Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0002831

Physical Location & Seq

Genomic Coordinates Reverse (-)

50917422 .. 50917694

Gene Structure 273 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG247200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 273 bp

ATGTTCTATGCTATCCAGCCAGTAGTTCGGGAAAAGCCATCTCTCAAATGCATTAGTACTTGTTTAAATCTACTGATTGAAGCGAATCAGGTTGATTTGGCCCAACAGTTTCTCATGCATTTGAAGAAGAGTCTTAACTTGAAGCTGAATACATGCATTGTCAACATCTTGGTTAAGCACCATTGCACAAATGGGGATCTTGAATCTGCCTTCGAGGTTGTGAAGGAAATGAAAAAGTCTAAGCTTTCCTATCCTAATTTGATTACTTACTAG

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

90

Amino Acids

10.31

Weight (kDa)

8.96

Isoelectric Point (pI)

36.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	44 - 90	5.3e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	46 - 78	6.5e-07	PPR repeat
PPR_2	PF13041	50 - 90	2.1e-08	PPR repeat family

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: OG0002831)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G18475
fragaria_vesca	FvH4_5g35730 FvH4_5g35730 FvH4_5g35730 FvH4_5g35730 FvH4_5g35730
prunus_persica	Prupe.1G528200_v2.0.a1
pyrus_communis	pycom08g16680
rosa_chinensis	RchiOBHm_Chr4g0424581 RchiOBHm_Chr7g0237351
rosa_laevigata	RLG00000001010 RLG00000007454
rosa_multiflora	Rmu_co8091050.1_g000001 Rmu_sc0000281.1_g000013 Rmu_sc0000820.1_g000045 Rmu_sc0002603.1_g000021 Rmu_sc0002923.1_g000038 Rmu_sc0006438.1_g000010
rosa_roxburghii	Rroxscaffold_3G00224290 Rroxscaffold_3G00224300 Rroxscaffold_5G00366500
rosa_rugosa	Rorug04G0198000 Rorug07G0302800 Rorug07G0302800
rosa_samantha	Rh1CG247200 Rh1DG083900 Rh4AG254700 Rh4BG260200 Rh4CG271700 Rh4DG254900 Rh5AG212800 Rh6DG464200 Rh7AG460000 Rh7BG429900 Rh7CG477300 Rh7DG446600
rosa_wichuraiana	Rw1G023340 Rw4G022020 Rw7G038100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	204
AfaI	GTAC	1 cut(s)	58
AgsI	TTSAA	4 cut(s)	80, 124, 142, 203
AluBI	AGCT	2 cut(s)	145, 244
AluI	AGCT	2 cut(s)	145, 244
AlwI	GGATC	1 cut(s)	204
AoxI	GGCC	1 cut(s)	99
AspS9I	GGNCC	1 cut(s)	100
BccI	CCATC	1 cut(s)	46
BfaI	CTAG	1 cut(s)	271
BmcAI	AGTACT	1 cut(s)	58
BmgT120I	GGNCC	1 cut(s)	100
Bse1I	ACTGG	1 cut(s)	20
Bse3DI	GCAATG	1 cut(s)	181
BseMI	GCAATG	1 cut(s)	181
BseNI	ACTGG	1 cut(s)	20
BshFI	GGCC	1 cut(s)	101
BsnI	GGCC	1 cut(s)	101
Bsp143I	GATC	1 cut(s)	196
BspANI	GGCC	1 cut(s)	101
BspPI	GGATC	1 cut(s)	204
BsrDI	GCAATG	1 cut(s)	181
BsrI	ACTGG	1 cut(s)	20
BssMI	GATC	1 cut(s)	196
Bst4CI	ACNGT	1 cut(s)	108
Bst6I	CTCTTC	1 cut(s)	122
BstDEI	CTNAG	1 cut(s)	240
BstKTI	GATC	1 cut(s)	199
BstMBI	GATC	1 cut(s)	196
BstNSI	RCATGY	1 cut(s)	156
BstX2I	RGATCY	1 cut(s)	196
BstYI	RGATCY	1 cut(s)	196
BsuRI	GGCC	1 cut(s)	101
Cfr13I	GGNCC	1 cut(s)	100
Csp6I	GTAC	1 cut(s)	57
CviAII	CATG	2 cut(s)	115, 153
CviJI	RGCY	5 cut(s)	19, 37, 101, 145, 244
CviKI_1	RGCY	5 cut(s)	19, 37, 101, 145, 244
CviQI	GTAC	1 cut(s)	57
DdeI	CTNAG	1 cut(s)	240
DpnI	GATC	1 cut(s)	198
DpnII	GATC	1 cut(s)	196
DraI	TTTAAA	1 cut(s)	66
Eam1104I	CTCTTC	1 cut(s)	122
EarI	CTCTTC	1 cut(s)	122
EcoT22I	ATGCAT	3 cut(s)	53, 120, 158
FaeI	CATG	2 cut(s)	118, 156
FaiI	YATR	3 cut(s)	9, 116, 154
FatI	CATG	2 cut(s)	114, 152
FspBI	CTAG	1 cut(s)	271
HaeIII	GGCC	1 cut(s)	101
Hin1II	CATG	2 cut(s)	118, 156
HincII	GTYRAC	1 cut(s)	163
HindII	GTYRAC	1 cut(s)	163
HindIII	AAGCTT	1 cut(s)	242
HinfI	GANTC	3 cut(s)	85, 130, 203
Hpy166II	GTNNAC	1 cut(s)	163
Hpy188III	TCNNGA	2 cut(s)	29, 200
Hpy8I	GTNNAC	1 cut(s)	163
HpyAV	CCTTC	2 cut(s)	217, 220
HpyCH4III	ACNGT	1 cut(s)	108
HpyCH4V	TGCA	4 cut(s)	51, 118, 156, 186
HpyF3I	CTNAG	1 cut(s)	240
Hsp92II	CATG	2 cut(s)	118, 156
Kzo9I	GATC	1 cut(s)	196
LpnPI	CCDG	3 cut(s)	29, 33, 74
MaeI	CTAG	1 cut(s)	271
MalI	GATC	1 cut(s)	198
MboI	GATC	1 cut(s)	196
MboII	GAAGA	2 cut(s)	136, 139
MflI	RGATCY	1 cut(s)	196
MluCI	AATT	1 cut(s)	256
MlyI	GAGTC	1 cut(s)	139
MnlI	CCTC	1 cut(s)	208
Mph1103I	ATGCAT	3 cut(s)	53, 120, 158
MseI	TTAA	3 cut(s)	65, 135, 174
NdeII	GATC	1 cut(s)	196
NlaIII	CATG	2 cut(s)	118, 156
NsiI	ATGCAT	3 cut(s)	53, 120, 158
NspI	RCATGY	1 cut(s)	156
PfeI	GAWTC	2 cut(s)	85, 203
PleI	GAGTC	1 cut(s)	138
PpsI	GAGTC	1 cut(s)	138
PspPI	GGNCC	1 cut(s)	100
PsuI	RGATCY	1 cut(s)	196
RsaI	GTAC	1 cut(s)	58
RsaNI	GTAC	1 cut(s)	57
SaqAI	TTAA	3 cut(s)	65, 135, 174
Sau3AI	GATC	1 cut(s)	196
Sau96I	GGNCC	1 cut(s)	100
ScaI	AGTACT	1 cut(s)	58
SchI	GAGTC	1 cut(s)	139
SetI	ASST	4 cut(s)	93, 147, 219, 246
Sse9I	AATT	1 cut(s)	256
SspMI	CTAG	1 cut(s)	271
TaaI	ACNGT	1 cut(s)	108
TaqI	TCGA	1 cut(s)	213
TasI	AATT	1 cut(s)	256
TatI	WGTACW	1 cut(s)	56
TfiI	GAWTC	2 cut(s)	85, 203
Tru1I	TTAA	3 cut(s)	65, 135, 174
Tru9I	TTAA	3 cut(s)	65, 135, 174
TspDTI	ATGAA	1 cut(s)	245
XceI	RCATGY	1 cut(s)	156
XcmI	CCANNNNNNNNNTGG	1 cut(s)	188
XspI	CTAG	1 cut(s)	271
ZrmI	AGTACT	1 cut(s)	58
Zsp2I	ATGCAT	3 cut(s)	53, 120, 158

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