Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0003805

Physical Location & Seq

Genomic Coordinates Forward (+)

58025207 .. 58025766

Gene Structure 560 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000030227

Sequence Viewer

CDS Protein Promoter (2k)

Length: 468 bp

ATGTCATTTTGTCGCCTCCTCCGCCGTTCATTTTCCACCACCACTACCCAGCCCAAACCCACAACCGCCAAGGCATCAAAGCCATCTCTGCCGACCTCGCCAATGCCAAGCGCCTCCGCCTACGTGTTTGATGATGCCCAGAAGGTGTTAGATGAAATGCCTCAGAGAAACTGTGGGTGTACAGTGTTATCCTTCAATGCCCTCTTGGGGGCTTGTGTGAACTCCAAGAAGTTTGATATGGTTAAGAAGATTTTCGGGGACGTGCCAGAGAAGCTGTCGATTGAGCCTAATTTGGTTTCGTACAATACTGTGATCAAGGCATCTTGCAAGATGGATTCGTTTGACTCTACGGTTTCAGTGATTGAGATGATGGACAAGAAGGGTGTGAAGCCGGATGTAATCACGTTTAATACGATTTTGGATTACTTGTATGGGAGTAAGCGGTTTTCAGATGCTGAGAAGATATAG

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:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016020 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:0044444 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 PPR_3

Protein Analysis

156

Amino Acids

17.14

Weight (kDa)

8.95

Isoelectric Point (pI)

53.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	48 - 108	8e-10	Pentatricopeptide repeat domain
PPR_2	PF13041	62 - 110	3.1e-07	PPR repeat family
PPR_3	PF13812	91 - 141	7e-09	Pentatricopeptide repeat domain
PPR_2	PF13041	96 - 142	3.6e-12	PPR repeat family

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: OG0003805)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55890 AT3G13160
fragaria_vesca	FvH4_3g03043 FvH4_3g03070 FvH4_3g03080 FvH4_3g03160
malus_domestica	MD05G1334700.v1.1
prunus_persica	Prupe.4G030500_v2.0.a1
pyrus_communis	pycom05g30630 pycom10g26130
rosa_chinensis	RchiOBHm_Chr5g0004741 RchiOBHm_Chr5g0004781
rosa_laevigata	RLG00000030227 RLG00000030229 RLG00000031256 RLG00000031258 RLG00000031259 RLG00000031261
rosa_multiflora	Rmu_co8370515.1_g000001 Rmu_sc0002210.1_g000010 Rmu_sc0002210.1_g000016 Rmu_sc0008308.1_g000003 Rmu_sc0008308.1_g000014 Rmu_sc0010871.1_g000008 Rmu_sc0010871.1_g000027
rosa_roxburghii	Rroxscaffold_1G00070810 Rroxscaffold_1G00070830
rosa_samantha	Rh5BG041400 Rh5CG044900 Rh5CG045300 Rh5DG041300 Rh5DG041500 Rh5DG041800
rosa_wichuraiana	Rw5G004020

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	4 cut(s)	22, 66, 117, 442
AfaI	GTAC	2 cut(s)	181, 302
AfiI	CCNNNNNNNGG	2 cut(s)	207, 208
AflIII	ACRYGT	1 cut(s)	123
AgsI	TTSAA	1 cut(s)	196
AjiI	CACGTC	1 cut(s)	262
AluBI	AGCT	1 cut(s)	274
AluI	AGCT	1 cut(s)	274
AlwNI	CAGNNNCTG	1 cut(s)	455
Asp700I	GAANNNNTTC	1 cut(s)	251
AspLEI	GCGC	1 cut(s)	113
BccI	CCATC	3 cut(s)	91, 325, 364
BceAI	ACGGC	1 cut(s)	9
BclI	TGATCA	1 cut(s)	312
BfoI	RGCGCY	1 cut(s)	114
BmgBI	CACGTC	1 cut(s)	262
BmsI	GCATC	4 cut(s)	83, 124, 329, 442
BsaAI	YACGTR	1 cut(s)	124
BsaJI	CCNNGG	1 cut(s)	69
Bsc4I	CCNNNNNNNGG	2 cut(s)	207, 208
BseDI	CCNNGG	1 cut(s)	69
BseGI	GGATG	1 cut(s)	400
BseLI	CCNNNNNNNGG	2 cut(s)	207, 208
BseMII	CTCAG	2 cut(s)	176, 447
BseRI	GAGGAG	1 cut(s)	8
BseYI	CCCAGC	1 cut(s)	48
BsiSI	CCGG	1 cut(s)	392
BslFI	GGGAC	1 cut(s)	272
BslI	CCNNNNNNNGG	2 cut(s)	207, 208
BsmFI	GGGAC	1 cut(s)	272
Bsp1407I	TGTACA	1 cut(s)	179
Bsp143I	GATC	1 cut(s)	312
BspACI	CCGC	4 cut(s)	22, 66, 117, 442
BspCNI	CTCAG	2 cut(s)	175, 448
BsrGI	TGTACA	1 cut(s)	179
BssECI	CCNNGG	1 cut(s)	69
BssMI	GATC	1 cut(s)	312
BssT1I	CCWWGG	1 cut(s)	69
Bst4CI	ACNGT	4 cut(s)	173, 184, 310, 352
BstAUI	TGTACA	1 cut(s)	179
BstBAI	YACGTR	1 cut(s)	124
BstDEI	CTNAG	2 cut(s)	162, 456
BstF5I	GGATG	1 cut(s)	400
BstH2I	RGCGCY	1 cut(s)	114
BstHHI	GCGC	1 cut(s)	113
BstKTI	GATC	1 cut(s)	315
BstMBI	GATC	1 cut(s)	312
BstMWI	GCNNNNNNNGC	4 cut(s)	21, 88, 97, 271
BtrI	CACGTC	1 cut(s)	262
BtsCI	GGATG	1 cut(s)	400
BtsIMutI	CAGTG	2 cut(s)	189, 363
CaiI	CAGNNNCTG	1 cut(s)	455
CfoI	GCGC	1 cut(s)	113
Csp6I	GTAC	2 cut(s)	180, 301
CviJI	RGCY	6 cut(s)	52, 82, 212, 274, 286, 391
CviKI_1	RGCY	6 cut(s)	52, 82, 212, 274, 286, 391
CviQI	GTAC	2 cut(s)	180, 301
DdeI	CTNAG	2 cut(s)	162, 456
DpnI	GATC	1 cut(s)	314
DpnII	GATC	1 cut(s)	312
EciI	GGCGGA	2 cut(s)	11, 106
Eco130I	CCWWGG	1 cut(s)	69
EcoT14I	CCWWGG	1 cut(s)	69
ErhI	CCWWGG	1 cut(s)	69
FaiI	YATR	3 cut(s)	239, 432, 466
FaqI	GGGAC	1 cut(s)	272
FbaI	TGATCA	1 cut(s)	312
FokI	GGATG	1 cut(s)	407
GlaI	GCGC	1 cut(s)	112
GsaI	CCCAGC	1 cut(s)	52
HaeII	RGCGCY	1 cut(s)	114
HapII	CCGG	1 cut(s)	392
HhaI	GCGC	1 cut(s)	113
Hin6I	GCGC	1 cut(s)	111
HinP1I	GCGC	1 cut(s)	111
HinfI	GANTC	2 cut(s)	335, 344
HpaII	CCGG	1 cut(s)	392
Hpy166II	GTNNAC	2 cut(s)	180, 220
Hpy188I	TCNGA	2 cut(s)	165, 451
Hpy8I	GTNNAC	2 cut(s)	180, 220
HpyAV	CCTTC	3 cut(s)	136, 202, 373
HpyCH4III	ACNGT	4 cut(s)	173, 184, 310, 352
HpyCH4IV	ACGT	3 cut(s)	123, 261, 404
HpyCH4V	TGCA	1 cut(s)	327
HpyF10VI	GCNNNNNNNGC	4 cut(s)	21, 88, 97, 271
HpyF3I	CTNAG	2 cut(s)	162, 456
HpySE526I	ACGT	3 cut(s)	123, 261, 404
HspAI	GCGC	1 cut(s)	111
Ksp22I	TGATCA	1 cut(s)	312
Kzo9I	GATC	1 cut(s)	312
LpnPI	CCDG	4 cut(s)	62, 152, 279, 405
LweI	GCATC	4 cut(s)	83, 124, 329, 442
MaeII	ACGT	3 cut(s)	123, 261, 404
MalI	GATC	1 cut(s)	314
MboI	GATC	1 cut(s)	312
MboII	GAAGA	1 cut(s)	259
MluCI	AATT	1 cut(s)	289
MlyI	GAGTC	1 cut(s)	338
MnlI	CCTC	6 cut(s)	26, 29, 106, 124, 171, 212
MroXI	GAANNNNTTC	1 cut(s)	251
MseI	TTAA	2 cut(s)	243, 408
MspI	CCGG	1 cut(s)	392
MwoI	GCNNNNNNNGC	4 cut(s)	21, 88, 97, 271
NdeII	GATC	1 cut(s)	312
PcsI	WCGNNNNNNNCGW	1 cut(s)	410
PdmI	GAANNNNTTC	1 cut(s)	251
PfeI	GAWTC	1 cut(s)	335
PleI	GAGTC	1 cut(s)	338
PpsI	GAGTC	1 cut(s)	338
Ppu21I	YACGTR	1 cut(s)	124
PspFI	CCCAGC	1 cut(s)	48
PstNI	CAGNNNCTG	1 cut(s)	455
RsaI	GTAC	2 cut(s)	181, 302
RsaNI	GTAC	2 cut(s)	180, 301
SaqAI	TTAA	2 cut(s)	243, 408
Sau3AI	GATC	1 cut(s)	312
SchI	GAGTC	1 cut(s)	338
SetI	ASST	6 cut(s)	98, 126, 147, 264, 276, 407
SfaNI	GCATC	4 cut(s)	83, 124, 329, 442
Sse9I	AATT	1 cut(s)	289
SsiI	CCGC	4 cut(s)	22, 66, 117, 442
StyI	CCWWGG	1 cut(s)	69
TaaI	ACNGT	4 cut(s)	173, 184, 310, 352
TaiI	ACGT	3 cut(s)	126, 264, 407
TaqI	TCGA	1 cut(s)	278
TasI	AATT	1 cut(s)	289
TatI	WGTACW	1 cut(s)	179
TfiI	GAWTC	1 cut(s)	335
Tru1I	TTAA	2 cut(s)	243, 408
Tru9I	TTAA	2 cut(s)	243, 408
TscAI	CASTG	2 cut(s)	189, 363
TspDTI	ATGAA	2 cut(s)	18, 168
TspRI	CASTG	2 cut(s)	189, 363
XmnI	GAANNNNTTC	1 cut(s)	251

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