Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0006560

Physical Location & Seq

Genomic Coordinates Reverse (-)

5089134 .. 5093102

Gene Structure 3969 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG060400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 666 bp

ATGGCGAATCGACGGTGCCTCCAACTCCTGACCCGCCGCGTCTCCGCCCTATTCTCAGCCAACCCACCATTCCACACCCTCTCAACCCCACCTCCTCCCCTCTCTACCCAACAACCCCTCATCTCCAACTCCCCACTCGTTTTCACCCCCCATTGGTCCGCCCACACCCGCCATTTCTCGTCGGACCGAAACGATGACGTAAATGAGGACAGTCAAGACGACGACGACGATGAAATTGGGTACAGTAGTGACGACGGGAGTTTATCGAAGAATGGTGGGTCGAAAAGAGAGTACACGGCGGAGGAGATGGAGGCGGAGGCGGCGGGTATTGGGTACAAAGTGGTTGGGCCGCTTGAGAAGACTGATGATGGGGTTTTCAAGCCCTATGAACCCGTTTTCGCTGTCATTCAGATTGGTTCGCATCAGTTCAAAGTTAGTAATGGGGACTCCATTTTCACTGAAAGATTGAAATTTTGCGAGGTCAATGATAAGGTATGTACATTTTTAGGGTTGTGTGTTTTAACTGCTACGAGATCATTGATTGGTATATGGGTAAATTTTGGAAAATTTGCCGAAAGAAATGAATGTTCAGTGGATGAGGTTTGCAGAAATCGAATTAGAATATGCATTTTGAGGTCTTGTAGCTTACAATGCATCTGCTGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000741 GO:0003674 GO:0003676 GO:0003677 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006996 GO:0006997 GO:0007275 GO:0008150 GO:0009553 GO:0009555 GO:0009559 GO:0009561 GO:0009566 GO:0009567 GO:0009987 GO:0010197 GO:0016043 GO:0019953 GO:0022414 GO:0030154 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044444 GO:0044464 GO:0044703 GO:0048229 GO:0048284 GO:0048856 GO:0048869 GO:0051704 GO:0071840 GO:0097159 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_L21p

Protein Analysis

221

Amino Acids

24.62

Weight (kDa)

5.26

Isoelectric Point (pI)

41.21

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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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: OG0006560)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G30930
fragaria_vesca	FvH4_3g09190
malus_domestica	MD05G1312600.v1.1 MD10G1294400.v1.1
prunus_persica	Prupe.4G047500_v2.0.a1 Prupe.4G047500_v2.0.a1 Prupe.4G047500_v2.0.a1 Prupe.4G047500_v2.0.a1 Prupe.4G047500_v2.0.a1
pyrus_communis	pycom05g29050 pycom10g24610
rosa_chinensis	RchiOBHm_Chr5g0008411
rosa_laevigata	RLG00000031342 RLG00000031387 RLG00000031569 RLG00000035355
rosa_multiflora	Rmu_sc0004326.1_g000002
rosa_roxburghii	Rroxscaffold_1G00068080
rosa_rugosa	Rorug04G0435600
rosa_samantha	Rh5AG064300 Rh5BG061500 Rh5CG071400 Rh5CG071700 Rh5DG060400 Rh5DG064100
rosa_wichuraiana	Rw5G005650

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	15
AccII	CGCG	1 cut(s)	39
AcsI	RAATTY	3 cut(s)	470, 556, 566
AfaI	GTAC	4 cut(s)	242, 293, 335, 499
AfiI	CCNNNNNNNGG	1 cut(s)	153
AgsI	TTSAA	3 cut(s)	379, 430, 469
AjuI	GAANNNNNNNTTGG	2 cut(s)	53, 85
AluBI	AGCT	1 cut(s)	645
AluI	AGCT	1 cut(s)	645
Alw26I	GTCTC	1 cut(s)	46
AoxI	GGCC	1 cut(s)	347
ApoI	RAATTY	3 cut(s)	470, 556, 566
AspS9I	GGNCC	3 cut(s)	156, 184, 347
AsuHPI	GGTGA	1 cut(s)	136
AvaII	GGWCC	2 cut(s)	156, 184
BaeI	ACNNNNGTAYC	2 cut(s)	232, 265
BanI	GGYRCC	1 cut(s)	15
BbsI	GAAGAC	1 cut(s)	365
BccI	CCATC	2 cut(s)	301, 362
BceAI	ACGGC	1 cut(s)	312
BcoDI	GTCTC	1 cut(s)	46
BisI	GCNGC	3 cut(s)	37, 321, 350
BlsI	GCNGC	3 cut(s)	38, 322, 351
Bme18I	GGWCC	2 cut(s)	156, 184
BmgT120I	GGNCC	3 cut(s)	156, 184, 347
BmiI	GGNNCC	1 cut(s)	17
BmsI	GCATC	1 cut(s)	430
BpiI	GAAGAC	1 cut(s)	365
BpuEI	CTTGAG	1 cut(s)	374
BsaXI	ACNNNNNCTCC	3 cut(s)	33, 76, 106
Bsc4I	CCNNNNNNNGG	1 cut(s)	153
BseGI	GGATG	1 cut(s)	601
BseLI	CCNNNNNNNGG	1 cut(s)	153
BseMII	CTCAG	1 cut(s)	69
BseRI	GAGGAG	2 cut(s)	84, 317
Bsh1236I	CGCG	1 cut(s)	39
BshFI	GGCC	1 cut(s)	349
BshNI	GGYRCC	1 cut(s)	15
BslFI	GGGAC	1 cut(s)	458
BslI	CCNNNNNNNGG	1 cut(s)	153
BsmAI	GTCTC	1 cut(s)	46
BsmBI	CGTCTC	1 cut(s)	46
BsmFI	GGGAC	1 cut(s)	458
BsnI	GGCC	1 cut(s)	349
Bsp1407I	TGTACA	1 cut(s)	497
Bsp143I	GATC	1 cut(s)	533
BspANI	GGCC	1 cut(s)	349
BspCNI	CTCAG	1 cut(s)	68
BspFNI	CGCG	1 cut(s)	39
BspLI	GGNNCC	1 cut(s)	17
BspT107I	GGYRCC	1 cut(s)	15
BsrGI	TGTACA	1 cut(s)	497
BssMI	GATC	1 cut(s)	533
Bst4CI	ACNGT	3 cut(s)	15, 212, 245
BstAUI	TGTACA	1 cut(s)	497
BstDEI	CTNAG	1 cut(s)	55
BstF5I	GGATG	1 cut(s)	601
BstFNI	CGCG	1 cut(s)	39
BstKTI	GATC	1 cut(s)	536
BstMAI	GTCTC	1 cut(s)	46
BstMBI	GATC	1 cut(s)	533
BstMWI	GCNNNNNNNGC	2 cut(s)	320, 651
BstUI	CGCG	1 cut(s)	39
BstV2I	GAAGAC	1 cut(s)	365
BsuRI	GGCC	1 cut(s)	349
BtsCI	GGATG	1 cut(s)	601
BtsIMutI	CAGTG	2 cut(s)	456, 597
Cfr13I	GGNCC	3 cut(s)	156, 184, 347
CpoI	CGGWCCG	1 cut(s)	184
CseI	GACGC	1 cut(s)	28
Csp6I	GTAC	4 cut(s)	241, 292, 334, 498
CspI	CGGWCCG	1 cut(s)	184
CviJI	RGCY	4 cut(s)	59, 349, 382, 645
CviKI_1	RGCY	4 cut(s)	59, 349, 382, 645
CviQI	GTAC	4 cut(s)	241, 292, 334, 498
DdeI	CTNAG	1 cut(s)	55
DpnI	GATC	1 cut(s)	535
DpnII	GATC	1 cut(s)	533
EciI	GGCGGA	4 cut(s)	34, 148, 314, 329
Eco47I	GGWCC	2 cut(s)	156, 184
EcoT22I	ATGCAT	2 cut(s)	629, 656
Esp3I	CGTCTC	1 cut(s)	46
FaiI	YATR	5 cut(s)	387, 496, 548, 550, 625
FaqI	GGGAC	1 cut(s)	458
FauI	CCCGC	3 cut(s)	41, 176, 316
Fnu4HI	GCNGC	3 cut(s)	37, 321, 350
FokI	GGATG	1 cut(s)	608
Fsp4HI	GCNGC	3 cut(s)	37, 321, 350
GluI	GCNGC	3 cut(s)	37, 321, 350
HaeIII	GGCC	1 cut(s)	349
HgaI	GACGC	1 cut(s)	28
HinfI	GANTC	2 cut(s)	7, 446
HphI	GGTGA	1 cut(s)	136
Hpy166II	GTNNAC	1 cut(s)	294
Hpy188I	TCNGA	2 cut(s)	184, 411
Hpy188III	TCNNGA	2 cut(s)	28, 215
Hpy8I	GTNNAC	1 cut(s)	294
Hpy99I	CGWCG	6 cut(s)	15, 184, 224, 227, 230, 257
HpyCH4III	ACNGT	3 cut(s)	15, 212, 245
HpyCH4IV	ACGT	1 cut(s)	198
HpyCH4V	TGCA	3 cut(s)	606, 627, 654
HpyF10VI	GCNNNNNNNGC	2 cut(s)	320, 651
HpyF3I	CTNAG	1 cut(s)	55
HpySE526I	ACGT	1 cut(s)	198
Kzo9I	GATC	1 cut(s)	533
LpnPI	CCDG	1 cut(s)	41
LweI	GCATC	1 cut(s)	430
MaeII	ACGT	1 cut(s)	198
MaeIII	GTNAC	1 cut(s)	248
MalI	GATC	1 cut(s)	535
MboI	GATC	1 cut(s)	533
MboII	GAAGA	2 cut(s)	280, 370
MluCI	AATT	5 cut(s)	234, 470, 556, 566, 615
MlyI	GAGTC	1 cut(s)	440
MmeI	TCCRAC	3 cut(s)	46, 150, 162
Mph1103I	ATGCAT	2 cut(s)	629, 656
MseI	TTAA	1 cut(s)	521
MvnI	CGCG	1 cut(s)	39
MwoI	GCNNNNNNNGC	2 cut(s)	320, 651
NdeII	GATC	1 cut(s)	533
NlaIV	GGNNCC	1 cut(s)	17
NmuCI	GTSAC	1 cut(s)	248
NsiI	ATGCAT	2 cut(s)	629, 656
PcsI	WCGNNNNNNNCGW	1 cut(s)	225
PfeI	GAWTC	1 cut(s)	7
PkrI	GCNGC	3 cut(s)	38, 322, 351
PleI	GAGTC	1 cut(s)	440
PpsI	GAGTC	1 cut(s)	440
PspN4I	GGNNCC	1 cut(s)	17
PspPI	GGNCC	3 cut(s)	156, 184, 347
RsaI	GTAC	4 cut(s)	242, 293, 335, 499
RsaNI	GTAC	4 cut(s)	241, 292, 334, 498
Rsr2I	CGGWCCG	1 cut(s)	184
RsrII	CGGWCCG	1 cut(s)	184
SaqAI	TTAA	1 cut(s)	521
SatI	GCNGC	3 cut(s)	37, 321, 350
Sau3AI	GATC	1 cut(s)	533
Sau96I	GGNCC	3 cut(s)	156, 184, 347
SchI	GAGTC	1 cut(s)	440
SetI	ASST	7 cut(s)	94, 201, 483, 495, 603, 638, 647
SfaNI	GCATC	1 cut(s)	430
SinI	GGWCC	2 cut(s)	156, 184
SmlI	CTYRAG	1 cut(s)	353
SmoI	CTYRAG	1 cut(s)	353
Sse9I	AATT	5 cut(s)	234, 470, 556, 566, 615
TaaI	ACNGT	3 cut(s)	15, 212, 245
TaiI	ACGT	1 cut(s)	201
TaqI	TCGA	4 cut(s)	10, 266, 281, 613
TaqII	GACCGA	1 cut(s)	201
TasI	AATT	5 cut(s)	234, 470, 556, 566, 615
TatI	WGTACW	2 cut(s)	291, 497
TauI	GCSGC	3 cut(s)	39, 323, 352
TfiI	GAWTC	1 cut(s)	7
Tru1I	TTAA	1 cut(s)	521
Tru9I	TTAA	1 cut(s)	521
TscAI	CASTG	2 cut(s)	463, 597
TseFI	GTSAC	1 cut(s)	248
Tsp45I	GTSAC	1 cut(s)	248
TspDTI	ATGAA	3 cut(s)	246, 402, 597
TspRI	CASTG	2 cut(s)	463, 597
VpaK11BI	GGWCC	2 cut(s)	156, 184
XapI	RAATTY	3 cut(s)	470, 556, 566
Zsp2I	ATGCAT	2 cut(s)	629, 656

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