Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0001126

Physical Location & Seq

Genomic Coordinates Forward (+)

21390824 .. 21391129

Gene Structure 306 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG193900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 306 bp

ATGGGAATGGATTGCGTGGCCGAGAAGCTCAGGGTTGAGAGTGATGTTTATGTTGCTACCTCAGCTGTGAGTATGTATTGGAGCTGTGGGGAGTTGGTTTCTGCTGCAAAGTTGTTTGAACATATGCCTGTTAAGAATGTGGTGAGCTATAATGCTTTTATAACAGGGCTTTTGCATAATGGGGTTCCAAAGGTGGTGTTGGATGTGTTTAAGAAAATGAAAATGAGAGCATATAGAGGTGAAAATCTGAATTCAGTGACATTGGTTTCGGTTCTTTCTGCTTGTGCTGGTGTTTTGTATCTCTGA

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_2

Protein Analysis

101

Amino Acids

11.07

Weight (kDa)

8.48

Isoelectric Point (pI)

25.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	45 - 96	1.4e-07	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0001126)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G02750
fragaria_vesca	FvH4_4g31750 FvH4_4g31750 FvH4_4g31750
malus_domestica	MD16G1077500.v1.1
prunus_persica	Prupe.1G269600_v2.0.a1
pyrus_communis	pycom16g06680
rosa_chinensis	RchiOBHm_Chr3g0480041 RchiOBHm_Chr4g0440351 RchiOBHm_Chr5g0020671 RchiOBHm_Chr5g0027821 RchiOBHm_Chr5g0045351 RchiOBHm_Chr5g0062441 RchiOBHm_Chr6g0278731
rosa_laevigata	RLG00000006189 RLG00000009789 RLG00000009916 RLG00000013392 RLG00000013526 RLG00000013972 RLG00000020257 RLG00000031746 RLG00000031753 RLG00000033045 RLG00000033161
rosa_multiflora	Rmu_co8052728.1_g000001 Rmu_sc0001159.1_g000033 Rmu_sc0001685.1_g000045 Rmu_sc0003684.1_g000002 Rmu_sc0004520.1_g000016 Rmu_sc0012764.1_g000009 Rmu_sc0017399.1_g000002
rosa_roxburghii	Rroxscaffold_5G00343960 Rroxscaffold_5G00381230
rosa_rugosa	Rorug02G0009200 Rorug04G0056800 Rorug04G0056900 Rorug04G0325800 Rorug04G0335700
rosa_samantha	Rh2BG469200 Rh3CG261100 Rh3DG257000 Rh4AG376800 Rh4BG090100 Rh4BG389800 Rh4CG404600 Rh4DG383500 Rh5AG303800 Rh5AG409600 Rh5BG076900 Rh5BG193800 Rh5BG193900 Rh5BG199300 Rh5CG163100 Rh5CG214100 Rh5DG322500 Rh7BG133700
rosa_wichuraiana	Rw4G032260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	161
AcoI	YGGCCR	1 cut(s)	18
AcsI	RAATTY	1 cut(s)	250
AgsI	TTSAA	1 cut(s)	119
AluBI	AGCT	4 cut(s)	28, 65, 84, 147
AluI	AGCT	4 cut(s)	28, 65, 84, 147
AoxI	GGCC	1 cut(s)	18
ApeKI	GCWGC	1 cut(s)	104
ApoI	RAATTY	1 cut(s)	250
ArsI	GACNNNNNNTTYG	2 cut(s)	250, 282
AsuHPI	GGTGA	2 cut(s)	154, 251
BbvCI	CCTCAGC	1 cut(s)	61
BbvI	GCAGC	1 cut(s)	91
BisI	GCNGC	1 cut(s)	105
BlsI	GCNGC	1 cut(s)	106
BmiI	GGNNCC	1 cut(s)	186
Bpu10I	CCTNAGC	2 cut(s)	29, 61
BseGI	GGATG	1 cut(s)	208
BseMII	CTCAG	2 cut(s)	43, 75
BseXI	GCAGC	1 cut(s)	91
BshFI	GGCC	1 cut(s)	20
BsnI	GGCC	1 cut(s)	20
BspANI	GGCC	1 cut(s)	20
BspCNI	CTCAG	2 cut(s)	42, 74
BspLI	GGNNCC	1 cut(s)	186
BstDEI	CTNAG	2 cut(s)	29, 61
BstF5I	GGATG	1 cut(s)	208
BstMWI	GCNNNNNNNGC	1 cut(s)	62
BstV1I	GCAGC	1 cut(s)	91
BsuRI	GGCC	1 cut(s)	20
BtsCI	GGATG	1 cut(s)	208
BtsIMutI	CAGTG	1 cut(s)	261
CviJI	RGCY	6 cut(s)	20, 28, 65, 84, 147, 169
CviKI_1	RGCY	6 cut(s)	20, 28, 65, 84, 147, 169
DdeI	CTNAG	2 cut(s)	29, 61
EaeI	YGGCCR	1 cut(s)	18
EcoRI	GAATTC	1 cut(s)	250
FaiI	YATR	9 cut(s)	51, 74, 123, 125, 150, 161, 177, 232, 234
FauNDI	CATATG	1 cut(s)	123
Fnu4HI	GCNGC	1 cut(s)	105
FokI	GGATG	1 cut(s)	215
Fsp4HI	GCNGC	1 cut(s)	105
GluI	GCNGC	1 cut(s)	105
HaeIII	GGCC	1 cut(s)	20
HphI	GGTGA	2 cut(s)	154, 251
Hpy188I	TCNGA	2 cut(s)	249, 305
HpyCH4V	TGCA	2 cut(s)	107, 175
HpyF10VI	GCNNNNNNNGC	1 cut(s)	62
HpyF3I	CTNAG	2 cut(s)	29, 61
LmnI	GCTCC	1 cut(s)	81
LpnPI	CCDG	4 cut(s)	16, 141, 150, 273
Lsp1109I	GCAGC	1 cut(s)	91
MaeIII	GTNAC	1 cut(s)	256
MluCI	AATT	1 cut(s)	250
MmeI	TCCRAC	1 cut(s)	180
MnlI	CCTC	2 cut(s)	70, 230
MseI	TTAA	2 cut(s)	132, 210
MspA1I	CMGCKG	1 cut(s)	65
MwoI	GCNNNNNNNGC	1 cut(s)	62
NdeI	CATATG	1 cut(s)	123
NlaIV	GGNNCC	1 cut(s)	186
NmeAIII	GCCGAG	1 cut(s)	46
NmuCI	GTSAC	1 cut(s)	256
PkrI	GCNGC	1 cut(s)	106
PsiI	TTATAA	1 cut(s)	161
PspN4I	GGNNCC	1 cut(s)	186
PvuII	CAGCTG	1 cut(s)	65
SaqAI	TTAA	2 cut(s)	132, 210
SatI	GCNGC	1 cut(s)	105
SetI	ASST	7 cut(s)	30, 62, 67, 86, 149, 195, 241
SgeI	CNNG	7 cut(s)	28, 34, 43, 140, 177, 294, 300
Sse9I	AATT	1 cut(s)	250
TasI	AATT	1 cut(s)	250
Tru1I	TTAA	2 cut(s)	132, 210
Tru9I	TTAA	2 cut(s)	132, 210
TscAI	CASTG	1 cut(s)	261
TseFI	GTSAC	1 cut(s)	256
TseI	GCWGC	1 cut(s)	104
Tsp45I	GTSAC	1 cut(s)	256
TspDTI	ATGAA	1 cut(s)	233
TspRI	CASTG	1 cut(s)	261
XapI	RAATTY	1 cut(s)	250

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