Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0003945

Physical Location & Seq

Genomic Coordinates Forward (+)

37201747 .. 37202115

Gene Structure 369 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG315600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 369 bp

ATGGTTGATGCGTATGAGCTGTTGAAGGAGCTGAGGAGGAAGGGTTGTGAGTCCAATGCGGGTTCGTATACGACTATGATTCAGGTACTTTGCGGGCAGGAGAAGATGGAGGAGGCGATGAGGGTGTTTGTGGAGATGGAGAAGAGTGGTTGTGAGGTTGATGTTGTGACTTATACTACTTTGATTAGTGGATTTTGTAAGTGGGGGAAGATTGTGAGGAGTTATGAGATTTTGGAGAGTATAATAAGGAAAGGGTTTACGCCGAGTCAGATGACTTACTTGCAGATTATGTTGGCTCATGAGAAGAAGGAAGACTTTGAGGAGTGTATAATTGATGGGGCAGATGAGGAAGATTGGTTGCATGCCTGA

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

14.08

Weight (kDa)

4.72

Isoelectric Point (pI)

36.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	2 - 31	7.3e-06	PPR repeat family
PPR_long	PF17177	3 - 95	3.5e-06	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	7 - 52	5.5e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	14 - 47	8.1e-08	PPR repeat
PPR_2	PF13041	19 - 67	5.6e-19	PPR repeat family
PPR	PF01535	22 - 51	7.5e-08	PPR repeat
PPR_3	PF13812	45 - 97	1.4e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	50 - 79	6.8e-10	PPR repeat
PPR_2	PF13041	54 - 94	2.5e-08	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	2 cut(s)	59, 93
AfaI	GTAC	1 cut(s)	87
AgsI	TTSAA	1 cut(s)	25
AluBI	AGCT	2 cut(s)	19, 31
AluI	AGCT	2 cut(s)	19, 31
BbsI	GAAGAC	1 cut(s)	318
BbvCI	CCTCAGC	1 cut(s)	32
BccI	CCATC	3 cut(s)	100, 130, 329
BpiI	GAAGAC	1 cut(s)	318
Bpu10I	CCTNAGC	1 cut(s)	32
BsaXI	ACNNNNNCTCC	2 cut(s)	28, 58
BseMII	CTCAG	1 cut(s)	23
BseRI	GAGGAG	4 cut(s)	49, 125, 232, 335
BspACI	CCGC	2 cut(s)	59, 93
BspCNI	CTCAG	1 cut(s)	24
BspHI	TCATGA	1 cut(s)	298
BssNAI	GTATAC	1 cut(s)	69
Bst1107I	GTATAC	1 cut(s)	69
Bst6I	CTCTTC	1 cut(s)	137
BstC8I	GCNNGC	2 cut(s)	95, 363
BstDEI	CTNAG	1 cut(s)	32
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
Csp6I	GTAC	1 cut(s)	86
CviAII	CATG	2 cut(s)	299, 362
CviJI	RGCY	3 cut(s)	19, 31, 296
CviKI_1	RGCY	3 cut(s)	19, 31, 296
CviQI	GTAC	1 cut(s)	86
DdeI	CTNAG	1 cut(s)	32
Eam1104I	CTCTTC	1 cut(s)	137
EarI	CTCTTC	1 cut(s)	137
FaeI	CATG	2 cut(s)	302, 365
FalI	AAGNNNNNCTT	2 cut(s)	299, 331
FatI	CATG	2 cut(s)	298, 361
FauI	CCCGC	2 cut(s)	52, 86
FblI	GTMKAC	1 cut(s)	68
Hin1II	CATG	2 cut(s)	302, 365
HinfI	GANTC	3 cut(s)	50, 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
HpyAV	CCTTC	3 cut(s)	19, 34, 301
HpyCH4V	TGCA	2 cut(s)	283, 361
HpyF3I	CTNAG	1 cut(s)	32
Hsp92II	CATG	2 cut(s)	302, 365
LmnI	GCTCC	1 cut(s)	28
LpnPI	CCDG	2 cut(s)	68, 83
MaeIII	GTNAC	1 cut(s)	166
MboII	GAAGA	6 cut(s)	115, 154, 220, 316, 323, 362
MluCI	AATT	1 cut(s)	330
MlyI	GAGTC	2 cut(s)	59, 274
MnlI	CCTC	9 cut(s)	27, 30, 103, 106, 114, 148, 210, 313, 340
NlaIII	CATG	2 cut(s)	302, 365
NmeAIII	GCCGAG	1 cut(s)	288
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	2 cut(s)	58, 273
PpsI	GAGTC	2 cut(s)	58, 273
RsaI	GTAC	1 cut(s)	87
RsaNI	GTAC	1 cut(s)	86
SchI	GAGTC	2 cut(s)	59, 274
SetI	ASST	4 cut(s)	21, 33, 87, 159
SgeI	CNNG	7 cut(s)	72, 95, 106, 110, 276, 292, 311
SphI	GCATGC	1 cut(s)	365
Sse9I	AATT	1 cut(s)	330
SsiI	CCGC	2 cut(s)	59, 93
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.