Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0000530

Physical Location & Seq

Genomic Coordinates Reverse (-)

31707223 .. 31708060

Gene Structure 838 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000029029

Sequence Viewer

CDS Protein Promoter (2k)

Length: 396 bp

ATGCCTGCCATGGGACTTGTGCCCAATGTGTTGACTTTTACTACCATTTTGGGTGCCAAGAGAGTGTTCGGTGAGATTTTGGACAGAGGGTGGTTTCCTGATGTCACTAGTTATACCATATTGATGGATGGGTATGTGAAGCAGGGGAAGCTGGTTAAGGCTATTAAGGTTATGGATGAGATGGAGGATAATGGGGTTGGCGCCAATGAGGTTACTTATGGGGTTATGATTGAAGCTTATTGTAAGGAAAAGAAGTCGGGCGAAGCGATTAATTTGCTTAATGATATGGTCGAGAAGAGGTATATACCGAGCTCGGCGCTCTGTTGCAAGGCTGTTGGTGATTTGGATACTGGGGAAAGTGTTCTAAACAGAATACTACTGGAGAATGCTGATTAG

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

132

Amino Acids

14.37

Weight (kDa)

4.78

Isoelectric Point (pI)

26.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	22 - 82	2.1e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	30 - 62	1.9e-08	PPR repeat
PPR_2	PF13041	33 - 82	8.8e-17	PPR repeat family
PPR	PF01535	37 - 66	1.6e-08	PPR repeat
PPR_1	PF12854	65 - 97	6.5e-07	PPR repeat
PPR_2	PF13041	69 - 105	2.4e-08	PPR repeat family
PPR	PF01535	71 - 100	3.8e-07	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Publication-ready

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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)
AccB1I	GGYRCC	2 cut(s)	53, 200
AcyI	GRCGYC	1 cut(s)	201
AfiI	CCNNNNNNNGG	1 cut(s)	11
AgsI	TTSAA	1 cut(s)	233
AhlI	ACTAGT	1 cut(s)	107
AjuI	GAANNNNNNNTTGG	2 cut(s)	50, 82
AluBI	AGCT	3 cut(s)	151, 236, 312
AluI	AGCT	3 cut(s)	151, 236, 312
Alw21I	GWGCWC	1 cut(s)	314
AseI	ATTAAT	1 cut(s)	270
Asp700I	GAANNNNTTC	1 cut(s)	360
AspLEI	GCGC	2 cut(s)	203, 319
AsuHPI	GGTGA	2 cut(s)	83, 350
BaeGI	GKGCMC	1 cut(s)	24
BanI	GGYRCC	2 cut(s)	53, 200
BanII	GRGCYC	1 cut(s)	314
Bbv12I	GWGCWC	1 cut(s)	314
BccI	CCATC	3 cut(s)	118, 122, 175
BcgI	CGANNNNNNTGC	2 cut(s)	256, 290
BciVI	GTATCC	1 cut(s)	340
BcuI	ACTAGT	1 cut(s)	107
BfaI	CTAG	1 cut(s)	108
BfoI	RGCGCY	2 cut(s)	204, 320
BfuI	GTATCC	1 cut(s)	340
BmiI	GGNNCC	2 cut(s)	55, 202
BmrI	ACTGGG	1 cut(s)	360
BmuI	ACTGGG	1 cut(s)	360
BsaHI	GRCGYC	1 cut(s)	201
BsaJI	CCNNGG	1 cut(s)	9
Bsc4I	CCNNNNNNNGG	1 cut(s)	11
Bse1I	ACTGG	2 cut(s)	355, 384
BseDI	CCNNGG	1 cut(s)	9
BseGI	GGATG	2 cut(s)	133, 181
BseLI	CCNNNNNNNGG	1 cut(s)	11
BseNI	ACTGG	2 cut(s)	355, 384
BseSI	GKGCMC	1 cut(s)	24
BshNI	GGYRCC	2 cut(s)	53, 200
BsiHKAI	GWGCWC	1 cut(s)	314
BslFI	GGGAC	1 cut(s)	27
BslI	CCNNNNNNNGG	1 cut(s)	11
BsmFI	GGGAC	1 cut(s)	27
BsmI	GAATGC	1 cut(s)	391
Bsp1286I	GDGCHC	2 cut(s)	24, 314
Bsp19I	CCATGG	1 cut(s)	9
BspLI	GGNNCC	2 cut(s)	55, 202
BspT107I	GGYRCC	2 cut(s)	53, 200
BsrI	ACTGG	2 cut(s)	355, 384
BssECI	CCNNGG	1 cut(s)	9
BssNI	GRCGYC	1 cut(s)	201
BssT1I	CCWWGG	1 cut(s)	9
Bst6I	CTCTTC	1 cut(s)	290
BstACI	GRCGYC	1 cut(s)	201
BstC8I	GCNNGC	1 cut(s)	6
BstDSI	CCRYGG	1 cut(s)	9
BstF5I	GGATG	2 cut(s)	133, 181
BstH2I	RGCGCY	2 cut(s)	204, 320
BstHHI	GCGC	2 cut(s)	203, 319
BstMWI	GCNNNNNNNGC	1 cut(s)	148
BstSLI	GKGCMC	1 cut(s)	24
BstXI	CCANNNNNNTGG	1 cut(s)	124
BsuI	GTATCC	1 cut(s)	340
BtgI	CCRYGG	1 cut(s)	9
BtsCI	GGATG	2 cut(s)	133, 181
Cac8I	GCNNGC	1 cut(s)	6
CfoI	GCGC	2 cut(s)	203, 319
CviAII	CATG	1 cut(s)	10
CviJI	RGCY	5 cut(s)	151, 161, 236, 312, 332
CviKI_1	RGCY	5 cut(s)	151, 161, 236, 312, 332
DinI	GGCGCC	1 cut(s)	202
Eam1104I	CTCTTC	1 cut(s)	290
EarI	CTCTTC	1 cut(s)	290
Ecl136II	GAGCTC	1 cut(s)	312
Eco130I	CCWWGG	1 cut(s)	9
Eco24I	GRGCYC	1 cut(s)	314
Eco53kI	GAGCTC	1 cut(s)	312
EcoICRI	GAGCTC	1 cut(s)	312
EcoT14I	CCWWGG	1 cut(s)	9
EcoT38I	GRGCYC	1 cut(s)	314
EgeI	GGCGCC	1 cut(s)	202
EheI	GGCGCC	1 cut(s)	202
ErhI	CCWWGG	1 cut(s)	9
FaeI	CATG	1 cut(s)	13
FaqI	GGGAC	1 cut(s)	27
FatI	CATG	1 cut(s)	9
FokI	GGATG	2 cut(s)	140, 188
FriOI	GRGCYC	1 cut(s)	314
FspBI	CTAG	1 cut(s)	108
GlaI	GCGC	2 cut(s)	202, 318
HaeII	RGCGCY	2 cut(s)	204, 320
HhaI	GCGC	2 cut(s)	203, 319
Hin1I	GRCGYC	1 cut(s)	201
Hin1II	CATG	1 cut(s)	13
Hin6I	GCGC	2 cut(s)	201, 317
HinP1I	GCGC	2 cut(s)	201, 317
HincII	GTYRAC	1 cut(s)	33
HindII	GTYRAC	1 cut(s)	33
HindIII	AAGCTT	1 cut(s)	234
HphI	GGTGA	2 cut(s)	83, 350
Hpy166II	GTNNAC	1 cut(s)	33
Hpy188III	TCNNGA	2 cut(s)	98, 292
Hpy8I	GTNNAC	1 cut(s)	33
HpyCH4V	TGCA	1 cut(s)	327
HpyF10VI	GCNNNNNNNGC	1 cut(s)	148
Hsp92I	GRCGYC	1 cut(s)	201
Hsp92II	CATG	1 cut(s)	13
HspAI	GCGC	2 cut(s)	201, 317
KasI	GGCGCC	1 cut(s)	200
LpnPI	CCDG	6 cut(s)	18, 111, 128, 137, 336, 365
MaeI	CTAG	1 cut(s)	108
MaeIII	GTNAC	2 cut(s)	103, 211
MboII	GAAGA	1 cut(s)	307
MhlI	GDGCHC	2 cut(s)	24, 314
MluCI	AATT	1 cut(s)	271
Mly113I	GGCGCC	1 cut(s)	201
MnlI	CCTC	4 cut(s)	80, 178, 202, 291
MroXI	GAANNNNTTC	1 cut(s)	360
MseI	TTAA	4 cut(s)	156, 165, 270, 279
MslI	CAYNNNNRTG	1 cut(s)	122
Mva1269I	GAATGC	1 cut(s)	391
MwoI	GCNNNNNNNGC	1 cut(s)	148
NarI	GGCGCC	1 cut(s)	201
NcoI	CCATGG	1 cut(s)	9
NlaIII	CATG	1 cut(s)	13
NlaIV	GGNNCC	2 cut(s)	55, 202
NmeAIII	GCCGAG	1 cut(s)	293
NmuCI	GTSAC	1 cut(s)	103
PcsI	WCGNNNNNNNCGW	1 cut(s)	263
PctI	GAATGC	1 cut(s)	391
PdmI	GAANNNNTTC	1 cut(s)	360
PluTI	GGCGCC	1 cut(s)	204
PshBI	ATTAAT	1 cut(s)	270
Psp124BI	GAGCTC	1 cut(s)	314
PspN4I	GGNNCC	2 cut(s)	55, 202
RseI	CAYNNNNRTG	1 cut(s)	122
SacI	GAGCTC	1 cut(s)	314
SaqAI	TTAA	4 cut(s)	156, 165, 270, 279
SduI	GDGCHC	2 cut(s)	24, 314
SetI	ASST	6 cut(s)	153, 171, 213, 238, 302, 314
SfoI	GGCGCC	1 cut(s)	202
SmiMI	CAYNNNNRTG	1 cut(s)	122
SpeI	ACTAGT	1 cut(s)	107
Sse9I	AATT	1 cut(s)	271
SspDI	GGCGCC	1 cut(s)	200
SspMI	CTAG	1 cut(s)	108
SstI	GAGCTC	1 cut(s)	314
StyI	CCWWGG	1 cut(s)	9
TaqI	TCGA	1 cut(s)	291
TasI	AATT	1 cut(s)	271
Tru1I	TTAA	4 cut(s)	156, 165, 270, 279
Tru9I	TTAA	4 cut(s)	156, 165, 270, 279
TseFI	GTSAC	1 cut(s)	103
Tsp45I	GTSAC	1 cut(s)	103
VspI	ATTAAT	1 cut(s)	270
XmnI	GAANNNNTTC	1 cut(s)	360
XspI	CTAG	1 cut(s)	108

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