Rh6DG166400 Rh6DG452500 Rh7BG383200 Rh7CG283600 Rh7CG421200 Rh7CG421400 Rh7CG421800
rosa_wichuraiana Rw0G002000 Rw0G009100 Rw0G012450 Rw0G015810 Rw1G005940 Rw1G006020 Rw1G006040 Rw1G006060 Rw1G013290 Rw3G017240 Rw3G017250 Rw3G017470 Rw3G017500 Rw3G017520 Rw5G022920 Rw5G023200 Rw5G023620 Rw5G023940 Rw5G024130 Rw5G024170 Rw5G027380 Rw5G027440 Rw5G036040 Rw5G036500 Rw5G036540 Rw5G036560 Rw5G037000 Rw5G037270 Rw5G040050 Rw6G002730 Rw6G012120 Rw6G012190 Rw6G014890 Rw6G017470 Rw6G039370 Rw7G022830 Rw7G033440

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcsI RAATTY 2 cut(s) 56, 80
AfaI GTAC 1 cut(s) 128
AfiI CCNNNNNNNGG 3 cut(s) 144, 289, 397
AgsI TTSAA 4 cut(s) 52, 170, 237, 373
AjnI CCWGG 1 cut(s) 31
AluBI AGCT 2 cut(s) 123, 344
AluI AGCT 2 cut(s) 123, 344
ApoI RAATTY 2 cut(s) 56, 80
AspA2I CCTAGG 1 cut(s) 284
AsuHPI GGTGA 2 cut(s) 47, 178
AvrII CCTAGG 1 cut(s) 284
BarI GAAGNNNNNNTAC 2 cut(s) 211, 243
BccI CCATC 2 cut(s) 147, 399
BciT130I CCWGG 1 cut(s) 33
BciVI GTATCC 1 cut(s) 141
BclI TGATCA 1 cut(s) 73
BfaI CTAG 2 cut(s) 285, 430
BfuI GTATCC 1 cut(s) 141
BlnI CCTAGG 1 cut(s) 284
Bme1390I CCNGG 1 cut(s) 33
BmrFI CCNGG 1 cut(s) 33
BmsI GCATC 2 cut(s) 98, 288
BpuEI CTTGAG 1 cut(s) 221
BsaJI CCNNGG 1 cut(s) 284
Bsc4I CCNNNNNNNGG 3 cut(s) 144, 289, 397
BseBI CCWGG 1 cut(s) 33
BseDI CCNNGG 1 cut(s) 284
BseGI GGATG 1 cut(s) 279
BseLI CCNNNNNNNGG 3 cut(s) 144, 289, 397
BseMII CTCAG 1 cut(s) 89
BslI CCNNNNNNNGG 3 cut(s) 144, 289, 397
Bsp143I GATC 2 cut(s) 73, 207
BspCNI CTCAG 1 cut(s) 90
BssECI CCNNGG 1 cut(s) 284
BssMI GATC 2 cut(s) 73, 207
BssT1I CCWWGG 1 cut(s) 284
Bst2UI CCWGG 1 cut(s) 33
Bst6I CTCTTC 2 cut(s) 99, 165
BstDEI CTNAG 2 cut(s) 98, 143
BstF5I GGATG 1 cut(s) 279
BstKTI GATC 2 cut(s) 76, 210
BstMBI GATC 2 cut(s) 73, 207
BstMWI GCNNNNNNNGC 1 cut(s) 222
BstNI CCWGG 1 cut(s) 33
BstSCI CCNGG 1 cut(s) 31
BsuI GTATCC 1 cut(s) 141
BtsCI GGATG 1 cut(s) 279
Csp6I GTAC 1 cut(s) 127
CspCI CAANNNNNGTGG 2 cut(s) 181, 216
CviAII CATG 1 cut(s) 326
CviJI RGCY 5 cut(s) 15, 123, 134, 225, 344
CviKI_1 RGCY 5 cut(s) 15, 123, 134, 225, 344
CviQI GTAC 1 cut(s) 127
DdeI CTNAG 2 cut(s) 98, 143
DpnI GATC 2 cut(s) 75, 209
DpnII GATC 2 cut(s) 73, 207
Eam1104I CTCTTC 2 cut(s) 99, 165
EarI CTCTTC 2 cut(s) 99, 165
Eco130I CCWWGG 1 cut(s) 284
EcoRII CCWGG 1 cut(s) 31
EcoT14I CCWWGG 1 cut(s) 284
ErhI CCWWGG 1 cut(s) 284
FaeI CATG 1 cut(s) 329
FalI AAGNNNNNCTT 4 cut(s) 150, 182, 162, 194
FatI CATG 1 cut(s) 325
FbaI TGATCA 1 cut(s) 73
FokI GGATG 1 cut(s) 266
FspBI CTAG 2 cut(s) 285, 430
Hin1II CATG 1 cut(s) 329
HindIII AAGCTT 1 cut(s) 121
HinfI GANTC 2 cut(s) 203, 329
HphI GGTGA 2 cut(s) 47, 178
Hpy188I TCNGA 2 cut(s) 99, 273
Hpy188III TCNNGA 3 cut(s) 111, 200, 349
HpyAV CCTTC 1 cut(s) 237
HpyCH4V TGCA 3 cut(s) 216, 359, 382
HpyF10VI GCNNNNNNNGC 1 cut(s) 222
HpyF3I CTNAG 2 cut(s) 98, 143
Hsp92II CATG 1 cut(s) 329
Ksp22I TGATCA 1 cut(s) 73
Kzo9I GATC 2 cut(s) 73, 207
LpnPI CCDG 5 cut(s) 18, 45, 46, 96, 248
LweI GCATC 2 cut(s) 98, 288
MaeI CTAG 2 cut(s) 285, 430
MalI GATC 2 cut(s) 75, 209
MboI GATC 2 cut(s) 73, 207
MboII GAAGA 2 cut(s) 86, 182
MluCI AATT 4 cut(s) 56, 80, 411, 423
MlyI GAGTC 1 cut(s) 212
MnlI CCTC 2 cut(s) 166, 267
MseI TTAA 5 cut(s) 84, 119, 257, 422, 426
MspR9I CCNGG 1 cut(s) 33
MvaI CCWGG 1 cut(s) 33
MwoI GCNNNNNNNGC 1 cut(s) 222
NdeII GATC 2 cut(s) 73, 207
NlaIII CATG 1 cut(s) 329
PacI TTAATTAA 1 cut(s) 426
PfeI GAWTC 1 cut(s) 329
PleI GAGTC 1 cut(s) 211
PpsI GAGTC 1 cut(s) 211
Psp6I CCWGG 1 cut(s) 31
PspGI CCWGG 1 cut(s) 31
RsaI GTAC 1 cut(s) 128
RsaNI GTAC 1 cut(s) 127
SaqAI TTAA 5 cut(s) 84, 119, 257, 422, 426
Sau3AI GATC 2 cut(s) 73, 207
SchI GAGTC 1 cut(s) 212
ScrFI CCNGG 1 cut(s) 33
SetI ASST 5 cut(s) 125, 165, 346, 378, 422
SfaNI GCATC 2 cut(s) 98, 288
SmlI CTYRAG 1 cut(s) 200
SmoI CTYRAG 1 cut(s) 200
Sse9I AATT 4 cut(s) 56, 80, 411, 423
SspMI CTAG 2 cut(s) 285, 430
StyD4I CCNGG 1 cut(s) 31
StyI CCWWGG 1 cut(s) 284
TaqI TCGA 1 cut(s) 206
TasI AATT 4 cut(s) 56, 80, 411, 423
TfiI GAWTC 1 cut(s) 329
Tru1I TTAA 5 cut(s) 84, 119, 257, 422, 426
Tru9I TTAA 5 cut(s) 84, 119, 257, 422, 426
TspDTI ATGAA 1 cut(s) 423
XapI RAATTY 2 cut(s) 56, 80
XmaJI CCTAGG 1 cut(s) 284
XspI CTAG 2 cut(s) 285, 430
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.