Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0005777

Physical Location & Seq

Genomic Coordinates Reverse (-)

18927126 .. 18929308

Gene Structure 2183 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG175800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 567 bp

ATGCGTCGGGCGGGTTTCAGAGCTAATCAGTTTGGGTATGGGAGTGCATTGAGGGCATGCACTGGTTTGAGGTCTTTGGAAGTAGGAATGCAGATACAGGGGTGTCTTGTGAAAGGAAGGTTTGCTGAGAACTTGTTTGTGCTGAGTGCACTAGTTGATTTTCATGCCAAGTGTGGAAAGATAGAGGATGCTTGCTGTGTTTTCGAGGCAATGTCGGAAAGGGACTTGGTTTCTTGGAATGCAATCATTGGAGGGTATGCTGTTCAGGGTTTTAGTGACGACTCGTTGCGAATGTTTCGGTCAATGATGAGGGAAGGCATGGTTCCTGATTGCTTCACCTTCGGGAGTGTTTTGAGAGGCTTGGCCGGAGATGGTGGTTTGGTGAAGCGTTGTTGTCCAACAAGGGAGCTACGTGTACCTGTTTCACATATTGCTTGTGGCGCTCAGGCGTGGAAGAGGAGACCGTTGATATTGATCTTAATTTTTAAACCACCAAAGCATGATAAAGCGAAATCAAGTGAATTGATCTTATTATACATCCTCCTGGCAAACAGTTATCAGGACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 peroxidase

Protein Analysis

188

Amino Acids

20.82

Weight (kDa)

9.16

Isoelectric Point (pI)

55.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	75 - 122	1.2e-09	PPR repeat family
PPR	PF01535	77 - 106	5.2e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005777)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G20730
fragaria_vesca	FvH4_3g15060 FvH4_3g15060
malus_domestica	MD05G1227700.v1.1 MD10G1208100.v1.1 MD10G1208200.v1.1
prunus_persica	Prupe.4G134800_v2.0.a1
pyrus_communis	pycom05g20980 pycom05g20990 pycom10g17710
rosa_chinensis	RchiOBHm_Chr5g0024821 RchiOBHm_Chr5g0024861
rosa_laevigata	RLG00000032817
rosa_multiflora	Rmu_co8198802.1_g000001 Rmu_co8370541.1_g000001 Rmu_sc0009744.1_g000006 Rmu_sc0009744.1_g000007
rosa_roxburghii	Rroxscaffold_1G00054560
rosa_rugosa	Rorug05G0084700.1
rosa_samantha	Rh5AG176500 Rh5AG176600 Rh5BG174200 Rh5CG191200 Rh5CG191300 Rh5CG191500 Rh5DG175800 Rh5DG176000
rosa_wichuraiana	Rw5G016000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	11
AcoI	YGGCCR	1 cut(s)	363
AfaI	GTAC	1 cut(s)	417
AflIII	ACRYGT	1 cut(s)	412
AhlI	ACTAGT	1 cut(s)	151
AjnI	CCWGG	1 cut(s)	543
AluBI	AGCT	2 cut(s)	23, 409
AluI	AGCT	2 cut(s)	23, 409
Alw21I	GWGCWC	1 cut(s)	151
Alw26I	GTCTC	1 cut(s)	454
Alw44I	GTGCAC	1 cut(s)	147
AoxI	GGCC	1 cut(s)	363
ApaLI	GTGCAC	1 cut(s)	147
AspLEI	GCGC	1 cut(s)	443
AsuHPI	GGTGA	2 cut(s)	328, 394
BaeGI	GKGCMC	1 cut(s)	151
BaeI	ACNNNNGTAYC	2 cut(s)	86, 119
Bbv12I	GWGCWC	1 cut(s)	151
BccI	CCATC	1 cut(s)	365
BciT130I	CCWGG	1 cut(s)	545
BcoDI	GTCTC	1 cut(s)	454
BcuI	ACTAGT	1 cut(s)	151
BfaI	CTAG	1 cut(s)	152
BfoI	RGCGCY	1 cut(s)	444
Bme1390I	CCNGG	1 cut(s)	545
BmiI	GGNNCC	1 cut(s)	324
BmrFI	CCNGG	1 cut(s)	545
BmsI	GCATC	1 cut(s)	178
Bpu10I	CCTNAGC	1 cut(s)	444
BsaAI	YACGTR	1 cut(s)	413
BsaBI	GATNNNNATC	1 cut(s)	473
BsaI	GGTCTC	1 cut(s)	454
Bse1I	ACTGG	1 cut(s)	67
Bse3DI	GCAATG	1 cut(s)	216
Bse8I	GATNNNNATC	1 cut(s)	473
BseBI	CCWGG	1 cut(s)	545
BseGI	GGATG	2 cut(s)	193, 537
BseJI	GATNNNNATC	1 cut(s)	473
BseMI	GCAATG	1 cut(s)	216
BseMII	CTCAG	3 cut(s)	117, 134, 458
BseNI	ACTGG	1 cut(s)	67
BseRI	GAGGAG	1 cut(s)	472
BseSI	GKGCMC	1 cut(s)	151
BshFI	GGCC	1 cut(s)	365
BsiHKAI	GWGCWC	1 cut(s)	151
BsiSI	CCGG	1 cut(s)	366
BslFI	GGGAC	1 cut(s)	236
BsmAI	GTCTC	1 cut(s)	454
BsmFI	GGGAC	1 cut(s)	236
BsmI	GAATGC	2 cut(s)	93, 244
BsnI	GGCC	1 cut(s)	365
Bso31I	GGTCTC	1 cut(s)	454
Bsp1286I	GDGCHC	1 cut(s)	151
Bsp143I	GATC	2 cut(s)	474, 525
BspACI	CCGC	1 cut(s)	11
BspANI	GGCC	1 cut(s)	365
BspCNI	CTCAG	3 cut(s)	118, 135, 457
BspLI	GGNNCC	1 cut(s)	324
BspTNI	GGTCTC	1 cut(s)	454
BsrDI	GCAATG	1 cut(s)	216
BsrI	ACTGG	1 cut(s)	67
BssMI	GATC	2 cut(s)	474, 525
Bst2UI	CCWGG	1 cut(s)	545
Bst4CI	ACNGT	2 cut(s)	465, 554
Bst6I	CTCTTC	1 cut(s)	449
BstBAI	YACGTR	1 cut(s)	413
BstC8I	GCNNGC	2 cut(s)	58, 193
BstDEI	CTNAG	3 cut(s)	126, 143, 444
BstF5I	GGATG	2 cut(s)	193, 537
BstH2I	RGCGCY	1 cut(s)	444
BstHHI	GCGC	1 cut(s)	443
BstKTI	GATC	2 cut(s)	477, 528
BstMAI	GTCTC	1 cut(s)	454
BstMBI	GATC	2 cut(s)	474, 525
BstMWI	GCNNNNNNNGC	2 cut(s)	53, 440
BstNI	CCWGG	1 cut(s)	545
BstNSI	RCATGY	1 cut(s)	60
BstSCI	CCNGG	1 cut(s)	543
BstSLI	GKGCMC	1 cut(s)	151
BsuRI	GGCC	1 cut(s)	365
BtsCI	GGATG	2 cut(s)	193, 537
BtsIMutI	CAGTG	1 cut(s)	60
Cac8I	GCNNGC	2 cut(s)	58, 193
CfoI	GCGC	1 cut(s)	443
Csp6I	GTAC	1 cut(s)	416
CviAII	CATG	4 cut(s)	57, 164, 319, 500
CviJI	RGCY	4 cut(s)	23, 360, 365, 409
CviKI_1	RGCY	4 cut(s)	23, 360, 365, 409
CviQI	GTAC	1 cut(s)	416
DdeI	CTNAG	3 cut(s)	126, 143, 444
DpnI	GATC	2 cut(s)	476, 527
DpnII	GATC	2 cut(s)	474, 525
DraI	TTTAAA	1 cut(s)	487
EaeI	YGGCCR	1 cut(s)	363
Eam1104I	CTCTTC	1 cut(s)	449
EarI	CTCTTC	1 cut(s)	449
Eco31I	GGTCTC	1 cut(s)	454
EcoRII	CCWGG	1 cut(s)	543
FaeI	CATG	4 cut(s)	60, 167, 322, 503
FaiI	YATR	8 cut(s)	39, 58, 165, 258, 320, 429, 501, 535
FaqI	GGGAC	1 cut(s)	236
FatI	CATG	4 cut(s)	56, 163, 318, 499
FauI	CCCGC	1 cut(s)	4
FokI	GGATG	2 cut(s)	200, 524
FspBI	CTAG	1 cut(s)	152
GlaI	GCGC	1 cut(s)	442
HaeII	RGCGCY	1 cut(s)	444
HaeIII	GGCC	1 cut(s)	365
HapII	CCGG	1 cut(s)	366
HhaI	GCGC	1 cut(s)	443
Hin1II	CATG	4 cut(s)	60, 167, 322, 503
Hin6I	GCGC	1 cut(s)	441
HinP1I	GCGC	1 cut(s)	441
HinfI	GANTC	1 cut(s)	281
HpaII	CCGG	1 cut(s)	366
HphI	GGTGA	2 cut(s)	328, 394
Hpy166II	GTNNAC	2 cut(s)	149, 416
Hpy188I	TCNGA	2 cut(s)	20, 217
Hpy188III	TCNNGA	3 cut(s)	326, 343, 560
Hpy8I	GTNNAC	2 cut(s)	149, 416
Hpy99I	CGWCG	1 cut(s)	9
HpyAV	CCTTC	3 cut(s)	111, 308, 349
HpyCH4III	ACNGT	2 cut(s)	465, 554
HpyCH4IV	ACGT	1 cut(s)	412
HpyCH4V	TGCA	5 cut(s)	47, 60, 91, 149, 242
HpyF10VI	GCNNNNNNNGC	2 cut(s)	53, 440
HpyF3I	CTNAG	3 cut(s)	126, 143, 444
HpySE526I	ACGT	1 cut(s)	412
Hsp92II	CATG	4 cut(s)	60, 167, 322, 503
HspAI	GCGC	1 cut(s)	441
Kzo9I	GATC	2 cut(s)	474, 525
LmnI	GCTCC	1 cut(s)	406
LweI	GCATC	1 cut(s)	178
MaeI	CTAG	1 cut(s)	152
MaeII	ACGT	1 cut(s)	412
MaeIII	GTNAC	1 cut(s)	275
MalI	GATC	2 cut(s)	476, 527
MboI	GATC	2 cut(s)	474, 525
MboII	GAAGA	1 cut(s)	466
MhlI	GDGCHC	1 cut(s)	151
MluCI	AATT	2 cut(s)	480, 521
MlyI	GAGTC	1 cut(s)	275
MmeI	TCCRAC	2 cut(s)	195, 422
MnlI	CCTC	9 cut(s)	45, 63, 178, 199, 245, 303, 350, 450, 551
MseI	TTAA	2 cut(s)	479, 486
MspI	CCGG	1 cut(s)	366
MspR9I	CCNGG	1 cut(s)	545
Mva1269I	GAATGC	2 cut(s)	93, 244
MvaI	CCWGG	1 cut(s)	545
MwoI	GCNNNNNNNGC	2 cut(s)	53, 440
NdeII	GATC	2 cut(s)	474, 525
NlaIII	CATG	4 cut(s)	60, 167, 322, 503
NlaIV	GGNNCC	1 cut(s)	324
NmuCI	GTSAC	1 cut(s)	275
NspI	RCATGY	1 cut(s)	60
PaeI	GCATGC	1 cut(s)	60
PctI	GAATGC	2 cut(s)	93, 244
PleI	GAGTC	1 cut(s)	275
PpsI	GAGTC	1 cut(s)	275
Ppu21I	YACGTR	1 cut(s)	413
Psp6I	CCWGG	1 cut(s)	543
PspGI	CCWGG	1 cut(s)	543
PspN4I	GGNNCC	1 cut(s)	324
RsaI	GTAC	1 cut(s)	417
RsaNI	GTAC	1 cut(s)	416
SaqAI	TTAA	2 cut(s)	479, 486
Sau3AI	GATC	2 cut(s)	474, 525
SchI	GAGTC	1 cut(s)	275
ScrFI	CCNGG	1 cut(s)	545
SduI	GDGCHC	1 cut(s)	151
SetI	ASST	7 cut(s)	25, 74, 122, 341, 411, 415, 421
SfaNI	GCATC	1 cut(s)	178
SpeI	ACTAGT	1 cut(s)	151
SphI	GCATGC	1 cut(s)	60
Sse9I	AATT	2 cut(s)	480, 521
SsiI	CCGC	1 cut(s)	11
SspMI	CTAG	1 cut(s)	152
StyD4I	CCNGG	1 cut(s)	543
TaaI	ACNGT	2 cut(s)	465, 554
TaiI	ACGT	1 cut(s)	415
TaqI	TCGA	1 cut(s)	204
TaqII	GACCGA	1 cut(s)	288
TasI	AATT	2 cut(s)	480, 521
Tru1I	TTAA	2 cut(s)	479, 486
Tru9I	TTAA	2 cut(s)	479, 486
TscAI	CASTG	1 cut(s)	67
TseFI	GTSAC	1 cut(s)	275
Tsp45I	GTSAC	1 cut(s)	275
TspDTI	ATGAA	1 cut(s)	152
TspRI	CASTG	1 cut(s)	67
VneI	GTGCAC	1 cut(s)	147
XceI	RCATGY	1 cut(s)	60
XspI	CTAG	1 cut(s)	152

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