Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0009624

Physical Location & Seq

Genomic Coordinates Reverse (-)

63689248 .. 63690447

Gene Structure 1200 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000015254

Sequence Viewer

CDS Protein Promoter (2k)

Length: 357 bp

ATGCCGTTTATTCAATCCTCAACGTCGGAGCGGCTGTGGCTGTTGCATGGATGGAAAAATAGTGCCTTGAACCTGTTCGATGAAATGCGTGAGAGAGCAATGGCCTGCAATGCGGTCACAGATAACATCCTAATTGGTGGGTTGTGTCGAGAAATGAGGGTTTGGGAAGCTGAGAAGTTTGTGAATGAGATGAAGAGGGATGGTATTAGTCCAAGTATAGTAACTTTCAACACTCTGATTGAAGGGTTTTGTGGTCTTGGAAAGTTGGACAGGGCATTGAGTTTTCGTTTGATCTCCGTCTCTGGTGGAATTACTGATTTGGTGAGAAGAAGGAGAACAAAGGTATGGCTCCTCTAA

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_1 PPR_2 PPR_3

Protein Analysis

119

Amino Acids

13.51

Weight (kDa)

9.35

Isoelectric Point (pI)

58.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	20 - 50	9.1e-08	PPR repeat family
PPR_3	PF13812	25 - 82	9.9e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	37 - 65	1.6e-08	PPR repeat
PPR_2	PF13041	39 - 84	2.5e-14	PPR repeat family
PPR	PF01535	42 - 69	5e-06	PPR repeat
PPR_1	PF12854	67 - 94	3.3e-09	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0009624)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G36240
fragaria_vesca	FvH4_6g18780
prunus_persica	Prupe.7G109800_v2.0.a1
pyrus_communis	pycom04g01140 pycom15g30020
rosa_chinensis	RchiOBHm_Chr3g0473791
rosa_laevigata	RLG00000015254 RLG00000023984
rosa_multiflora	Rmu_co8122080.1_g000001 Rmu_sc0001293.1_g000012 Rmu_sc0007035.1_g000006 Rmu_sc0007035.1_g000008
rosa_roxburghii	Rroxscaffold_1G00029320 Rroxscaffold_6G00407800
rosa_rugosa	Rorug03G0135500
rosa_samantha	Rh3BG214200 Rh3BG214500 Rh3CG210900 Rh3CG211100 Rh3DG210100 Rh3DG210300
rosa_wichuraiana	Rw3G017010

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	31
AciI	CCGC	2 cut(s)	31, 113
AgsI	TTSAA	4 cut(s)	14, 70, 229, 242
AluBI	AGCT	1 cut(s)	170
AluI	AGCT	1 cut(s)	170
Alw26I	GTCTC	1 cut(s)	304
AoxI	GGCC	1 cut(s)	102
Asp700I	GAANNNNTTC	1 cut(s)	74
AsuHPI	GGTGA	1 cut(s)	334
BccI	CCATC	2 cut(s)	45, 194
BcoDI	GTCTC	1 cut(s)	304
BisI	GCNGC	1 cut(s)	32
BlsI	GCNGC	1 cut(s)	33
BmiI	GGNNCC	1 cut(s)	350
BsaXI	ACNNNNNCTCC	2 cut(s)	20, 50
Bse3DI	GCAATG	2 cut(s)	105, 115
BseGI	GGATG	3 cut(s)	56, 126, 205
BseMI	GCAATG	2 cut(s)	105, 115
BseMII	CTCAG	1 cut(s)	162
BseRI	GAGGAG	1 cut(s)	341
BshFI	GGCC	1 cut(s)	104
BsmAI	GTCTC	1 cut(s)	304
BsmBI	CGTCTC	1 cut(s)	304
BsnI	GGCC	1 cut(s)	104
Bsp143I	GATC	1 cut(s)	291
BspACI	CCGC	2 cut(s)	31, 113
BspANI	GGCC	1 cut(s)	104
BspCNI	CTCAG	1 cut(s)	163
BspLI	GGNNCC	1 cut(s)	350
BsrBI	CCGCTC	1 cut(s)	31
BsrDI	GCAATG	2 cut(s)	105, 115
BssMI	GATC	1 cut(s)	291
Bst6I	CTCTTC	1 cut(s)	188
BstC8I	GCNNGC	1 cut(s)	106
BstDEI	CTNAG	1 cut(s)	171
BstF5I	GGATG	3 cut(s)	56, 126, 205
BstKTI	GATC	1 cut(s)	294
BstMAI	GTCTC	1 cut(s)	304
BstMBI	GATC	1 cut(s)	291
BstMWI	GCNNNNNNNGC	2 cut(s)	37, 110
BsuRI	GGCC	1 cut(s)	104
BtsCI	GGATG	3 cut(s)	56, 126, 205
Cac8I	GCNNGC	1 cut(s)	106
CviAII	CATG	1 cut(s)	47
CviJI	RGCY	5 cut(s)	34, 40, 104, 170, 349
CviKI_1	RGCY	5 cut(s)	34, 40, 104, 170, 349
DdeI	CTNAG	1 cut(s)	171
DpnI	GATC	1 cut(s)	293
DpnII	GATC	1 cut(s)	291
Eam1104I	CTCTTC	1 cut(s)	188
EarI	CTCTTC	1 cut(s)	188
Esp3I	CGTCTC	1 cut(s)	304
FaeI	CATG	1 cut(s)	50
FaiI	YATR	3 cut(s)	48, 218, 346
FatI	CATG	1 cut(s)	46
Fnu4HI	GCNGC	1 cut(s)	32
FokI	GGATG	3 cut(s)	63, 113, 212
Fsp4HI	GCNGC	1 cut(s)	32
GluI	GCNGC	1 cut(s)	32
HaeIII	GGCC	1 cut(s)	104
Hin1II	CATG	1 cut(s)	50
HphI	GGTGA	1 cut(s)	334
Hpy188I	TCNGA	2 cut(s)	28, 237
Hpy188III	TCNNGA	1 cut(s)	149
Hpy99I	CGWCG	1 cut(s)	28
HpyAV	CCTTC	2 cut(s)	236, 324
HpyCH4IV	ACGT	1 cut(s)	23
HpyCH4V	TGCA	2 cut(s)	46, 108
HpyF10VI	GCNNNNNNNGC	2 cut(s)	37, 110
HpyF3I	CTNAG	1 cut(s)	171
HpySE526I	ACGT	1 cut(s)	23
Hsp92II	CATG	1 cut(s)	50
Kzo9I	GATC	1 cut(s)	291
LmnI	GCTCC	2 cut(s)	28, 354
LpnPI	CCDG	4 cut(s)	86, 118, 256, 288
MaeII	ACGT	1 cut(s)	23
MaeIII	GTNAC	2 cut(s)	115, 220
MalI	GATC	1 cut(s)	293
MbiI	CCGCTC	1 cut(s)	31
MboI	GATC	1 cut(s)	291
MboII	GAAGA	2 cut(s)	205, 339
MluCI	AATT	2 cut(s)	132, 309
MmeI	TCCRAC	2 cut(s)	6, 246
MnlI	CCTC	3 cut(s)	28, 150, 189
MroXI	GAANNNNTTC	1 cut(s)	74
MwoI	GCNNNNNNNGC	2 cut(s)	37, 110
NdeII	GATC	1 cut(s)	291
NlaIII	CATG	1 cut(s)	50
NlaIV	GGNNCC	1 cut(s)	350
NmuCI	GTSAC	1 cut(s)	115
PdmI	GAANNNNTTC	1 cut(s)	74
PkrI	GCNGC	1 cut(s)	33
PspN4I	GGNNCC	1 cut(s)	350
SatI	GCNGC	1 cut(s)	32
Sau3AI	GATC	1 cut(s)	291
SetI	ASST	4 cut(s)	26, 75, 172, 345
Sse9I	AATT	2 cut(s)	132, 309
SsiI	CCGC	2 cut(s)	31, 113
TaiI	ACGT	1 cut(s)	26
TaqI	TCGA	2 cut(s)	78, 148
TasI	AATT	2 cut(s)	132, 309
TauI	GCSGC	1 cut(s)	34
TseFI	GTSAC	1 cut(s)	115
Tsp45I	GTSAC	1 cut(s)	115
TspDTI	ATGAA	2 cut(s)	96, 206
TspGWI	ACGGA	1 cut(s)	286
XmnI	GAANNNNTTC	1 cut(s)	74

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