Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0000530

Physical Location & Seq

Genomic Coordinates Forward (+)

36494150 .. 36494641

Gene Structure 492 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG165900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 237 bp

ATGGATGGGTATGTGAAGCAGGGGAAGCTGGTTGAGGCTATTAAGGTTATGGATGAGATGGAGGACAATGGGATTGGTTCCAATGAGGTTACTTATGGAGTTATGATTGAAGCTTATTGTAAGGAAAAGAAGTTGGGTGAAGCGGTTAATTTACTTAATGATATGGCGGAGAAGAGAGCCCCAGACCTTGTGGTCTTGGAATATGCTGACCTTGATCTCACCCACAATGTTTCTCAG

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

79

Amino Acids

8.79

Weight (kDa)

4.4

Isoelectric Point (pI)

22.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	1 - 41	2.1e-12	PPR repeat family
PPR_1	PF12854	24 - 55	2.1e-08	PPR repeat
PPR_2	PF13041	28 - 59	4.8e-08	PPR repeat family
PPR	PF01535	30 - 58	2.5e-07	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)
AasI	GACNNNNNNGTC	1 cut(s)	191
AciI	CCGC	2 cut(s)	143, 167
AgsI	TTSAA	1 cut(s)	110
AluBI	AGCT	2 cut(s)	28, 113
AluI	AGCT	2 cut(s)	28, 113
AsuHPI	GGTGA	2 cut(s)	149, 211
BanII	GRGCYC	1 cut(s)	181
BccI	CCATC	1 cut(s)	52
BmiI	GGNNCC	1 cut(s)	79
BseGI	GGATG	2 cut(s)	10, 58
Bsp1286I	GDGCHC	1 cut(s)	181
Bsp143I	GATC	1 cut(s)	214
BspACI	CCGC	2 cut(s)	143, 167
BspLI	GGNNCC	1 cut(s)	79
BssMI	GATC	1 cut(s)	214
Bst6I	CTCTTC	1 cut(s)	167
BstDEI	CTNAG	1 cut(s)	234
BstF5I	GGATG	2 cut(s)	10, 58
BstKTI	GATC	1 cut(s)	217
BstMBI	GATC	1 cut(s)	214
BstMWI	GCNNNNNNNGC	1 cut(s)	25
BtsCI	GGATG	2 cut(s)	10, 58
CviJI	RGCY	4 cut(s)	28, 38, 113, 179
CviKI_1	RGCY	4 cut(s)	28, 38, 113, 179
DdeI	CTNAG	1 cut(s)	234
DpnI	GATC	1 cut(s)	216
DpnII	GATC	1 cut(s)	214
DrdI	GACNNNNNNGTC	1 cut(s)	191
DseDI	GACNNNNNNGTC	1 cut(s)	191
Eam1104I	CTCTTC	1 cut(s)	167
EarI	CTCTTC	1 cut(s)	167
EciI	GGCGGA	1 cut(s)	182
Eco24I	GRGCYC	1 cut(s)	181
EcoT38I	GRGCYC	1 cut(s)	181
FaiI	YATR	6 cut(s)	12, 50, 96, 104, 164, 204
FokI	GGATG	2 cut(s)	17, 65
FriOI	GRGCYC	1 cut(s)	181
HindIII	AAGCTT	1 cut(s)	111
HphI	GGTGA	2 cut(s)	149, 211
HpyF10VI	GCNNNNNNNGC	1 cut(s)	25
HpyF3I	CTNAG	1 cut(s)	234
Kzo9I	GATC	1 cut(s)	214
LpnPI	CCDG	3 cut(s)	5, 14, 195
MaeIII	GTNAC	1 cut(s)	88
MalI	GATC	1 cut(s)	216
MboI	GATC	1 cut(s)	214
MboII	GAAGA	1 cut(s)	184
MhlI	GDGCHC	1 cut(s)	181
MluCI	AATT	1 cut(s)	148
MnlI	CCTC	3 cut(s)	28, 55, 79
MseI	TTAA	3 cut(s)	42, 147, 156
MwoI	GCNNNNNNNGC	1 cut(s)	25
NdeII	GATC	1 cut(s)	214
NlaIV	GGNNCC	1 cut(s)	79
PspN4I	GGNNCC	1 cut(s)	79
SaqAI	TTAA	3 cut(s)	42, 147, 156
Sau3AI	GATC	1 cut(s)	214
SduI	GDGCHC	1 cut(s)	181
SetI	ASST	6 cut(s)	30, 48, 90, 115, 189, 213
SgeI	CNNG	6 cut(s)	32, 41, 194, 200, 208, 224
Sse9I	AATT	1 cut(s)	148
SsiI	CCGC	2 cut(s)	143, 167
TasI	AATT	1 cut(s)	148
Tru1I	TTAA	3 cut(s)	42, 147, 156
Tru9I	TTAA	3 cut(s)	42, 147, 156

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