Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0003910

Physical Location & Seq

Genomic Coordinates Forward (+)

1219247 .. 1219558

Gene Structure 312 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG018400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 312 bp

ATGTATTCAAGGTGGAGACGTTTGATAGAAGCTAGGAATGTGTTTGATGAAATGCGGATTAAGGATGTGGTTTCTTGGAATGCAATACTATCAGGTTACTCTCAAGAGGGAAATCATGGGCTTGAAGCAGTTTTACTCTTCATTGAAATGGTGAGAAAAGGGATGAAACTTGATCATGTCTCATTTACTAGCGCAGTTTCAGCTTGCGGGCATGAGAAGAATTTAAGACTTGGGAGACAGATACATGGCTTGACAGTAAAATCAGGATATGAAAGTCATTTTTCAGTTGGGAACGTGTTGATCTCAACATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000960 GO:0000962 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:0009893 GO:0009894 GO:0009896 GO:0009987 GO:0010468 GO:0010604 GO:0016070 GO:0016787 GO:0016788 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031329 GO:0031331 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:0045935 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0061013 GO:0061014 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363 GO:1903311 GO:1903313 GO:1905637 GO:1905639

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

103

Amino Acids

11.68

Weight (kDa)

9.3

Isoelectric Point (pI)

42.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	21 - 69	1.8e-10	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0003910)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G32430 AT4G32430
fragaria_vesca	FvH4_1g03430
malus_domestica	MD15G1174400.v1.1
prunus_persica	Prupe.5G003100_v2.0.a1 Prupe.7G240400_v2.0.a1 Prupe.7G241500_v2.0.a1 Prupe.7G241700_v2.0.a1 Prupe.8G249000_v2.0.a1
pyrus_communis	pycom15g15600
rosa_chinensis	RchiOBHm_Chr2g0088661 RchiOBHm_Chr5g0002171
rosa_laevigata	RLG00000015973 RLG00000015974 RLG00000031004
rosa_multiflora	Rmu_sc0006835.1_g000012 Rmu_sc0006835.1_g000013 Rmu_sc0013155.1_g000001 Rmu_sc0015442.1_g000012 Rmu_sc0015442.1_g000013 Rmu_sc0024326.1_g000001 Rmu_sc0041985.1_g000001
rosa_roxburghii	Rroxscaffold_2G00152420
rosa_rugosa	Rorug01G0485700
rosa_samantha	Rh2AG041200 Rh2BG039900 Rh2CG040700 Rh2DG040300 Rh5AG016800 Rh5AG016900 Rh5CG018300 Rh5CG018400 Rh5CG018500
rosa_wichuraiana	Rw2G003320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	55, 207
AcsI	RAATTY	1 cut(s)	220
AflIII	ACRYGT	1 cut(s)	294
AgsI	TTSAA	3 cut(s)	9, 125, 146
AluBI	AGCT	2 cut(s)	32, 203
AluI	AGCT	2 cut(s)	32, 203
Alw26I	GTCTC	3 cut(s)	10, 184, 229
ApoI	RAATTY	1 cut(s)	220
AspLEI	GCGC	1 cut(s)	194
AsuHPI	GGTGA	1 cut(s)	163
BarI	GAAGNNNNNNTAC	2 cut(s)	117, 149
BclI	TGATCA	1 cut(s)	172
BcoDI	GTCTC	3 cut(s)	10, 184, 229
BfaI	CTAG	2 cut(s)	33, 189
BpuEI	CTTGAG	1 cut(s)	87
BseGI	GGATG	2 cut(s)	70, 168
BsmAI	GTCTC	3 cut(s)	10, 184, 229
BsmBI	CGTCTC	1 cut(s)	10
BsmI	GAATGC	1 cut(s)	85
Bsp143I	GATC	2 cut(s)	172, 300
BspACI	CCGC	2 cut(s)	55, 207
BssMI	GATC	2 cut(s)	172, 300
Bst4CI	ACNGT	1 cut(s)	256
Bst6I	CTCTTC	1 cut(s)	143
BstC8I	GCNNGC	2 cut(s)	205, 209
BstF5I	GGATG	2 cut(s)	70, 168
BstHHI	GCGC	1 cut(s)	194
BstKTI	GATC	2 cut(s)	175, 303
BstMAI	GTCTC	3 cut(s)	10, 184, 229
BstMBI	GATC	2 cut(s)	172, 300
BstMWI	GCNNNNNNNGC	1 cut(s)	200
BtsCI	GGATG	2 cut(s)	70, 168
Cac8I	GCNNGC	2 cut(s)	205, 209
CfoI	GCGC	1 cut(s)	194
CviAII	CATG	4 cut(s)	116, 176, 212, 245
CviJI	RGCY	4 cut(s)	32, 121, 203, 249
CviKI_1	RGCY	4 cut(s)	32, 121, 203, 249
DpnI	GATC	2 cut(s)	174, 302
DpnII	GATC	2 cut(s)	172, 300
Eam1104I	CTCTTC	1 cut(s)	143
EarI	CTCTTC	1 cut(s)	143
Esp3I	CGTCTC	1 cut(s)	10
FaeI	CATG	4 cut(s)	119, 179, 215, 248
FaiI	YATR	6 cut(s)	117, 177, 213, 246, 270, 310
FatI	CATG	4 cut(s)	115, 175, 211, 244
FauI	CCCGC	1 cut(s)	200
FbaI	TGATCA	1 cut(s)	172
FokI	GGATG	2 cut(s)	77, 175
FspBI	CTAG	2 cut(s)	33, 189
GlaI	GCGC	1 cut(s)	193
HhaI	GCGC	1 cut(s)	194
Hin1II	CATG	4 cut(s)	119, 179, 215, 248
Hin6I	GCGC	1 cut(s)	192
HinP1I	GCGC	1 cut(s)	192
HphI	GGTGA	1 cut(s)	163
Hpy188III	TCNNGA	2 cut(s)	104, 264
HpyCH4III	ACNGT	1 cut(s)	256
HpyCH4IV	ACGT	2 cut(s)	19, 294
HpyCH4V	TGCA	1 cut(s)	83
HpyF10VI	GCNNNNNNNGC	1 cut(s)	200
HpySE526I	ACGT	2 cut(s)	19, 294
Hsp92II	CATG	4 cut(s)	119, 179, 215, 248
HspAI	GCGC	1 cut(s)	192
Ksp22I	TGATCA	1 cut(s)	172
Kzo9I	GATC	2 cut(s)	172, 300
LpnPI	CCDG	2 cut(s)	78, 249
MaeI	CTAG	2 cut(s)	33, 189
MaeII	ACGT	2 cut(s)	19, 294
MaeIII	GTNAC	1 cut(s)	95
MalI	GATC	2 cut(s)	174, 302
MboI	GATC	2 cut(s)	172, 300
MboII	GAAGA	2 cut(s)	130, 229
MluCI	AATT	1 cut(s)	220
MnlI	CCTC	1 cut(s)	100
MseI	TTAA	2 cut(s)	60, 224
MslI	CAYNNNNRTG	1 cut(s)	146
Mva1269I	GAATGC	1 cut(s)	85
MwoI	GCNNNNNNNGC	1 cut(s)	200
NdeII	GATC	2 cut(s)	172, 300
NlaIII	CATG	4 cut(s)	119, 179, 215, 248
PctI	GAATGC	1 cut(s)	85
RseI	CAYNNNNRTG	1 cut(s)	146
SaqAI	TTAA	2 cut(s)	60, 224
Sau3AI	GATC	2 cut(s)	172, 300
SetI	ASST	6 cut(s)	14, 22, 34, 97, 205, 297
SmiMI	CAYNNNNRTG	1 cut(s)	146
SmlI	CTYRAG	1 cut(s)	102
SmoI	CTYRAG	1 cut(s)	102
Sse9I	AATT	1 cut(s)	220
SsiI	CCGC	2 cut(s)	55, 207
SspMI	CTAG	2 cut(s)	33, 189
TaaI	ACNGT	1 cut(s)	256
TaiI	ACGT	2 cut(s)	22, 297
TasI	AATT	1 cut(s)	220
Tru1I	TTAA	2 cut(s)	60, 224
Tru9I	TTAA	2 cut(s)	60, 224
TspDTI	ATGAA	4 cut(s)	63, 130, 179, 285
XapI	RAATTY	1 cut(s)	220
XspI	CTAG	2 cut(s)	33, 189

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