Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0000530

Physical Location & Seq

Genomic Coordinates Reverse (-)

31511975 .. 31513312

Gene Structure 1338 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000029013

Sequence Viewer

CDS Protein Promoter (2k)

Length: 996 bp

ATGCTCGGTGAGGCCAAGGAGACGGCGGAGTGGATCGAACGCCGGAATCTGGGCAAGAACTCAACGTCGCGCCAAGGTGAAGATCGGGGAGTGGATCGACGCCGGAGATGCGCAGCACCGGCGGGCTGCGTGGATAGAGCGCCGGACCCGAAACGGCCTGGCTCGTGCGTCGGAGCCGGAATTTTCTATTCTTCAATTACTCATGTGAAGCAAGGGAAGCTGGTTGAGGCTATTAAGGTTATGGATGAGATGGAGGATAATGGGATTGGCGAGAATGAGGTTACTTATGGGGTTATGATTGAAGCTTATTGTAAGGAGAAGAAGTCGGGTGAAGCGGTGAATTTGCTTAATGATATGGTGGAGAAGAGGTATATACCAAGCTCGGCACTCTGTTGTAAGGTGATTGATGTGTTGTGTTGCGAAGGGAAGGTGGAGGATTCTTGTGAACTGTGGAAGTGGCTTTTGAAGAAGAATTGCACGCTGGATAATGCAGTATTGGGCACACTCATATACTGGCTTTGTAAGAAGGGAGAAGTGTGGGAAGCCAGGAAATTGTTTGATCAGTTTGAGACGAGTGAGCCTCCGGATGTCATGACTTACAACGTGCTTATTTCAAGAATGTGTGAAGTGGGGGAGTTGTGTGAGGCAGGGAGGTTGTGGGATGACATGGTGGAGAAAGGATGTTCTCCGAATTCTTTTACATATAATGTATTGATCAAAGGATTTTGTAAGATTGGAAAAGCGAAGGAGGGAATTAGGATTTTGGACGACATATTCGAAAAAGGCTGTTTGCCAAACAAGTCTACTTATGCCATGTTGATTGAGGGGCTCTGTGACTCAGGAGAGGAAGCTGAAATCACTAAAGTAATATCTATGGCAATGTCAAGTGGACACTTTCACAGTGATTCCTGGGAGCTTTTCCTTACAAAGGTTATTGGTGATTTGGATTCTGGGGAAAGTGTTCTAAACAGAATACTGCTGGAGAATGCTGATTAG

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

332

Amino Acids

36.94

Weight (kDa)

5.03

Isoelectric Point (pI)

37.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	68 - 105	2.1e-08	PPR repeat family
PPR_2	PF13041	92 - 128	1.3e-07	PPR repeat family
PPR_1	PF12854	92 - 120	8.4e-06	PPR repeat
PPR	PF01535	94 - 123	1.5e-06	PPR repeat
PPR_2	PF13041	195 - 244	1.1e-19	PPR repeat family
PPR_1	PF12854	195 - 224	1.9e-06	PPR repeat
PPR_3	PF13812	195 - 242	4.3e-08	Pentatricopeptide repeat domain
PPR_3	PF13812	218 - 275	8.9e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	226 - 257	5.5e-10	PPR repeat
PPR_2	PF13041	233 - 279	5.6e-13	PPR repeat family
PPR	PF01535	233 - 263	5e-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: OG0000530)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G16420 AT5G16420 AT5G16420 AT5G16420
fragaria_vesca	FvH4_7g08341 FvH4_7g08360
malus_domestica	MD02G1232100.v1.1 MD07G1081300.v1.1
prunus_persica	Prupe.2G106500_v2.0.a1
pyrus_communis	pycom02g20040
rosa_chinensis	RchiOBHm_Chr1g0340331 RchiOBHm_Chr1g0340431 RchiOBHm_Chr1g0340441 RchiOBHm_Chr1g0340491 RchiOBHm_Chr1g0340531 RchiOBHm_Chr1g0340541 RchiOBHm_Chr1g0340561 RchiOBHm_Chr1g0340621 RchiOBHm_Chr1g0340661 RchiOBHm_Chr1g0340691
rosa_laevigata	RLG00000029013 RLG00000029018 RLG00000029020 RLG00000029024 RLG00000029026 RLG00000029029 RLG00000029030 RLG00000029032 RLG00000029033
rosa_multiflora	Rmu_sc0000566.1_g000026 Rmu_sc0000566.1_g000034 Rmu_sc0000566.1_g000054 Rmu_sc0001836.1_g000016 Rmu_sc0001836.1_g000022 Rmu_sc0001836.1_g000023 Rmu_sc0001836.1_g000028 Rmu_sc0001836.1_g000058 Rmu_sc0001946.1_g000004 Rmu_sc0002595.1_g000001 Rmu_sc0002595.1_g000005 Rmu_sc0005167.1_g000003 Rmu_sc0005167.1_g000009 Rmu_sc0005167.1_g000018 Rmu_sc0024761.1_g000004
rosa_roxburghii	Rroxscaffold_4G00311170 Rroxscaffold_4G00311190 Rroxscaffold_4G00311250 Rroxscaffold_4G00315930 Rroxscaffold_4G00315960 Rroxscaffold_5G00353270
rosa_rugosa	Rorug01G0162000.1 Rorug01G0162500.1 Rorug01G0162800.1 Rorug01G0163000.1 Rorug01G0163400.1 Rorug01G0163700.1 Rorug01G0164100.1 Rorug01G0164300 Rorug05G0484800
rosa_samantha	Rh1AG177800 Rh1AG178000 Rh1AG178300 Rh1AG178600 Rh1AG178900 Rh1BG145300 Rh1BG145600 Rh1BG145800 Rh1BG145900 Rh1BG146000 Rh1BG146700 Rh1CG165100 Rh1CG165200 Rh1CG165400 Rh1CG165600 Rh1CG165700 Rh1CG165900 Rh1DG177500 Rh1DG177600 Rh1DG177800 Rh1DG177900 Rh1DG178000 Rh1DG178800
rosa_wichuraiana	Rw0G006210 Rw1G014800 Rw1G014890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	112
AccI	GTMKAC	1 cut(s)	803
AccII	CGCG	1 cut(s)	70
AccIII	TCCGGA	1 cut(s)	583
AciI	CCGC	3 cut(s)	26, 122, 335
AclWI	GGATC	2 cut(s)	41, 102
AcsI	RAATTY	3 cut(s)	180, 340, 691
AcyI	GRCGYC	1 cut(s)	100
AfiI	CCNNNNNNNGG	2 cut(s)	49, 928
AgsI	TTSAA	4 cut(s)	195, 302, 466, 615
AjnI	CCWGG	3 cut(s)	157, 545, 908
AluBI	AGCT	5 cut(s)	220, 305, 381, 851, 916
AluI	AGCT	5 cut(s)	220, 305, 381, 851, 916
Alw26I	GTCTC	2 cut(s)	14, 563
AlwI	GGATC	2 cut(s)	41, 102
Aor13HI	TCCGGA	1 cut(s)	583
AoxI	GGCC	2 cut(s)	12, 155
ApeKI	GCWGC	2 cut(s)	113, 126
ApoI	RAATTY	3 cut(s)	180, 340, 691
ArsI	GACNNNNNNTTYG	2 cut(s)	758, 790
Asp700I	GAANNNNTTC	1 cut(s)	960
AspLEI	GCGC	3 cut(s)	72, 113, 142
AspS9I	GGNCC	1 cut(s)	145
AsuHPI	GGTGA	6 cut(s)	20, 89, 341, 349, 412, 950
AsuII	TTCGAA	1 cut(s)	777
AvaII	GGWCC	1 cut(s)	145
BaeGI	GKGCMC	1 cut(s)	503
BanII	GRGCYC	1 cut(s)	831
BauI	CACGAG	1 cut(s)	163
BbvI	GCAGC	2 cut(s)	113, 125
BccI	CCATC	1 cut(s)	244
BceAI	ACGGC	2 cut(s)	39, 170
BciT130I	CCWGG	3 cut(s)	159, 547, 910
BclI	TGATCA	2 cut(s)	559, 714
BcoDI	GTCTC	2 cut(s)	14, 563
BfoI	RGCGCY	1 cut(s)	143
BisI	GCNGC	2 cut(s)	114, 127
BlsI	GCNGC	2 cut(s)	115, 128
Bme1390I	CCNGG	3 cut(s)	159, 547, 910
Bme18I	GGWCC	1 cut(s)	145
BmgT120I	GGNCC	1 cut(s)	145
BmiI	GGNNCC	2 cut(s)	147, 175
BmrFI	CCNGG	3 cut(s)	159, 547, 910
BmsI	GCATC	1 cut(s)	98
BplI	GAGNNNNNCTC	2 cut(s)	565, 597
Bpu14I	TTCGAA	1 cut(s)	777
BsaHI	GRCGYC	1 cut(s)	100
BsaJI	CCNNGG	3 cut(s)	15, 73, 909
BsaWI	WCCGGW	1 cut(s)	583
BsaXI	ACNNNNNCTCC	4 cut(s)	308, 338, 353, 383
Bsc4I	CCNNNNNNNGG	2 cut(s)	49, 928
Bse118I	RCCGGY	1 cut(s)	118
Bse1I	ACTGG	1 cut(s)	518
Bse3DI	GCAATG	1 cut(s)	885
BseAI	TCCGGA	1 cut(s)	583
BseBI	CCWGG	3 cut(s)	159, 547, 910
BseDI	CCNNGG	3 cut(s)	15, 73, 909
BseGI	GGATG	4 cut(s)	250, 592, 667, 686
BseLI	CCNNNNNNNGG	2 cut(s)	49, 928
BseMI	GCAATG	1 cut(s)	885
BseMII	CTCAG	1 cut(s)	852
BseNI	ACTGG	1 cut(s)	518
BseSI	GKGCMC	1 cut(s)	503
BseXI	GCAGC	2 cut(s)	113, 125
Bsh1236I	CGCG	1 cut(s)	70
BshFI	GGCC	2 cut(s)	14, 157
BsiSI	CCGG	6 cut(s)	43, 103, 119, 143, 177, 584
BslI	CCNNNNNNNGG	2 cut(s)	49, 928
BsmAI	GTCTC	2 cut(s)	14, 563
BsmBI	CGTCTC	2 cut(s)	14, 563
BsmI	GAATGC	1 cut(s)	991
BsnI	GGCC	2 cut(s)	14, 157
Bsp119I	TTCGAA	1 cut(s)	777
Bsp1286I	GDGCHC	2 cut(s)	503, 831
Bsp13I	TCCGGA	1 cut(s)	583
Bsp143I	GATC	5 cut(s)	33, 82, 94, 559, 714
BspACI	CCGC	3 cut(s)	26, 122, 335
BspANI	GGCC	2 cut(s)	14, 157
BspCNI	CTCAG	1 cut(s)	851
BspEI	TCCGGA	1 cut(s)	583
BspFNI	CGCG	1 cut(s)	70
BspHI	TCATGA	1 cut(s)	591
BspLI	GGNNCC	2 cut(s)	147, 175
BspPI	GGATC	2 cut(s)	41, 102
BspT104I	TTCGAA	1 cut(s)	777
BsrDI	GCAATG	1 cut(s)	885
BsrFI	RCCGGY	1 cut(s)	118
BsrI	ACTGG	1 cut(s)	518
BssAI	RCCGGY	1 cut(s)	118
BssECI	CCNNGG	3 cut(s)	15, 73, 909
BssMI	GATC	5 cut(s)	33, 82, 94, 559, 714
BssNI	GRCGYC	1 cut(s)	100
BssSI	CACGAG	1 cut(s)	163
BssT1I	CCWWGG	2 cut(s)	15, 73
Bst2BI	CACGAG	1 cut(s)	163
Bst2UI	CCWGG	3 cut(s)	159, 547, 910
Bst4CI	ACNGT	2 cut(s)	450, 902
Bst6I	CTCTTC	1 cut(s)	359
BstACI	GRCGYC	1 cut(s)	100
BstBI	TTCGAA	1 cut(s)	777
BstC8I	GCNNGC	2 cut(s)	124, 479
BstDEI	CTNAG	1 cut(s)	838
BstENI	CCTNNNNNAGG	1 cut(s)	926
BstF5I	GGATG	4 cut(s)	250, 592, 667, 686
BstFNI	CGCG	1 cut(s)	70
BstH2I	RGCGCY	1 cut(s)	143
BstHHI	GCGC	3 cut(s)	72, 113, 142
BstKTI	GATC	5 cut(s)	36, 85, 97, 562, 717
BstMAI	GTCTC	2 cut(s)	14, 563
BstMBI	GATC	5 cut(s)	33, 82, 94, 559, 714
BstMWI	GCNNNNNNNGC	3 cut(s)	108, 119, 217
BstNI	CCWGG	3 cut(s)	159, 547, 910
BstSCI	CCNGG	3 cut(s)	157, 545, 908
BstSLI	GKGCMC	1 cut(s)	503
BstUI	CGCG	1 cut(s)	70
BstV1I	GCAGC	2 cut(s)	113, 125
BsuRI	GGCC	2 cut(s)	14, 157
BtsCI	GGATG	4 cut(s)	250, 592, 667, 686
BtsIMutI	CAGTG	1 cut(s)	907
Cac8I	GCNNGC	2 cut(s)	124, 479
CciI	TCATGA	1 cut(s)	591
CfoI	GCGC	3 cut(s)	72, 113, 142
Cfr10I	RCCGGY	1 cut(s)	118
Cfr13I	GGNCC	1 cut(s)	145
CseI	GACGC	2 cut(s)	108, 157
CviAII	CATG	4 cut(s)	203, 592, 667, 814
DdeI	CTNAG	1 cut(s)	838
DpnI	GATC	5 cut(s)	35, 84, 96, 561, 716
DpnII	GATC	5 cut(s)	33, 82, 94, 559, 714
Eam1104I	CTCTTC	1 cut(s)	359
EarI	CTCTTC	1 cut(s)	359
EciI	GGCGGA	1 cut(s)	41
Eco130I	CCWWGG	2 cut(s)	15, 73
Eco24I	GRGCYC	1 cut(s)	831
Eco47I	GGWCC	1 cut(s)	145
EcoNI	CCTNNNNNAGG	1 cut(s)	926
EcoRI	GAATTC	1 cut(s)	691
EcoRII	CCWGG	3 cut(s)	157, 545, 908
EcoT14I	CCWWGG	2 cut(s)	15, 73
EcoT38I	GRGCYC	1 cut(s)	831
ErhI	CCWWGG	2 cut(s)	15, 73
Esp3I	CGTCTC	2 cut(s)	14, 563
FaeI	CATG	4 cut(s)	206, 595, 670, 817
FatI	CATG	4 cut(s)	202, 591, 666, 813
FauI	CCCGC	1 cut(s)	115
FbaI	TGATCA	2 cut(s)	559, 714
FblI	GTMKAC	1 cut(s)	803
Fnu4HI	GCNGC	2 cut(s)	114, 127
FokI	GGATG	4 cut(s)	257, 599, 674, 693
FriOI	GRGCYC	1 cut(s)	831
Fsp4HI	GCNGC	2 cut(s)	114, 127
FspI	TGCGCA	1 cut(s)	112
GlaI	GCGC	3 cut(s)	71, 112, 141
GluI	GCNGC	2 cut(s)	114, 127
HaeII	RGCGCY	1 cut(s)	143
HaeIII	GGCC	2 cut(s)	14, 157
HapII	CCGG	6 cut(s)	43, 103, 119, 143, 177, 584
HgaI	GACGC	2 cut(s)	108, 157
HhaI	GCGC	3 cut(s)	72, 113, 142
Hin1I	GRCGYC	1 cut(s)	100
Hin1II	CATG	4 cut(s)	206, 595, 670, 817
Hin6I	GCGC	3 cut(s)	70, 111, 140
HinP1I	GCGC	3 cut(s)	70, 111, 140
HindIII	AAGCTT	1 cut(s)	303
HinfI	GANTC	5 cut(s)	46, 437, 836, 905, 947
HpaII	CCGG	6 cut(s)	43, 103, 119, 143, 177, 584
HphI	GGTGA	6 cut(s)	20, 89, 341, 349, 412, 950
Hpy166II	GTNNAC	3 cut(s)	446, 804, 890
Hpy188I	TCNGA	2 cut(s)	173, 690
Hpy188III	TCNNGA	4 cut(s)	584, 592, 615, 840
Hpy8I	GTNNAC	3 cut(s)	446, 804, 890
Hpy99I	CGWCG	3 cut(s)	70, 102, 173
HpyAV	CCTTC	4 cut(s)	416, 421, 520, 739
HpyCH4III	ACNGT	2 cut(s)	450, 902
HpyCH4IV	ACGT	2 cut(s)	65, 603
HpyCH4V	TGCA	2 cut(s)	477, 491
HpyF10VI	GCNNNNNNNGC	3 cut(s)	108, 119, 217
HpyF3I	CTNAG	1 cut(s)	838
HpySE526I	ACGT	2 cut(s)	65, 603
Hsp92I	GRCGYC	1 cut(s)	100
Hsp92II	CATG	4 cut(s)	206, 595, 670, 817
HspAI	GCGC	3 cut(s)	70, 111, 140
Kpn2I	TCCGGA	1 cut(s)	583
Ksp22I	TGATCA	2 cut(s)	559, 714
Kzo9I	GATC	5 cut(s)	33, 82, 94, 559, 714
LmnI	GCTCC	2 cut(s)	173, 913
Lsp1109I	GCAGC	2 cut(s)	113, 125
LweI	GCATC	1 cut(s)	98
MaeII	ACGT	2 cut(s)	65, 603
MaeIII	GTNAC	2 cut(s)	280, 833
MalI	GATC	5 cut(s)	35, 84, 96, 561, 716
MboI	GATC	5 cut(s)	33, 82, 94, 559, 714
MboII	GAAGA	6 cut(s)	92, 183, 331, 376, 478, 481
MhlI	GDGCHC	2 cut(s)	503, 831
MluCI	AATT	7 cut(s)	180, 195, 340, 472, 551, 691, 753
MlyI	GAGTC	1 cut(s)	830
MmeI	TCCRAC	1 cut(s)	151
MroI	TCCGGA	1 cut(s)	583
MroXI	GAANNNNTTC	1 cut(s)	960
MseI	TTAA	2 cut(s)	234, 348
MspI	CCGG	6 cut(s)	43, 103, 119, 143, 177, 584
MspR9I	CCNGG	3 cut(s)	159, 547, 910
Mva1269I	GAATGC	1 cut(s)	991
MvaI	CCWGG	3 cut(s)	159, 547, 910
MvnI	CGCG	1 cut(s)	70
MwoI	GCNNNNNNNGC	3 cut(s)	108, 119, 217
NdeII	GATC	5 cut(s)	33, 82, 94, 559, 714
NlaIII	CATG	4 cut(s)	206, 595, 670, 817
NlaIV	GGNNCC	2 cut(s)	147, 175
NmeAIII	GCCGAG	1 cut(s)	362
NmuCI	GTSAC	1 cut(s)	833
NsbI	TGCGCA	1 cut(s)	112
NspV	TTCGAA	1 cut(s)	777
PagI	TCATGA	1 cut(s)	591
PcsI	WCGNNNNNNNCGW	1 cut(s)	774
PctI	GAATGC	1 cut(s)	991
PdmI	GAANNNNTTC	1 cut(s)	960
PfeI	GAWTC	4 cut(s)	46, 437, 905, 947
PkrI	GCNGC	2 cut(s)	115, 128
PleI	GAGTC	1 cut(s)	830
PpsI	GAGTC	1 cut(s)	830
Psp6I	CCWGG	3 cut(s)	157, 545, 908
PspGI	CCWGG	3 cut(s)	157, 545, 908
PspN4I	GGNNCC	2 cut(s)	147, 175
PspPI	GGNCC	1 cut(s)	145
SaqAI	TTAA	2 cut(s)	234, 348
SatI	GCNGC	2 cut(s)	114, 127
Sau3AI	GATC	5 cut(s)	33, 82, 94, 559, 714
Sau96I	GGNCC	1 cut(s)	145
SchI	GAGTC	1 cut(s)	830
ScrFI	CCNGG	3 cut(s)	159, 547, 910
SduI	GDGCHC	2 cut(s)	503, 831
SfaNI	GCATC	1 cut(s)	98
SfuI	TTCGAA	1 cut(s)	777
SgrAI	CRCCGGYG	1 cut(s)	118
SinI	GGWCC	1 cut(s)	145
Sse9I	AATT	7 cut(s)	180, 195, 340, 472, 551, 691, 753
SsiI	CCGC	3 cut(s)	26, 122, 335
StyD4I	CCNGG	3 cut(s)	157, 545, 908
StyI	CCWWGG	2 cut(s)	15, 73
TaaI	ACNGT	2 cut(s)	450, 902
TaiI	ACGT	2 cut(s)	68, 606
TaqI	TCGA	3 cut(s)	36, 97, 777
TasI	AATT	7 cut(s)	180, 195, 340, 472, 551, 691, 753
TfiI	GAWTC	4 cut(s)	46, 437, 905, 947
Tru1I	TTAA	2 cut(s)	234, 348
Tru9I	TTAA	2 cut(s)	234, 348
TscAI	CASTG	1 cut(s)	907
TseFI	GTSAC	1 cut(s)	833
TseI	GCWGC	2 cut(s)	113, 126
Tsp45I	GTSAC	1 cut(s)	833
TspRI	CASTG	1 cut(s)	907
VpaK11BI	GGWCC	1 cut(s)	145
XagI	CCTNNNNNAGG	1 cut(s)	926
XapI	RAATTY	3 cut(s)	180, 340, 691
XmiI	GTMKAC	1 cut(s)	803
XmnI	GAANNNNTTC	1 cut(s)	960

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