Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0005047

Physical Location & Seq

Genomic Coordinates Forward (+)

63897057 .. 63900378

Gene Structure 3322 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00384600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 858 bp

ATGGCCGAAGACGGTGTGGTGGGGTCCGCTGATTTTCCGGCGAAGAGGCCCAGAGAGGAGGAAGAGAACAACTGTGTCTTGTCAGCTGCGGCGGCTATGGAGACCGAGACTGCCAAAGACCCGGATTGCGTCTCTGGTGTCATTCCTGGCTGGTTCTCTGAGATTAGCCCAATGTGGCCTGGAGAAGCACACTCCTTGAAGATAGAGAAAATTTTGTTTCAAGGGAAATCGGACTATCAGAATGTGATGGTCTTCCAGTCATCAACCTATGGAAAGGTTCTCGTCCTGGATGGGGTGATTCAGCTGACCGAAAGGGATGAATGTGCCTATCAAGAAATGATTACTCATCTTCCTCTCTGCTCAATTCCAAACCCCAAGAAGGTTTTGGTTATTGGTGGAGGAGACGGTGGTGTACTGCGGGAAGTGGCTCGGCATTCTTCTGTTGAGCAAATAGATATATGTGAGATTGATAAGATGGTTGTTGACGTTTCGAAACAGTTTTTCCCTCGCGTGGCTATTGGATATGAGGATCCCAGGGTGACACTCAATGTTGGTGATGGAGTCGCATTTTTAAAGGCTGTTCCTGCAGGAACTTATGATGCAATAATTGTGGACTCTTCTGATCCCATAGGTCCTGCACAAGAGCTTTTGAGAAGCCCTTCTTTCAGTCGTGGAGTGATTGGTTTTATGCTTTGTTCGACCGAGGGTCCTCCTGTTGATTTTAAGCACCCTGTGAATCCAATCGCTGAAAATGACGGTTCCAAAGACCCCTTGAAATTTTACAACTCTGAGATTCACACAGCTGCTTTCTGTCTACCATCTTTTGCAAAGAAGGTGATTGAATCAATGGCAAAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004766 GO:0005575 GO:0005623 GO:0005886 GO:0006576 GO:0006595 GO:0006596 GO:0006807 GO:0008150 GO:0008152 GO:0008216 GO:0008295 GO:0009058 GO:0009308 GO:0009309 GO:0009987 GO:0016020 GO:0016740 GO:0016765 GO:0034641 GO:0042401 GO:0044106 GO:0044237 GO:0044249 GO:0044271 GO:0044464 GO:0071704 GO:0071944 GO:0097164 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00270 ko00330 ko00410 ko00480 ko01100 map00270 map00330 map00410 map00480 map01100

Pfam Domains

Protein Families

Spermine_synt_N Spermine_synth

Protein Analysis

285

Amino Acids

30.91

Weight (kDa)

4.77

Isoelectric Point (pI)

45.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Spermine_synt_N	PF17284	50 - 104	2.4e-24	Spermidine synthase tetramerisation domain
Spermine_synth	PF01564	107 - 222	4.1e-49	Spermine/spermidine synthase 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)

Image

Tree File

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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: OG0005047)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G23820 AT1G23820 AT1G70310
fragaria_vesca	FvH4_4g34680
malus_domestica	MD13G1090400.v1.1 MD14G1183600.v1.1 MD16G1091000.v1.1
prunus_persica	Prupe.1G255300_v2.0.a1 Prupe.5G176100_v2.0.a1
pyrus_communis	pycom13g07870 pycom16g07770
rosa_chinensis	RchiOBHm_Chr4g0444031 RchiOBHm_Chr7g0193881
rosa_laevigata	RLG00000004238 RLG00000005863
rosa_multiflora	Rmu_sc0015522.1_g000006
rosa_roxburghii	Rroxscaffold_3G00261760 Rroxscaffold_5G00384600
rosa_rugosa	Rorug04G0349100 Rorug07G0012500
rosa_samantha	Rh4AG409900 Rh4BG421000 Rh4CG435300 Rh4DG416200 Rh7AG139200 Rh7BG139600 Rh7CG143100 Rh7DG140700
rosa_wichuraiana	Rw4G035210 Rw7G011880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	814
AccII	CGCG	1 cut(s)	510
AciI	CCGC	4 cut(s)	27, 89, 92, 418
AclWI	GGATC	3 cut(s)	524, 537, 617
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	2 cut(s)	210, 776
AdeI	CACNNNGTG	1 cut(s)	733
AfaI	GTAC	1 cut(s)	414
AfiI	CCNNNNNNNGG	3 cut(s)	292, 379, 511
AgsI	TTSAA	4 cut(s)	199, 221, 775, 842
AhdI	GACNNNNNGTC	1 cut(s)	705
AjnI	CCWGG	4 cut(s)	145, 178, 285, 533
AluBI	AGCT	4 cut(s)	86, 304, 646, 803
AluI	AGCT	4 cut(s)	86, 304, 646, 803
Alw26I	GTCTC	4 cut(s)	95, 101, 136, 396
AlwI	GGATC	3 cut(s)	524, 537, 617
AoxI	GGCC	3 cut(s)	3, 47, 176
ApeKI	GCWGC	2 cut(s)	86, 803
ApoI	RAATTY	2 cut(s)	210, 776
Asp700I	GAANNNNTTC	1 cut(s)	658
AspS9I	GGNCC	4 cut(s)	24, 48, 632, 707
AsuC2I	CCSGG	1 cut(s)	122
AsuHPI	GGTGA	4 cut(s)	307, 550, 566, 847
AsuII	TTCGAA	1 cut(s)	491
AvaII	GGWCC	3 cut(s)	24, 632, 707
BamHI	GGATCC	1 cut(s)	529
BbsI	GAAGAC	2 cut(s)	15, 244
BbvI	GCAGC	2 cut(s)	73, 790
BccI	CCATC	5 cut(s)	241, 284, 469, 551, 826
BciT130I	CCWGG	4 cut(s)	147, 180, 287, 535
BcnI	CCSGG	1 cut(s)	122
BcoDI	GTCTC	4 cut(s)	95, 101, 136, 396
BfmI	CTRYAG	1 cut(s)	585
BisI	GCNGC	4 cut(s)	87, 90, 93, 804
BlsI	GCNGC	4 cut(s)	88, 91, 94, 805
Bme1390I	CCNGG	5 cut(s)	122, 147, 180, 287, 535
Bme18I	GGWCC	3 cut(s)	24, 632, 707
BmeRI	GACNNNNNGTC	1 cut(s)	705
BmgT120I	GGNCC	4 cut(s)	24, 48, 632, 707
BmiI	GGNNCC	4 cut(s)	25, 531, 708, 760
BmrFI	CCNGG	5 cut(s)	122, 147, 180, 287, 535
BmsI	GCATC	1 cut(s)	589
BpiI	GAAGAC	2 cut(s)	15, 244
BpmI	CTGGAG	1 cut(s)	201
Bpu14I	TTCGAA	1 cut(s)	491
BpuMI	CCSGG	1 cut(s)	122
BsaI	GGTCTC	1 cut(s)	95
BsaJI	CCNNGG	3 cut(s)	533, 534, 702
Bsc4I	CCNNNNNNNGG	3 cut(s)	292, 379, 511
Bse1I	ACTGG	1 cut(s)	256
BseBI	CCWGG	4 cut(s)	147, 180, 287, 535
BseDI	CCNNGG	3 cut(s)	533, 534, 702
BseGI	GGATG	2 cut(s)	295, 322
BseLI	CCNNNNNNNGG	3 cut(s)	292, 379, 511
BseMII	CTCAG	2 cut(s)	150, 780
BseNI	ACTGG	1 cut(s)	256
BseRI	GAGGAG	2 cut(s)	71, 414
BseXI	GCAGC	2 cut(s)	73, 790
BsgI	GTGCAG	1 cut(s)	621
Bsh1236I	CGCG	1 cut(s)	510
Bsh1285I	CGRYCG	1 cut(s)	702
BshFI	GGCC	3 cut(s)	5, 49, 178
BsiEI	CGRYCG	1 cut(s)	702
BsiSI	CCGG	2 cut(s)	38, 122
BslI	CCNNNNNNNGG	3 cut(s)	292, 379, 511
BsmAI	GTCTC	4 cut(s)	95, 101, 136, 396
BsmBI	CGTCTC	2 cut(s)	136, 396
BsmI	GAATGC	1 cut(s)	433
BsnI	GGCC	3 cut(s)	5, 49, 178
Bso31I	GGTCTC	1 cut(s)	95
Bsp119I	TTCGAA	1 cut(s)	491
Bsp143I	GATC	2 cut(s)	529, 622
BspACI	CCGC	4 cut(s)	27, 89, 92, 418
BspANI	GGCC	3 cut(s)	5, 49, 178
BspCNI	CTCAG	2 cut(s)	151, 781
BspFNI	CGCG	1 cut(s)	510
BspLI	GGNNCC	4 cut(s)	25, 531, 708, 760
BspMAI	CTGCAG	1 cut(s)	589
BspPI	GGATC	3 cut(s)	524, 537, 617
BspT104I	TTCGAA	1 cut(s)	491
BspTNI	GGTCTC	1 cut(s)	95
BsrI	ACTGG	1 cut(s)	256
BssECI	CCNNGG	3 cut(s)	533, 534, 702
BssMI	GATC	2 cut(s)	529, 622
Bst2UI	CCWGG	4 cut(s)	147, 180, 287, 535
Bst4CI	ACNGT	5 cut(s)	14, 74, 407, 498, 758
Bst6I	CTCTTC	3 cut(s)	38, 57, 622
BstBI	TTCGAA	1 cut(s)	491
BstDEI	CTNAG	2 cut(s)	159, 789
BstF5I	GGATG	2 cut(s)	295, 322
BstFNI	CGCG	1 cut(s)	510
BstKTI	GATC	2 cut(s)	532, 625
BstMAI	GTCTC	4 cut(s)	95, 101, 136, 396
BstMBI	GATC	2 cut(s)	529, 622
BstMCI	CGRYCG	1 cut(s)	702
BstMWI	GCNNNNNNNGC	2 cut(s)	92, 584
BstNI	CCWGG	4 cut(s)	147, 180, 287, 535
BstSCI	CCNGG	5 cut(s)	120, 145, 178, 285, 533
BstSFI	CTRYAG	1 cut(s)	585
BstUI	CGCG	1 cut(s)	510
BstV1I	GCAGC	2 cut(s)	73, 790
BstV2I	GAAGAC	2 cut(s)	15, 244
BstX2I	RGATCY	1 cut(s)	529
BstYI	RGATCY	1 cut(s)	529
BsuRI	GGCC	3 cut(s)	5, 49, 178
BtsCI	GGATG	2 cut(s)	295, 322
Cfr13I	GGNCC	4 cut(s)	24, 48, 632, 707
CseI	GACGC	1 cut(s)	118
Csp6I	GTAC	1 cut(s)	413
CspCI	CAANNNNNGTGG	2 cut(s)	591, 626
CviQI	GTAC	1 cut(s)	413
DdeI	CTNAG	2 cut(s)	159, 789
DpnI	GATC	2 cut(s)	531, 624
DpnII	GATC	2 cut(s)	529, 622
DraI	TTTAAA	1 cut(s)	573
DraIII	CACNNNGTG	1 cut(s)	733
DriI	GACNNNNNGTC	1 cut(s)	705
EaeI	YGGCCR	1 cut(s)	3
Eam1104I	CTCTTC	3 cut(s)	38, 57, 622
Eam1105I	GACNNNNNGTC	1 cut(s)	705
EarI	CTCTTC	3 cut(s)	38, 57, 622
Eco31I	GGTCTC	1 cut(s)	95
Eco47I	GGWCC	3 cut(s)	24, 632, 707
EcoO109I	RGGNCCY	2 cut(s)	632, 707
EcoRII	CCWGG	4 cut(s)	145, 178, 285, 533
Esp3I	CGTCTC	2 cut(s)	136, 396
FaiI	YATR	8 cut(s)	98, 270, 458, 460, 525, 597, 629, 689
FalI	AAGNNNNNCTT	2 cut(s)	646, 678
FauI	CCCGC	1 cut(s)	411
FblI	GTMKAC	1 cut(s)	814
Fnu4HI	GCNGC	4 cut(s)	87, 90, 93, 804
FokI	GGATG	2 cut(s)	302, 329
Fsp4HI	GCNGC	4 cut(s)	87, 90, 93, 804
GluI	GCNGC	4 cut(s)	87, 90, 93, 804
GsuI	CTGGAG	1 cut(s)	201
HaeIII	GGCC	3 cut(s)	5, 49, 178
HapII	CCGG	2 cut(s)	38, 122
HgaI	GACGC	1 cut(s)	118
HincII	GTYRAC	1 cut(s)	484
HindII	GTYRAC	1 cut(s)	484
HinfI	GANTC	6 cut(s)	298, 561, 614, 736, 793, 842
HpaII	CCGG	2 cut(s)	38, 122
HphI	GGTGA	4 cut(s)	307, 550, 566, 847
Hpy166II	GTNNAC	4 cut(s)	413, 484, 613, 815
Hpy188I	TCNGA	5 cut(s)	160, 232, 240, 622, 790
Hpy188III	TCNNGA	1 cut(s)	332
Hpy8I	GTNNAC	4 cut(s)	413, 484, 613, 815
HpyAV	CCTTC	3 cut(s)	373, 669, 826
HpyCH4III	ACNGT	5 cut(s)	14, 74, 407, 498, 758
HpyCH4IV	ACGT	1 cut(s)	486
HpyCH4V	TGCA	4 cut(s)	587, 602, 638, 827
HpyF10VI	GCNNNNNNNGC	2 cut(s)	92, 584
HpyF3I	CTNAG	2 cut(s)	159, 789
HpySE526I	ACGT	1 cut(s)	486
Kzo9I	GATC	2 cut(s)	529, 622
Lsp1109I	GCAGC	2 cut(s)	73, 790
LweI	GCATC	1 cut(s)	589
MaeII	ACGT	1 cut(s)	486
MaeIII	GTNAC	1 cut(s)	538
MalI	GATC	2 cut(s)	531, 624
MboI	GATC	2 cut(s)	529, 622
MboII	GAAGA	8 cut(s)	20, 55, 74, 211, 244, 341, 429, 609
MflI	RGATCY	1 cut(s)	529
MluCI	AATT	4 cut(s)	210, 363, 606, 776
MlyI	GAGTC	2 cut(s)	570, 608
MnlI	CCTC	9 cut(s)	39, 49, 52, 363, 392, 516, 520, 697, 720
MroXI	GAANNNNTTC	1 cut(s)	658
MseI	TTAA	2 cut(s)	572, 723
MspA1I	CMGCKG	4 cut(s)	29, 86, 304, 803
MspI	CCGG	2 cut(s)	38, 122
MspR9I	CCNGG	5 cut(s)	122, 147, 180, 287, 535
Mva1269I	GAATGC	1 cut(s)	433
MvaI	CCWGG	4 cut(s)	147, 180, 287, 535
MvnI	CGCG	1 cut(s)	510
MwoI	GCNNNNNNNGC	2 cut(s)	92, 584
NciI	CCSGG	1 cut(s)	122
NdeII	GATC	2 cut(s)	529, 622
NlaIV	GGNNCC	4 cut(s)	25, 531, 708, 760
NmeAIII	GCCGAG	1 cut(s)	409
NmuCI	GTSAC	1 cut(s)	538
NspV	TTCGAA	1 cut(s)	491
PasI	CCCWGGG	1 cut(s)	534
PctI	GAATGC	1 cut(s)	433
PdmI	GAANNNNTTC	1 cut(s)	658
PfeI	GAWTC	4 cut(s)	298, 736, 793, 842
PfoI	TCCNGGA	1 cut(s)	285
PkrI	GCNGC	4 cut(s)	88, 91, 94, 805
PleI	GAGTC	2 cut(s)	569, 608
PpsI	GAGTC	2 cut(s)	569, 608
PpuMI	RGGWCCY	2 cut(s)	632, 707
Psp5II	RGGWCCY	2 cut(s)	632, 707
Psp6I	CCWGG	4 cut(s)	145, 178, 285, 533
PspGI	CCWGG	4 cut(s)	145, 178, 285, 533
PspN4I	GGNNCC	4 cut(s)	25, 531, 708, 760
PspPI	GGNCC	4 cut(s)	24, 48, 632, 707
PspPPI	RGGWCCY	2 cut(s)	632, 707
PstI	CTGCAG	1 cut(s)	589
PsuI	RGATCY	1 cut(s)	529
PvuII	CAGCTG	3 cut(s)	86, 304, 803
RsaI	GTAC	1 cut(s)	414
RsaNI	GTAC	1 cut(s)	413
SaqAI	TTAA	2 cut(s)	572, 723
SatI	GCNGC	4 cut(s)	87, 90, 93, 804
Sau3AI	GATC	2 cut(s)	529, 622
Sau96I	GGNCC	4 cut(s)	24, 48, 632, 707
SbfI	CCTGCAGG	1 cut(s)	589
SchI	GAGTC	2 cut(s)	570, 608
ScrFI	CCNGG	5 cut(s)	122, 147, 180, 287, 535
SdaI	CCTGCAGG	1 cut(s)	589
SfaNI	GCATC	1 cut(s)	589
SfcI	CTRYAG	1 cut(s)	585
SfuI	TTCGAA	1 cut(s)	491
SinI	GGWCC	3 cut(s)	24, 632, 707
Sse8387I	CCTGCAGG	1 cut(s)	589
Sse9I	AATT	4 cut(s)	210, 363, 606, 776
SsiI	CCGC	4 cut(s)	27, 89, 92, 418
StyD4I	CCNGG	5 cut(s)	120, 145, 178, 285, 533
TaaI	ACNGT	5 cut(s)	14, 74, 407, 498, 758
TaiI	ACGT	1 cut(s)	489
TaqI	TCGA	2 cut(s)	491, 698
TaqII	GACCGA	3 cut(s)	119, 323, 716
TasI	AATT	4 cut(s)	210, 363, 606, 776
TatI	WGTACW	1 cut(s)	412
TauI	GCSGC	2 cut(s)	92, 95
TfiI	GAWTC	4 cut(s)	298, 736, 793, 842
Tru1I	TTAA	2 cut(s)	572, 723
Tru9I	TTAA	2 cut(s)	572, 723
TseFI	GTSAC	1 cut(s)	538
TseI	GCWGC	2 cut(s)	86, 803
Tsp45I	GTSAC	1 cut(s)	538
TspDTI	ATGAA	1 cut(s)	333
VpaK11BI	GGWCC	3 cut(s)	24, 632, 707
XapI	RAATTY	2 cut(s)	210, 776
XcmI	CCANNNNNNNNNTGG	1 cut(s)	382
XmiI	GTMKAC	1 cut(s)	814
XmnI	GAANNNNTTC	1 cut(s)	658

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