Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0005047

Physical Location & Seq

Genomic Coordinates Forward (+)

62574947 .. 62578396

Gene Structure 3450 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG416200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 768 bp

ATGGTCTTCCAGTCATCAACCTATGGAAAGGTTCTCGTCCTGGATGGGGTGATTCAGCTGACCGAAAGGGATGAATGTGCCTATCAAGAAATGATTACTCATCTTCCTCTCTGCTCAATTCCAAACCCCAAGAAGGTTTTGGTTATCGGTGGAGGAGACGGTGGTGTACTGCGGGAAGTGGCTCGTCATTCTTCTGTTGAGCAAATAGATATATGTGAGATTGATAAGATGGTTGTTGACGTTTCGAAACAGTTTTTCCCTCGTGTGGCTATTGGATATGAGGATCCCAGGGTGACACTCAATGTTGGTGATGGAGTCGCATTTTTAAGGGCTGTTCCTGCAGGAACTTATGATGCAATAATTGTGGACTCTTCTGATCCCATAGGTCCTGCACAAGAGCTTTTTGAGAAGCCCTTCTTTCAGTCGGTAGCAAACGCTCTCCGTCCAGGAGGAGTTGTGTGCACCCAGGCAGAGAGTATATGGCTTCACATGCACATCATTGAGGATATTGTGTCAAACTGCCACCAGATATTCAAAGGCTCTGTCAACTACGCATGGACAACAGTCCCTACATATCCAAGTGGAGTGATTGGTTTTATGCTTTGTTCGACCGAGGGTCCTCCTGTTGATTTTAAGCACCCTGTGAATCCAATCGCTGAAAATGACGGTTCCAAAGACCCCTTGAAATTTTACAACTCTGAGATTCACACAGCTGCTTTCTGTCTACCATCTTTTGCAAAGAAGGTGATTGAATCAATGGCAAAATGA

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

255

Amino Acids

27.86

Weight (kDa)

5.12

Isoelectric Point (pI)

49.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Spermine_synt_N	PF17284	1 - 22	3.9e-07	Spermidine synthase tetramerisation domain
Spermine_synth	PF01564	25 - 212	4.3e-79	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

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Publication-ready

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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)	724
AciI	CCGC	1 cut(s)	172
AclWI	GGATC	3 cut(s)	278, 291, 371
AcsI	RAATTY	1 cut(s)	686
AdeI	CACNNNGTG	1 cut(s)	643
AfaI	GTAC	1 cut(s)	168
AfiI	CCNNNNNNNGG	3 cut(s)	46, 133, 265
AgsI	TTSAA	3 cut(s)	535, 685, 752
AhdI	GACNNNNNGTC	1 cut(s)	615
AjnI	CCWGG	4 cut(s)	39, 287, 445, 465
AluBI	AGCT	3 cut(s)	58, 400, 713
AluI	AGCT	3 cut(s)	58, 400, 713
Alw21I	GWGCWC	1 cut(s)	464
Alw26I	GTCTC	1 cut(s)	150
Alw44I	GTGCAC	1 cut(s)	460
AlwI	GGATC	3 cut(s)	278, 291, 371
ApaLI	GTGCAC	1 cut(s)	460
ApeKI	GCWGC	1 cut(s)	713
ApoI	RAATTY	1 cut(s)	686
ArsI	GACNNNNNNTTYG	2 cut(s)	528, 560
Asp700I	GAANNNNTTC	1 cut(s)	413
AspS9I	GGNCC	2 cut(s)	386, 617
AsuHPI	GGTGA	4 cut(s)	61, 304, 320, 757
AsuII	TTCGAA	1 cut(s)	245
AvaII	GGWCC	2 cut(s)	386, 617
BaeGI	GKGCMC	1 cut(s)	464
BamHI	GGATCC	1 cut(s)	283
BauI	CACGAG	1 cut(s)	261
Bbv12I	GWGCWC	1 cut(s)	464
BbvI	GCAGC	1 cut(s)	700
BccI	CCATC	4 cut(s)	38, 223, 305, 736
BciT130I	CCWGG	4 cut(s)	41, 289, 447, 467
BcoDI	GTCTC	1 cut(s)	150
BfmI	CTRYAG	1 cut(s)	339
BisI	GCNGC	1 cut(s)	714
BlsI	GCNGC	1 cut(s)	715
Bme1390I	CCNGG	4 cut(s)	41, 289, 447, 467
Bme18I	GGWCC	2 cut(s)	386, 617
BmeRI	GACNNNNNGTC	1 cut(s)	615
BmgT120I	GGNCC	2 cut(s)	386, 617
BmiI	GGNNCC	3 cut(s)	285, 618, 670
BmrFI	CCNGG	4 cut(s)	41, 289, 447, 467
BmsI	GCATC	1 cut(s)	343
BoxI	GACNNNNGTC	1 cut(s)	563
Bpu14I	TTCGAA	1 cut(s)	245
BsaJI	CCNNGG	4 cut(s)	287, 288, 465, 612
BsaXI	ACNNNNNCTCC	2 cut(s)	441, 471
Bsc4I	CCNNNNNNNGG	3 cut(s)	46, 133, 265
Bse1I	ACTGG	1 cut(s)	10
BseBI	CCWGG	4 cut(s)	41, 289, 447, 467
BseDI	CCNNGG	4 cut(s)	287, 288, 465, 612
BseGI	GGATG	2 cut(s)	49, 76
BseLI	CCNNNNNNNGG	3 cut(s)	46, 133, 265
BseMII	CTCAG	1 cut(s)	690
BseNI	ACTGG	1 cut(s)	10
BseRI	GAGGAG	2 cut(s)	168, 465
BseSI	GKGCMC	1 cut(s)	464
BseXI	GCAGC	1 cut(s)	700
BsgI	GTGCAG	1 cut(s)	375
Bsh1285I	CGRYCG	1 cut(s)	612
BsiEI	CGRYCG	1 cut(s)	612
BsiHKAI	GWGCWC	1 cut(s)	464
BslFI	GGGAC	1 cut(s)	551
BslI	CCNNNNNNNGG	3 cut(s)	46, 133, 265
BsmAI	GTCTC	1 cut(s)	150
BsmBI	CGTCTC	1 cut(s)	150
BsmFI	GGGAC	1 cut(s)	551
Bsp119I	TTCGAA	1 cut(s)	245
Bsp1286I	GDGCHC	1 cut(s)	464
Bsp143I	GATC	2 cut(s)	283, 376
BspACI	CCGC	1 cut(s)	172
BspCNI	CTCAG	1 cut(s)	691
BspLI	GGNNCC	3 cut(s)	285, 618, 670
BspMAI	CTGCAG	1 cut(s)	343
BspPI	GGATC	3 cut(s)	278, 291, 371
BspT104I	TTCGAA	1 cut(s)	245
BsrI	ACTGG	1 cut(s)	10
BssECI	CCNNGG	4 cut(s)	287, 288, 465, 612
BssMI	GATC	2 cut(s)	283, 376
BssSI	CACGAG	1 cut(s)	261
Bst2BI	CACGAG	1 cut(s)	261
Bst2UI	CCWGG	4 cut(s)	41, 289, 447, 467
Bst4CI	ACNGT	4 cut(s)	161, 252, 565, 668
Bst6I	CTCTTC	1 cut(s)	376
BstBI	TTCGAA	1 cut(s)	245
BstDEI	CTNAG	1 cut(s)	699
BstF5I	GGATG	2 cut(s)	49, 76
BstKTI	GATC	2 cut(s)	286, 379
BstMAI	GTCTC	1 cut(s)	150
BstMBI	GATC	2 cut(s)	283, 376
BstMCI	CGRYCG	1 cut(s)	612
BstMWI	GCNNNNNNNGC	2 cut(s)	338, 490
BstNI	CCWGG	4 cut(s)	41, 289, 447, 467
BstNSI	RCATGY	1 cut(s)	493
BstPAI	GACNNNNGTC	1 cut(s)	563
BstSCI	CCNGG	4 cut(s)	39, 287, 445, 465
BstSFI	CTRYAG	1 cut(s)	339
BstSLI	GKGCMC	1 cut(s)	464
BstV1I	GCAGC	1 cut(s)	700
BstX2I	RGATCY	1 cut(s)	283
BstYI	RGATCY	1 cut(s)	283
BtsCI	GGATG	2 cut(s)	49, 76
Cfr13I	GGNCC	2 cut(s)	386, 617
Csp6I	GTAC	1 cut(s)	167
CspCI	CAANNNNNGTGG	2 cut(s)	345, 380
CviAII	CATG	2 cut(s)	490, 555
CviJI	RGCY	9 cut(s)	58, 182, 269, 332, 400, 412, 484, 540, 713
CviKI_1	RGCY	9 cut(s)	58, 182, 269, 332, 400, 412, 484, 540, 713
CviQI	GTAC	1 cut(s)	167
DdeI	CTNAG	1 cut(s)	699
DpnI	GATC	2 cut(s)	285, 378
DpnII	GATC	2 cut(s)	283, 376
DraIII	CACNNNGTG	1 cut(s)	643
DriI	GACNNNNNGTC	1 cut(s)	615
Eam1104I	CTCTTC	1 cut(s)	376
Eam1105I	GACNNNNNGTC	1 cut(s)	615
EarI	CTCTTC	1 cut(s)	376
Eco47I	GGWCC	2 cut(s)	386, 617
EcoO109I	RGGNCCY	2 cut(s)	386, 617
EcoRII	CCWGG	4 cut(s)	39, 287, 445, 465
Esp3I	CGTCTC	1 cut(s)	150
FaeI	CATG	2 cut(s)	493, 558
FalI	AAGNNNNNCTT	2 cut(s)	401, 433
FaqI	GGGAC	1 cut(s)	551
FatI	CATG	2 cut(s)	489, 554
FauI	CCCGC	1 cut(s)	165
FblI	GTMKAC	1 cut(s)	724
Fnu4HI	GCNGC	1 cut(s)	714
FokI	GGATG	2 cut(s)	56, 83
Fsp4HI	GCNGC	1 cut(s)	714
GluI	GCNGC	1 cut(s)	714
Hin1II	CATG	2 cut(s)	493, 558
HincII	GTYRAC	2 cut(s)	238, 547
HindII	GTYRAC	2 cut(s)	238, 547
HinfI	GANTC	6 cut(s)	52, 315, 368, 646, 703, 752
HphI	GGTGA	4 cut(s)	61, 304, 320, 757
Hpy166II	GTNNAC	6 cut(s)	167, 238, 367, 462, 547, 725
Hpy188I	TCNGA	2 cut(s)	376, 700
Hpy188III	TCNNGA	1 cut(s)	86
Hpy8I	GTNNAC	6 cut(s)	167, 238, 367, 462, 547, 725
HpyAV	CCTTC	3 cut(s)	127, 424, 736
HpyCH4III	ACNGT	4 cut(s)	161, 252, 565, 668
HpyCH4IV	ACGT	1 cut(s)	240
HpyCH4V	TGCA	6 cut(s)	341, 356, 392, 462, 493, 737
HpyF10VI	GCNNNNNNNGC	2 cut(s)	338, 490
HpyF3I	CTNAG	1 cut(s)	699
HpySE526I	ACGT	1 cut(s)	240
Hsp92II	CATG	2 cut(s)	493, 558
Kzo9I	GATC	2 cut(s)	283, 376
Lsp1109I	GCAGC	1 cut(s)	700
LweI	GCATC	1 cut(s)	343
MaeII	ACGT	1 cut(s)	240
MaeIII	GTNAC	1 cut(s)	292
MalI	GATC	2 cut(s)	285, 378
MboI	GATC	2 cut(s)	283, 376
MboII	GAAGA	3 cut(s)	95, 183, 363
MflI	RGATCY	1 cut(s)	283
MhlI	GDGCHC	1 cut(s)	464
MluCI	AATT	3 cut(s)	117, 360, 686
MlyI	GAGTC	2 cut(s)	324, 362
MnlI	CCTC	8 cut(s)	117, 146, 270, 274, 443, 496, 607, 630
MroXI	GAANNNNTTC	1 cut(s)	413
MseI	TTAA	2 cut(s)	326, 633
MspA1I	CMGCKG	2 cut(s)	58, 713
MspR9I	CCNGG	4 cut(s)	41, 289, 447, 467
MvaI	CCWGG	4 cut(s)	41, 289, 447, 467
MwoI	GCNNNNNNNGC	2 cut(s)	338, 490
NdeII	GATC	2 cut(s)	283, 376
NlaIII	CATG	2 cut(s)	493, 558
NlaIV	GGNNCC	3 cut(s)	285, 618, 670
NmuCI	GTSAC	1 cut(s)	292
NspI	RCATGY	1 cut(s)	493
NspV	TTCGAA	1 cut(s)	245
PasI	CCCWGGG	1 cut(s)	288
PdmI	GAANNNNTTC	1 cut(s)	413
PfeI	GAWTC	4 cut(s)	52, 646, 703, 752
PfoI	TCCNGGA	2 cut(s)	39, 445
PkrI	GCNGC	1 cut(s)	715
PleI	GAGTC	2 cut(s)	323, 362
PpsI	GAGTC	2 cut(s)	323, 362
PpuMI	RGGWCCY	2 cut(s)	386, 617
PshAI	GACNNNNGTC	1 cut(s)	563
Psp5II	RGGWCCY	2 cut(s)	386, 617
Psp6I	CCWGG	4 cut(s)	39, 287, 445, 465
PspGI	CCWGG	4 cut(s)	39, 287, 445, 465
PspN4I	GGNNCC	3 cut(s)	285, 618, 670
PspPI	GGNCC	2 cut(s)	386, 617
PspPPI	RGGWCCY	2 cut(s)	386, 617
PstI	CTGCAG	1 cut(s)	343
PsuI	RGATCY	1 cut(s)	283
PvuII	CAGCTG	2 cut(s)	58, 713
RsaI	GTAC	1 cut(s)	168
RsaNI	GTAC	1 cut(s)	167
SaqAI	TTAA	2 cut(s)	326, 633
SatI	GCNGC	1 cut(s)	714
Sau3AI	GATC	2 cut(s)	283, 376
Sau96I	GGNCC	2 cut(s)	386, 617
SbfI	CCTGCAGG	1 cut(s)	343
SchI	GAGTC	2 cut(s)	324, 362
ScrFI	CCNGG	4 cut(s)	41, 289, 447, 467
SdaI	CCTGCAGG	1 cut(s)	343
SduI	GDGCHC	1 cut(s)	464
SetI	ASST	9 cut(s)	23, 33, 60, 138, 243, 388, 402, 715, 747
SfaNI	GCATC	1 cut(s)	343
SfcI	CTRYAG	1 cut(s)	339
SfuI	TTCGAA	1 cut(s)	245
SinI	GGWCC	2 cut(s)	386, 617
Sse8387I	CCTGCAGG	1 cut(s)	343
Sse9I	AATT	3 cut(s)	117, 360, 686
SsiI	CCGC	1 cut(s)	172
StyD4I	CCNGG	4 cut(s)	39, 287, 445, 465
TaaI	ACNGT	4 cut(s)	161, 252, 565, 668
TaiI	ACGT	1 cut(s)	243
TaqI	TCGA	2 cut(s)	245, 608
TaqII	GACCGA	2 cut(s)	77, 626
TasI	AATT	3 cut(s)	117, 360, 686
TatI	WGTACW	1 cut(s)	166
TfiI	GAWTC	4 cut(s)	52, 646, 703, 752
Tru1I	TTAA	2 cut(s)	326, 633
Tru9I	TTAA	2 cut(s)	326, 633
TseFI	GTSAC	1 cut(s)	292
TseI	GCWGC	1 cut(s)	713
Tsp45I	GTSAC	1 cut(s)	292
TspDTI	ATGAA	1 cut(s)	87
TspGWI	ACGGA	1 cut(s)	431
VneI	GTGCAC	1 cut(s)	460
VpaK11BI	GGWCC	2 cut(s)	386, 617
XapI	RAATTY	1 cut(s)	686
XceI	RCATGY	1 cut(s)	493
XcmI	CCANNNNNNNNNTGG	1 cut(s)	136
XmiI	GTMKAC	1 cut(s)	724
XmnI	GAANNNNTTC	1 cut(s)	413

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