Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0003945

Physical Location & Seq

Genomic Coordinates Reverse (-)

31022429 .. 31022797

Gene Structure 369 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG307100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 369 bp

ATGGTTGATGCGTATGAGCTATTGAAGGAGATGAGGAGCAAGGGTTGTGAGCCCAATGCGGGTTCGTATACGACTATGATTCAGGCACTTTGCTGGCAGGAGAAGATGGAGGAGGCGATGAGGGTGTTTTTGGAGATGGAGAGGAGTGGTTGTGAGGTTGATGTTGTGACTTATACTACTTTGATTAGTGGATTTTGTAAGTGGGGGAAGATTGTGAGGAGTTATGAGATTTTGGAGAGTATAATAAGGAAAGGGTTTACGTCGAGTCAGATGACTTACTTGCAGATTATGTTGGCTCATGAGAAGAAGGAAGACTTGGAGGAGTGTATAATTGATGGGGCAGATGAGGAAGATTGGTTGCATGCCTGA

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

122

Amino Acids

14.14

Weight (kDa)

4.63

Isoelectric Point (pI)

40.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	2 - 31	4e-09	PPR repeat family
PPR_long	PF17177	4 - 92	4.5e-07	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	7 - 52	2e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	14 - 47	3.9e-09	PPR repeat
PPR_2	PF13041	18 - 67	8.4e-20	PPR repeat family
PPR	PF01535	22 - 51	4.5e-09	PPR repeat
PPR_3	PF13812	41 - 97	1.2e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	50 - 79	6.8e-10	PPR repeat
PPR_2	PF13041	54 - 94	6.5e-07	PPR repeat family
PPR	PF01535	56 - 86	7.4e-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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Publication-ready

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Orthologous Genes (Group: OG0003945)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g05081
malus_domestica	MD10G1101700.v1.1
pyrus_communis	pycom09g04910 pycom15g38900
rosa_chinensis	RchiOBHm_Chr2g0123831 RchiOBHm_Chr4g0385181 RchiOBHm_Chr5g0064611
rosa_laevigata	RLG00000008165 RLG00000018415 RLG00000019614
rosa_multiflora	Rmu_sc0000571.1_g000023 Rmu_sc0001609.1_g000009 Rmu_sc0002893.1_g000021 Rmu_sc0003314.1_g000036 Rmu_sc0004010.1_g000014 Rmu_sc0008955.1_g000004 Rmu_sc0026245.1_g000002 Rmu_sc0027612.1_g000001
rosa_roxburghii	Rroxscaffold_5G00379810 Rroxscaffold_7G00189080
rosa_rugosa	Rorug03G0223000 Rorug06G0045100
rosa_samantha	Rh1CG355700 Rh1DG373200 Rh2BG315600 Rh3BG307100 Rh3CG368600 Rh3DG369600 Rh6BG404300 Rh6DG233700 Rh6DG396800 Rh6DG396900 Rh7AG211300 Rh7CG234500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	68
AciI	CCGC	1 cut(s)	59
AfiI	CCNNNNNNNGG	1 cut(s)	59
AgsI	TTSAA	1 cut(s)	25
AjuI	GAANNNNNNNTTGG	2 cut(s)	299, 331
AluBI	AGCT	1 cut(s)	19
AluI	AGCT	1 cut(s)	19
BanII	GRGCYC	1 cut(s)	54
BbsI	GAAGAC	1 cut(s)	318
BccI	CCATC	3 cut(s)	100, 130, 329
BpiI	GAAGAC	1 cut(s)	318
BsaXI	ACNNNNNCTCC	4 cut(s)	28, 58, 136, 166
Bsc4I	CCNNNNNNNGG	1 cut(s)	59
BseLI	CCNNNNNNNGG	1 cut(s)	59
BseRI	GAGGAG	5 cut(s)	49, 125, 157, 232, 335
BslI	CCNNNNNNNGG	1 cut(s)	59
Bsp1286I	GDGCHC	1 cut(s)	54
BspACI	CCGC	1 cut(s)	59
BspHI	TCATGA	1 cut(s)	298
BssNAI	GTATAC	1 cut(s)	69
Bst1107I	GTATAC	1 cut(s)	69
BstC8I	GCNNGC	2 cut(s)	95, 363
BstNSI	RCATGY	1 cut(s)	365
BstV2I	GAAGAC	1 cut(s)	318
BstZ17I	GTATAC	1 cut(s)	69
BtgZI	GCGATG	1 cut(s)	131
Cac8I	GCNNGC	2 cut(s)	95, 363
CciI	TCATGA	1 cut(s)	298
CviAII	CATG	2 cut(s)	299, 362
CviJI	RGCY	3 cut(s)	19, 52, 296
CviKI_1	RGCY	3 cut(s)	19, 52, 296
Eco24I	GRGCYC	1 cut(s)	54
EcoT38I	GRGCYC	1 cut(s)	54
FaeI	CATG	2 cut(s)	302, 365
FalI	AAGNNNNNCTT	2 cut(s)	299, 331
FatI	CATG	2 cut(s)	298, 361
FauI	CCCGC	1 cut(s)	52
FblI	GTMKAC	1 cut(s)	68
FriOI	GRGCYC	1 cut(s)	54
Hin1II	CATG	2 cut(s)	302, 365
HinfI	GANTC	2 cut(s)	79, 265
Hpy166II	GTNNAC	2 cut(s)	69, 258
Hpy188I	TCNGA	1 cut(s)	270
Hpy188III	TCNNGA	1 cut(s)	299
Hpy8I	GTNNAC	2 cut(s)	69, 258
Hpy99I	CGWCG	1 cut(s)	265
HpyAV	CCTTC	2 cut(s)	19, 301
HpyCH4IV	ACGT	1 cut(s)	260
HpyCH4V	TGCA	2 cut(s)	283, 361
HpySE526I	ACGT	1 cut(s)	260
Hsp92II	CATG	2 cut(s)	302, 365
LmnI	GCTCC	1 cut(s)	36
LpnPI	CCDG	3 cut(s)	68, 79, 83
MaeII	ACGT	1 cut(s)	260
MaeIII	GTNAC	1 cut(s)	166
MboII	GAAGA	5 cut(s)	115, 220, 316, 323, 362
MhlI	GDGCHC	1 cut(s)	54
MluCI	AATT	1 cut(s)	330
MlyI	GAGTC	1 cut(s)	274
MnlI	CCTC	9 cut(s)	27, 103, 106, 114, 135, 148, 210, 313, 340
NlaIII	CATG	2 cut(s)	302, 365
NmuCI	GTSAC	1 cut(s)	166
NspI	RCATGY	1 cut(s)	365
PaeI	GCATGC	1 cut(s)	365
PagI	TCATGA	1 cut(s)	298
PfeI	GAWTC	1 cut(s)	79
PleI	GAGTC	1 cut(s)	273
PpsI	GAGTC	1 cut(s)	273
SchI	GAGTC	1 cut(s)	274
SduI	GDGCHC	1 cut(s)	54
SetI	ASST	3 cut(s)	21, 159, 263
SgeI	CNNG	9 cut(s)	52, 72, 95, 106, 110, 276, 292, 311, 328
SphI	GCATGC	1 cut(s)	365
Sse9I	AATT	1 cut(s)	330
SsiI	CCGC	1 cut(s)	59
TaiI	ACGT	1 cut(s)	263
TaqI	TCGA	1 cut(s)	263
TasI	AATT	1 cut(s)	330
TfiI	GAWTC	1 cut(s)	79
TseFI	GTSAC	1 cut(s)	166
Tsp45I	GTSAC	1 cut(s)	166
XceI	RCATGY	1 cut(s)	365
XmiI	GTMKAC	1 cut(s)	68

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