Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0003435

Physical Location & Seq

Genomic Coordinates Forward (+)

10623840 .. 10630372

Gene Structure 6533 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG113300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 540 bp

ATGCCCAAGTGGAGTCGAAAATCCTTTGATGGAATCCATGAGCTGAACAGGGTGGATAGTCTTGTTTATGATACTGCTCTGTTTGAGACCAACAACATCCTCCTGAGTGCTCCAACTGGACCCGGGGAAGGTAATGTTGCCATCCTCGCCATTCTCCAGCAGTTCGGGATTGGCGTTTCAATTATAGACGATGTTCTTGATTTTTCGGGCACATCATCAACATCTCTTGGAAAGGGCTCATTATCTGATGACATCCGTCATGGCATTATCACTGCTCCAATATTGTTTGCCCCGGAAGAGTTCCCTCAGTTGGGTGCAGTTGTTGAAAAAGGATTTGACAATCCTTCAAATATTGAGATCGCTCTTGACTACCTTGGTAAGAGTAATGGTATACAGAGGACAAGGGATCTAGCAAGAAAGCATGCAAACCTTGCTGCAAAGGCAATCAAATCTCTGCCTGAGAGCGAGGACGAAAGCGTAAGAAGATCAAGGATGGTGCTCCTAGATCTCACCAACATAGTCCTCACAAGAACCAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0004659 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006732 GO:0006733 GO:0006743 GO:0006744 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009108 GO:0009507 GO:0009536 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0016740 GO:0016765 GO:0022414 GO:0032501 GO:0032502 GO:0042180 GO:0042181 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044249 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050347 GO:0051186 GO:0051188 GO:0061458 GO:0071704 GO:1901576 GO:1901661 GO:1901663

KEGG Pathways

Metabolic & Signaling

ko00900 ko01100 ko01110 ko01130 map00900 map01100 map01110 map01130

Pfam Domains

Protein Families

polyprenyl_synt

Protein Analysis

179

Amino Acids

19.45

Weight (kDa)

5.38

Isoelectric Point (pI)

47.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
polyprenyl_synt	PF00348	47 - 122	1.5e-06	Polyprenyl synthetase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0003435)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G34630 AT2G34630
fragaria_vesca	FvH4_3g05080 FvH4_3g05080 FvH4_3g05080 FvH4_3g05080
malus_domestica	MD05G1280000.v1.1 MD05G1280200.v1.1 MD10G1258500.v1.1
prunus_persica	Prupe.4G085300_v2.0.a1
pyrus_communis	pycom05g26020 pycom10g21490
rosa_chinensis	RchiOBHm_Chr5g0014811 RchiOBHm_Chr5g0014881 RchiOBHm_Chr5g0014891
rosa_laevigata	RLG00000032144
rosa_multiflora	Rmu_sc0013610.1_g000004 Rmu_sc0013610.1_g000006 Rmu_sc0013610.1_g000007 Rmu_sc0013610.1_g000008 Rmu_sc0028154.1_g000001
rosa_roxburghii	Rroxscaffold_1G00001360 Rroxscaffold_1G00061680
rosa_rugosa	Rorug05G0020900 Rorug05G0021000 Rorug05G0021000
rosa_samantha	Rh5AG116800 Rh5AG116900 Rh5BG113200 Rh5BG113300 Rh5CG125000 Rh5CG125400 Rh5DG112600 Rh5DG113100 Rh5DG113300
rosa_wichuraiana	Rw5G010050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	391
AclWI	GGATC	1 cut(s)	414
AfiI	CCNNNNNNNGG	3 cut(s)	128, 310, 311
AgsI	TTSAA	3 cut(s)	180, 326, 348
AluBI	AGCT	1 cut(s)	43
AluI	AGCT	1 cut(s)	43
Alw21I	GWGCWC	2 cut(s)	112, 501
Alw26I	GTCTC	1 cut(s)	80
AlwI	GGATC	1 cut(s)	414
Ama87I	CYCGRG	1 cut(s)	122
ApeKI	GCWGC	1 cut(s)	434
AspS9I	GGNCC	1 cut(s)	119
AsuC2I	CCSGG	3 cut(s)	123, 124, 293
AsuHPI	GGTGA	1 cut(s)	502
AvaI	CYCGRG	1 cut(s)	122
AvaII	GGWCC	1 cut(s)	119
BaeGI	GKGCMC	1 cut(s)	212
BanII	GRGCYC	1 cut(s)	239
Bbv12I	GWGCWC	2 cut(s)	112, 501
BbvI	GCAGC	1 cut(s)	421
BccI	CCATC	3 cut(s)	23, 149, 487
BcnI	CCSGG	3 cut(s)	123, 124, 293
BcoDI	GTCTC	1 cut(s)	80
BfaI	CTAG	2 cut(s)	410, 503
BglII	AGATCT	1 cut(s)	505
BisI	GCNGC	1 cut(s)	435
BlsI	GCNGC	1 cut(s)	436
Bme1390I	CCNGG	3 cut(s)	123, 124, 293
Bme18I	GGWCC	1 cut(s)	119
BmeT110I	CYCGRG	1 cut(s)	122
BmgT120I	GGNCC	1 cut(s)	119
BmiI	GGNNCC	1 cut(s)	121
BmrFI	CCNGG	3 cut(s)	123, 124, 293
BoxI	GACNNNNGTC	1 cut(s)	255
BpmI	CTGGAG	1 cut(s)	140
BpuMI	CCSGG	3 cut(s)	123, 124, 293
BsaI	GGTCTC	1 cut(s)	80
BsaJI	CCNNGG	4 cut(s)	122, 123, 291, 373
Bsc4I	CCNNNNNNNGG	3 cut(s)	128, 310, 311
Bse1I	ACTGG	1 cut(s)	121
BseDI	CCNNGG	4 cut(s)	122, 123, 291, 373
BseGI	GGATG	4 cut(s)	96, 141, 252, 498
BseLI	CCNNNNNNNGG	3 cut(s)	128, 310, 311
BseMII	CTCAG	3 cut(s)	95, 320, 450
BseNI	ACTGG	1 cut(s)	121
BseSI	GKGCMC	1 cut(s)	212
BseXI	GCAGC	1 cut(s)	421
BsgI	GTGCAG	1 cut(s)	336
BsiHKAI	GWGCWC	2 cut(s)	112, 501
BsiHKCI	CYCGRG	1 cut(s)	122
BsiSI	CCGG	2 cut(s)	123, 293
BslI	CCNNNNNNNGG	3 cut(s)	128, 310, 311
BsmAI	GTCTC	1 cut(s)	80
Bso31I	GGTCTC	1 cut(s)	80
BsoBI	CYCGRG	1 cut(s)	122
Bsp1286I	GDGCHC	4 cut(s)	112, 212, 239, 501
Bsp143I	GATC	4 cut(s)	357, 406, 485, 505
BspCNI	CTCAG	3 cut(s)	96, 319, 451
BspLI	GGNNCC	1 cut(s)	121
BspPI	GGATC	1 cut(s)	414
BspTNI	GGTCTC	1 cut(s)	80
BsrI	ACTGG	1 cut(s)	121
BssECI	CCNNGG	4 cut(s)	122, 123, 291, 373
BssMI	GATC	4 cut(s)	357, 406, 485, 505
BssNAI	GTATAC	1 cut(s)	392
BssT1I	CCWWGG	1 cut(s)	373
Bst1107I	GTATAC	1 cut(s)	392
Bst6I	CTCTTC	1 cut(s)	291
BstAPI	GCANNNNNTGC	1 cut(s)	431
BstC8I	GCNNGC	1 cut(s)	423
BstDEI	CTNAG	3 cut(s)	104, 306, 459
BstF5I	GGATG	4 cut(s)	96, 141, 252, 498
BstKTI	GATC	4 cut(s)	360, 409, 488, 508
BstMAI	GTCTC	1 cut(s)	80
BstMBI	GATC	4 cut(s)	357, 406, 485, 505
BstMWI	GCNNNNNNNGC	3 cut(s)	146, 431, 440
BstNSI	RCATGY	1 cut(s)	425
BstPAI	GACNNNNGTC	1 cut(s)	255
BstSCI	CCNGG	3 cut(s)	121, 122, 291
BstSLI	GKGCMC	1 cut(s)	212
BstV1I	GCAGC	1 cut(s)	421
BstX2I	RGATCY	2 cut(s)	406, 505
BstYI	RGATCY	2 cut(s)	406, 505
BstZ17I	GTATAC	1 cut(s)	392
BtsCI	GGATG	4 cut(s)	96, 141, 252, 498
BtsI	GCAGTG	1 cut(s)	270
BtsIMutI	CAGTG	1 cut(s)	270
Cac8I	GCNNGC	1 cut(s)	423
Cfr13I	GGNCC	1 cut(s)	119
Cfr9I	CCCGGG	1 cut(s)	122
CviAII	CATG	3 cut(s)	38, 260, 422
CviJI	RGCY	2 cut(s)	43, 237
CviKI_1	RGCY	2 cut(s)	43, 237
DdeI	CTNAG	3 cut(s)	104, 306, 459
DpnI	GATC	4 cut(s)	359, 408, 487, 507
DpnII	GATC	4 cut(s)	357, 406, 485, 505
Eam1104I	CTCTTC	1 cut(s)	291
EarI	CTCTTC	1 cut(s)	291
Eco130I	CCWWGG	1 cut(s)	373
Eco24I	GRGCYC	1 cut(s)	239
Eco31I	GGTCTC	1 cut(s)	80
Eco47I	GGWCC	1 cut(s)	119
Eco88I	CYCGRG	1 cut(s)	122
EcoT14I	CCWWGG	1 cut(s)	373
EcoT38I	GRGCYC	1 cut(s)	239
ErhI	CCWWGG	1 cut(s)	373
FaeI	CATG	3 cut(s)	41, 263, 425
FaiI	YATR	7 cut(s)	39, 69, 185, 261, 392, 423, 518
FatI	CATG	3 cut(s)	37, 259, 421
FblI	GTMKAC	1 cut(s)	391
Fnu4HI	GCNGC	1 cut(s)	435
FokI	GGATG	4 cut(s)	83, 128, 239, 505
FriOI	GRGCYC	1 cut(s)	239
Fsp4HI	GCNGC	1 cut(s)	435
FspBI	CTAG	2 cut(s)	410, 503
GluI	GCNGC	1 cut(s)	435
GsuI	CTGGAG	1 cut(s)	140
HapII	CCGG	2 cut(s)	123, 293
Hin1II	CATG	3 cut(s)	41, 263, 425
HinfI	GANTC	2 cut(s)	13, 33
HpaII	CCGG	2 cut(s)	123, 293
HphI	GGTGA	1 cut(s)	502
Hpy166II	GTNNAC	1 cut(s)	392
Hpy188I	TCNGA	1 cut(s)	247
Hpy188III	TCNNGA	4 cut(s)	103, 166, 197, 365
Hpy8I	GTNNAC	1 cut(s)	392
HpyAV	CCTTC	2 cut(s)	122, 354
HpyCH4V	TGCA	3 cut(s)	317, 425, 437
HpyF10VI	GCNNNNNNNGC	3 cut(s)	146, 431, 440
HpyF3I	CTNAG	3 cut(s)	104, 306, 459
Hsp92II	CATG	3 cut(s)	41, 263, 425
Kzo9I	GATC	4 cut(s)	357, 406, 485, 505
LmnI	GCTCC	3 cut(s)	115, 280, 504
LpnPI	CCDG	7 cut(s)	34, 102, 116, 136, 170, 306, 471
Lsp1109I	GCAGC	1 cut(s)	421
MaeI	CTAG	2 cut(s)	410, 503
MalI	GATC	4 cut(s)	359, 408, 487, 507
MboI	GATC	4 cut(s)	357, 406, 485, 505
MboII	GAAGA	2 cut(s)	308, 495
MflI	RGATCY	2 cut(s)	406, 505
MhlI	GDGCHC	4 cut(s)	112, 212, 239, 501
MluCI	AATT	1 cut(s)	180
MlyI	GAGTC	1 cut(s)	22
MmeI	TCCRAC	1 cut(s)	137
MnlI	CCTC	6 cut(s)	110, 155, 315, 390, 460, 533
MspI	CCGG	2 cut(s)	123, 293
MspR9I	CCNGG	3 cut(s)	123, 124, 293
MwoI	GCNNNNNNNGC	3 cut(s)	146, 431, 440
NciI	CCSGG	3 cut(s)	123, 124, 293
NdeII	GATC	4 cut(s)	357, 406, 485, 505
NlaIII	CATG	3 cut(s)	41, 263, 425
NlaIV	GGNNCC	1 cut(s)	121
NspI	RCATGY	1 cut(s)	425
PaeI	GCATGC	1 cut(s)	425
PcsI	WCGNNNNNNNCGW	1 cut(s)	171
PfeI	GAWTC	1 cut(s)	33
PkrI	GCNGC	1 cut(s)	436
PleI	GAGTC	1 cut(s)	21
PpsI	GAGTC	1 cut(s)	21
PshAI	GACNNNNGTC	1 cut(s)	255
PspN4I	GGNNCC	1 cut(s)	121
PspPI	GGNCC	1 cut(s)	119
PsuI	RGATCY	2 cut(s)	406, 505
SatI	GCNGC	1 cut(s)	435
Sau3AI	GATC	4 cut(s)	357, 406, 485, 505
Sau96I	GGNCC	1 cut(s)	119
SchI	GAGTC	1 cut(s)	22
ScrFI	CCNGG	3 cut(s)	123, 124, 293
SduI	GDGCHC	4 cut(s)	112, 212, 239, 501
SetI	ASST	4 cut(s)	45, 133, 375, 432
SinI	GGWCC	1 cut(s)	119
SmaI	CCCGGG	1 cut(s)	124
SphI	GCATGC	1 cut(s)	425
Sse9I	AATT	1 cut(s)	180
SspI	AATATT	2 cut(s)	282, 352
SspMI	CTAG	2 cut(s)	410, 503
StyD4I	CCNGG	3 cut(s)	121, 122, 291
StyI	CCWWGG	1 cut(s)	373
TaqI	TCGA	1 cut(s)	16
TasI	AATT	1 cut(s)	180
TfiI	GAWTC	1 cut(s)	33
TscAI	CASTG	1 cut(s)	277
TseI	GCWGC	1 cut(s)	434
TspGWI	ACGGA	1 cut(s)	245
TspMI	CCCGGG	1 cut(s)	122
TspRI	CASTG	1 cut(s)	277
VpaK11BI	GGWCC	1 cut(s)	119
XceI	RCATGY	1 cut(s)	425
XmaI	CCCGGG	1 cut(s)	122
XmiI	GTMKAC	1 cut(s)	391
XspI	CTAG	2 cut(s)	410, 503

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