Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0003098

Physical Location & Seq

Genomic Coordinates Forward (+)

4689636 .. 4693293

Gene Structure 3658 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG062300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 798 bp

ATGGTTTTTCATGTTTCTGGTAATGTTGTCTCAGATTTCTTTGAAGAGGAGGAAGTCAATCCGTTCTCGAATCATGGAAGCGTTGCTCCTGCCAAGAACTCCAGACTACCACCTCTGCCTCCAGAACGTGCTGGTTTCAATTATGGTATTGGTGAAATCGTTGATATACCTATTGATGGAAGTGGGTTGAGTTTGAATTTAGAGGCTGATTTGAAAAAGAGGGAGAGGGAACTCCAAGCTAAAGAATCTGAACTGAGAAAGCGTGAAGAGAATGTAAAACAGAAAGAGGATGCTGCAGCACGAGCTGGAATTGTTCTGGAGGAAAAAAATTGGCCTCCTTTCTTTCCACTTATCCATAATGATATTGCAAACGAAATACCAATTCATTTACAAAGGGTGATGTATGTTGCATTTACAACATGGTTAGGAATTGTTGCTTGCCTATTCTGGAATATAATAGCTGTGACTACTGCCTGGATTAAGAGTGAAGGGGTGAAAATTTGGTTCCTTGCGGTTATATATTTCATTGCTGGGGCCCCTGGATCTTATGTGTTGTGGTACCGTCCTCTTTGCCGTGTGTTCAGTGCTTTGAAGTACGGATGGTTTTTCATGTTTCTGATCCACATTGGCTTCTGCATCTTTGCTGCGGTTGCTCCCCCTATAATGTTCAAAGGAAAATCCTTCATTGGCATTCTGGCTGCAATTGATGTTCGAAGTGATCATGCTTTGGTTAGGCAAGTATACATGTACGTCCCGGGAAGTGGTAAAGCTGCTAAAATGAAGCGTAAGGGAGCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005769 GO:0005794 GO:0005802 GO:0005886 GO:0006810 GO:0006897 GO:0006898 GO:0008150 GO:0012505 GO:0016020 GO:0016192 GO:0031410 GO:0031982 GO:0031984 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044431 GO:0044444 GO:0044446 GO:0044464 GO:0051179 GO:0051234 GO:0071944 GO:0097708 GO:0098657 GO:0098791

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

SCAMP

Protein Analysis

265

Amino Acids

29.79

Weight (kDa)

8.87

Isoelectric Point (pI)

46.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SCAMP	PF04144	108 - 250	9.8e-39	SCAMP family

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: OG0003098)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11180 AT1G11180 AT1G11180 AT1G61250 AT1G61250 AT2G20840 AT2G20840 AT2G20840
fragaria_vesca	FvH4_3g04440
malus_domestica	MD05G1323100.v1.1 MD10G1300900.v1.1
prunus_persica	Prupe.4G039500_v2.0.a1 Prupe.4G039500_v2.0.a1
pyrus_communis	pycom05g29740 pycom10g25380
rosa_chinensis	RchiOBHm_Chr5g0006841 RchiOBHm_Chr5g0006891 RchiOBHm_Chr5g0007151 RchiOBHm_Chr5g0007321
rosa_laevigata	RLG00000031433 RLG00000031444
rosa_multiflora	Rmu_sc0001044.1_g000035 Rmu_sc0001838.1_g000001 Rmu_sc0003826.1_g000003
rosa_roxburghii	Rroxscaffold_1G00069210
rosa_rugosa	Rorug04G0424900
rosa_samantha	Rh5AG052600 Rh5AG053300 Rh5BG051500 Rh5BG052300 Rh5CG060200 Rh5CG060900 Rh5CG062300 Rh5DG050800
rosa_wichuraiana	Rw5G005140 Rw5G005200 Rw5G005510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	558
AccB1I	GGYRCC	1 cut(s)	558
AccI	GTMKAC	1 cut(s)	741
AciI	CCGC	2 cut(s)	512, 647
AclWI	GGATC	2 cut(s)	550, 613
AcsI	RAATTY	2 cut(s)	196, 498
AfaI	GTAC	3 cut(s)	560, 596, 749
AfiI	CCNNNNNNNGG	2 cut(s)	176, 761
AflIII	ACRYGT	1 cut(s)	744
AgsI	TTSAA	6 cut(s)	44, 139, 196, 214, 592, 670
AjnI	CCWGG	2 cut(s)	473, 538
AluBI	AGCT	4 cut(s)	239, 305, 461, 770
AluI	AGCT	4 cut(s)	239, 305, 461, 770
Alw26I	GTCTC	1 cut(s)	34
AlwI	GGATC	2 cut(s)	550, 613
Ama87I	CYCGRG	1 cut(s)	754
AoxI	GGCC	2 cut(s)	332, 534
ApaI	GGGCCC	1 cut(s)	538
ApeKI	GCWGC	5 cut(s)	293, 296, 644, 698, 770
ApoI	RAATTY	2 cut(s)	196, 498
Asp718I	GGTACC	1 cut(s)	558
AspS9I	GGNCC	2 cut(s)	534, 535
AsuC2I	CCSGG	2 cut(s)	755, 756
AsuHPI	GGTGA	3 cut(s)	164, 409, 505
AsuII	TTCGAA	1 cut(s)	712
AvaI	CYCGRG	1 cut(s)	754
BaeGI	GKGCMC	1 cut(s)	538
BanI	GGYRCC	1 cut(s)	558
BanII	GRGCYC	1 cut(s)	538
BauI	CACGAG	1 cut(s)	300
BbvI	GCAGC	5 cut(s)	280, 308, 631, 685, 757
BccI	CCATC	2 cut(s)	170, 594
BceAI	ACGGC	1 cut(s)	558
BciT130I	CCWGG	2 cut(s)	475, 540
BclI	TGATCA	1 cut(s)	718
BcnI	CCSGG	2 cut(s)	755, 756
BcoDI	GTCTC	1 cut(s)	34
BfmI	CTRYAG	1 cut(s)	294
BisI	GCNGC	5 cut(s)	294, 297, 645, 699, 771
BlsI	GCNGC	5 cut(s)	295, 298, 646, 700, 772
Bme1390I	CCNGG	4 cut(s)	475, 540, 755, 756
BmeT110I	CYCGRG	1 cut(s)	754
BmgT120I	GGNCC	2 cut(s)	534, 535
BmiI	GGNNCC	5 cut(s)	506, 535, 536, 537, 560
BmrFI	CCNGG	4 cut(s)	475, 540, 755, 756
BmsI	GCATC	2 cut(s)	280, 645
BpmI	CTGGAG	3 cut(s)	85, 105, 338
Bpu14I	TTCGAA	1 cut(s)	712
BpuMI	CCSGG	2 cut(s)	755, 756
BsaJI	CCNNGG	2 cut(s)	538, 754
Bsc4I	CCNNNNNNNGG	2 cut(s)	176, 761
Bse3DI	GCAATG	1 cut(s)	525
BseBI	CCWGG	2 cut(s)	475, 540
BseDI	CCNNGG	2 cut(s)	538, 754
BseGI	GGATG	2 cut(s)	295, 605
BseLI	CCNNNNNNNGG	2 cut(s)	176, 761
BseMI	GCAATG	1 cut(s)	525
BseMII	CTCAG	2 cut(s)	45, 245
BseRI	GAGGAG	1 cut(s)	62
BseSI	GKGCMC	1 cut(s)	538
BseXI	GCAGC	5 cut(s)	280, 308, 631, 685, 757
BseYI	CCCAGC	1 cut(s)	530
BshFI	GGCC	2 cut(s)	334, 536
BshNI	GGYRCC	1 cut(s)	558
BsiHKCI	CYCGRG	1 cut(s)	754
BsiSI	CCGG	1 cut(s)	755
BslFI	GGGAC	1 cut(s)	737
BslI	CCNNNNNNNGG	2 cut(s)	176, 761
BsmAI	GTCTC	1 cut(s)	34
BsmFI	GGGAC	1 cut(s)	737
BsmI	GAATGC	1 cut(s)	690
BsnI	GGCC	2 cut(s)	334, 536
BsoBI	CYCGRG	1 cut(s)	754
Bsp119I	TTCGAA	1 cut(s)	712
Bsp120I	GGGCCC	1 cut(s)	534
Bsp1286I	GDGCHC	1 cut(s)	538
Bsp143I	GATC	3 cut(s)	542, 618, 718
BspACI	CCGC	2 cut(s)	512, 647
BspANI	GGCC	2 cut(s)	334, 536
BspCNI	CTCAG	2 cut(s)	44, 246
BspLI	GGNNCC	5 cut(s)	506, 535, 536, 537, 560
BspMAI	CTGCAG	1 cut(s)	298
BspPI	GGATC	2 cut(s)	550, 613
BspT104I	TTCGAA	1 cut(s)	712
BspT107I	GGYRCC	1 cut(s)	558
BsrDI	GCAATG	1 cut(s)	525
BssECI	CCNNGG	2 cut(s)	538, 754
BssMI	GATC	3 cut(s)	542, 618, 718
BssNAI	GTATAC	1 cut(s)	742
BssSI	CACGAG	1 cut(s)	300
Bst1107I	GTATAC	1 cut(s)	742
Bst2BI	CACGAG	1 cut(s)	300
Bst2UI	CCWGG	2 cut(s)	475, 540
Bst4CI	ACNGT	1 cut(s)	563
Bst6I	CTCTTC	2 cut(s)	39, 261
BstBI	TTCGAA	1 cut(s)	712
BstC8I	GCNNGC	1 cut(s)	439
BstDEI	CTNAG	2 cut(s)	31, 254
BstF5I	GGATG	2 cut(s)	295, 605
BstKTI	GATC	3 cut(s)	545, 621, 721
BstMAI	GTCTC	1 cut(s)	34
BstMBI	GATC	3 cut(s)	542, 618, 718
BstMWI	GCNNNNNNNGC	2 cut(s)	302, 650
BstNI	CCWGG	2 cut(s)	475, 540
BstNSI	RCATGY	1 cut(s)	748
BstSCI	CCNGG	4 cut(s)	473, 538, 753, 754
BstSFI	CTRYAG	1 cut(s)	294
BstSLI	GKGCMC	1 cut(s)	538
BstV1I	GCAGC	5 cut(s)	280, 308, 631, 685, 757
BstX2I	RGATCY	1 cut(s)	542
BstYI	RGATCY	1 cut(s)	542
BstZ17I	GTATAC	1 cut(s)	742
BsuRI	GGCC	2 cut(s)	334, 536
BtsCI	GGATG	2 cut(s)	295, 605
BtsIMutI	CAGTG	1 cut(s)	589
Cac8I	GCNNGC	1 cut(s)	439
Cfr13I	GGNCC	2 cut(s)	534, 535
Cfr9I	CCCGGG	1 cut(s)	754
Csp6I	GTAC	3 cut(s)	559, 595, 748
CviAII	CATG	7 cut(s)	11, 74, 420, 610, 722, 745, 795
CviJI	RGCY	9 cut(s)	206, 239, 305, 334, 461, 536, 630, 698, 770
CviKI_1	RGCY	9 cut(s)	206, 239, 305, 334, 461, 536, 630, 698, 770
CviQI	GTAC	3 cut(s)	559, 595, 748
DdeI	CTNAG	2 cut(s)	31, 254
DpnI	GATC	3 cut(s)	544, 620, 720
DpnII	GATC	3 cut(s)	542, 618, 718
Eam1104I	CTCTTC	2 cut(s)	39, 261
EarI	CTCTTC	2 cut(s)	39, 261
Eco24I	GRGCYC	1 cut(s)	538
Eco88I	CYCGRG	1 cut(s)	754
EcoO109I	RGGNCCY	2 cut(s)	534, 535
EcoRII	CCWGG	2 cut(s)	473, 538
EcoT38I	GRGCYC	1 cut(s)	538
FaeI	CATG	7 cut(s)	14, 77, 423, 613, 725, 748, 798
FaqI	GGGAC	1 cut(s)	737
FatI	CATG	7 cut(s)	10, 73, 419, 609, 721, 744, 794
FbaI	TGATCA	1 cut(s)	718
FblI	GTMKAC	1 cut(s)	741
Fnu4HI	GCNGC	5 cut(s)	294, 297, 645, 699, 771
FokI	GGATG	2 cut(s)	302, 612
FriOI	GRGCYC	1 cut(s)	538
Fsp4HI	GCNGC	5 cut(s)	294, 297, 645, 699, 771
GluI	GCNGC	5 cut(s)	294, 297, 645, 699, 771
GsaI	CCCAGC	1 cut(s)	534
GsuI	CTGGAG	3 cut(s)	85, 105, 338
HaeIII	GGCC	2 cut(s)	334, 536
HapII	CCGG	1 cut(s)	755
Hin1II	CATG	7 cut(s)	14, 77, 423, 613, 725, 748, 798
HinfI	GANTC	2 cut(s)	70, 245
HpaII	CCGG	1 cut(s)	755
HphI	GGTGA	3 cut(s)	164, 409, 505
Hpy166II	GTNNAC	1 cut(s)	742
Hpy188I	TCNGA	3 cut(s)	34, 250, 618
Hpy188III	TCNNGA	5 cut(s)	67, 102, 122, 317, 448
Hpy8I	GTNNAC	1 cut(s)	742
HpyAV	CCTTC	2 cut(s)	482, 691
HpyCH4III	ACNGT	1 cut(s)	563
HpyCH4IV	ACGT	2 cut(s)	127, 750
HpyCH4V	TGCA	5 cut(s)	296, 368, 410, 636, 701
HpyF10VI	GCNNNNNNNGC	2 cut(s)	302, 650
HpyF3I	CTNAG	2 cut(s)	31, 254
HpySE526I	ACGT	2 cut(s)	127, 750
Hsp92II	CATG	7 cut(s)	14, 77, 423, 613, 725, 748, 798
KpnI	GGTACC	1 cut(s)	562
Ksp22I	TGATCA	1 cut(s)	718
Kzo9I	GATC	3 cut(s)	542, 618, 718
LmnI	GCTCC	3 cut(s)	91, 658, 791
Lsp1109I	GCAGC	5 cut(s)	280, 308, 631, 685, 757
LweI	GCATC	2 cut(s)	280, 645
MaeII	ACGT	2 cut(s)	127, 750
MaeIII	GTNAC	1 cut(s)	463
MalI	GATC	3 cut(s)	544, 620, 720
MboI	GATC	3 cut(s)	542, 618, 718
MboII	GAAGA	2 cut(s)	56, 278
MfeI	CAATTG	1 cut(s)	702
MflI	RGATCY	1 cut(s)	542
MhlI	GDGCHC	1 cut(s)	538
MluCI	AATT	8 cut(s)	139, 196, 309, 328, 381, 429, 498, 702
MseI	TTAA	1 cut(s)	480
MspI	CCGG	1 cut(s)	755
MspR9I	CCNGG	4 cut(s)	475, 540, 755, 756
MunI	CAATTG	1 cut(s)	702
Mva1269I	GAATGC	1 cut(s)	690
MvaI	CCWGG	2 cut(s)	475, 540
MwoI	GCNNNNNNNGC	2 cut(s)	302, 650
NciI	CCSGG	2 cut(s)	755, 756
NdeII	GATC	3 cut(s)	542, 618, 718
NlaIII	CATG	7 cut(s)	14, 77, 423, 613, 725, 748, 798
NlaIV	GGNNCC	5 cut(s)	506, 535, 536, 537, 560
NmuCI	GTSAC	1 cut(s)	463
NspI	RCATGY	1 cut(s)	748
NspV	TTCGAA	1 cut(s)	712
PciI	ACATGT	1 cut(s)	744
PctI	GAATGC	1 cut(s)	690
PfeI	GAWTC	2 cut(s)	70, 245
PkrI	GCNGC	5 cut(s)	295, 298, 646, 700, 772
PscI	ACATGT	1 cut(s)	744
Psp6I	CCWGG	2 cut(s)	473, 538
PspFI	CCCAGC	1 cut(s)	530
PspGI	CCWGG	2 cut(s)	473, 538
PspN4I	GGNNCC	5 cut(s)	506, 535, 536, 537, 560
PspOMI	GGGCCC	1 cut(s)	534
PspPI	GGNCC	2 cut(s)	534, 535
PstI	CTGCAG	1 cut(s)	298
PsuI	RGATCY	1 cut(s)	542
RsaI	GTAC	3 cut(s)	560, 596, 749
RsaNI	GTAC	3 cut(s)	559, 595, 748
SaqAI	TTAA	1 cut(s)	480
SatI	GCNGC	5 cut(s)	294, 297, 645, 699, 771
Sau3AI	GATC	3 cut(s)	542, 618, 718
Sau96I	GGNCC	2 cut(s)	534, 535
ScrFI	CCNGG	4 cut(s)	475, 540, 755, 756
SduI	GDGCHC	1 cut(s)	538
SetI	ASST	8 cut(s)	115, 130, 172, 241, 307, 463, 753, 772
SfaNI	GCATC	2 cut(s)	280, 645
SfcI	CTRYAG	1 cut(s)	294
SfuI	TTCGAA	1 cut(s)	712
SmaI	CCCGGG	1 cut(s)	756
Sse9I	AATT	8 cut(s)	139, 196, 309, 328, 381, 429, 498, 702
SsiI	CCGC	2 cut(s)	512, 647
StyD4I	CCNGG	4 cut(s)	473, 538, 753, 754
TaaI	ACNGT	1 cut(s)	563
TaiI	ACGT	2 cut(s)	130, 753
TaqI	TCGA	2 cut(s)	68, 712
TasI	AATT	8 cut(s)	139, 196, 309, 328, 381, 429, 498, 702
TfiI	GAWTC	2 cut(s)	70, 245
Tru1I	TTAA	1 cut(s)	480
Tru9I	TTAA	1 cut(s)	480
TscAI	CASTG	1 cut(s)	589
TseFI	GTSAC	1 cut(s)	463
TseI	GCWGC	5 cut(s)	293, 296, 644, 698, 770
Tsp45I	GTSAC	1 cut(s)	463
TspDTI	ATGAA	5 cut(s)	374, 514, 598, 673, 794
TspGWI	ACGGA	2 cut(s)	51, 612
TspMI	CCCGGG	1 cut(s)	754
TspRI	CASTG	1 cut(s)	589
XapI	RAATTY	2 cut(s)	196, 498
XceI	RCATGY	1 cut(s)	748
XmaI	CCCGGG	1 cut(s)	754
XmiI	GTMKAC	1 cut(s)	741

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