Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0001513

Physical Location & Seq

Genomic Coordinates Reverse (-)

17261793 .. 17262240

Gene Structure 448 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00231880.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 360 bp

ATGTTCACATACAACACTGTTCTTGAGATATTGGGCCGGGCGGGTCGGATAGGAAGTTTGGGGAAGTTGATATGTGCTTGTTGTATTTCAAGGAAATGTGTGAAAAGGGTGTTCACCGATTTGCTTACTTACACCGCAGTCATTGATGGGTTGGGGAGGTCGGGAGACATTGAGGAGTCATTGAAGTTGTTTGGTGAGATGAAGGAGAGGCGGATTCGGCCTTCGTTGTATCTTTATAGAGCAGTGATTAGTAATTTGAAGAAGATGGGGAAGGTGGAGATGGCGGCGAGTTTTATGGAGGAGATGAATTCGTGTGCTTCAAGTCTTCGTGCTAGTCGTAAATCGAATAAATGCGAGTAG

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:0005737 GO:0005783 GO:0005794 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0012505 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:0044444 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 PPR_long

Protein Analysis

119

Amino Acids

13.33

Weight (kDa)

9.51

Isoelectric Point (pI)

47.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	39 - 68	7.9e-07	PPR repeat
PPR_3	PF13812	39 - 84	1.1e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	40 - 86	8.6e-10	PPR repeat family
PPR	PF01535	43 - 72	3.4e-09	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0001513)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11900
fragaria_vesca	FvH4_6g24020 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44670 FvH4_6g44670 FvH4_6g44670
malus_domestica	MD14G1065400.v1.1 MD17G1084400.v1.1
prunus_persica	Prupe.3G231200_v2.0.a1
pyrus_communis	pycom17g08150
rosa_chinensis	RchiOBHm_Chr1g0342741 RchiOBHm_Chr1g0342831 RchiOBHm_Chr2g0161831
rosa_laevigata	RLG00000021301 RLG00000029118 RLG00000029172 RLG00000029191
rosa_multiflora	Rmu_co8023038.1_g000001 Rmu_sc0001993.1_g000024 Rmu_sc0004502.1_g000002 Rmu_sc0011563.1_g000011
rosa_roxburghii	Rroxscaffold_2G00088520 Rroxscaffold_2G00088540 Rroxscaffold_2G00118030 Rroxscaffold_3G00231880 Rroxscaffold_4G00313190 Rroxscaffold_4G00313220 Rroxscaffold_7G00197130
rosa_rugosa	Rorug01G0146200.1 Rorug02G0492600
rosa_samantha	Rh1AG162400 Rh1AG162900 Rh1AG163800 Rh1AG164600 Rh1BG129700 Rh1CG152900 Rh1CG153400 Rh2AG558200 Rh2AG558300 Rh2CG541900 Rh2CG542300 Rh2DG581000 Rh2DG581900 Rh3CG249700
rosa_wichuraiana	Rw1G013300 Rw1G013340 Rw1G013680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	4 cut(s)	41, 135, 211, 284
AcsI	RAATTY	1 cut(s)	307
AgsI	TTSAA	4 cut(s)	90, 184, 259, 321
Alw26I	GTCTC	1 cut(s)	159
AoxI	GGCC	2 cut(s)	34, 218
ApoI	RAATTY	1 cut(s)	307
AspS9I	GGNCC	1 cut(s)	34
AsuC2I	CCSGG	1 cut(s)	38
AsuHPI	GGTGA	2 cut(s)	106, 206
BbsI	GAAGAC	1 cut(s)	317
BccI	CCATC	3 cut(s)	140, 259, 274
BcnI	CCSGG	1 cut(s)	38
BcoDI	GTCTC	1 cut(s)	159
BfaI	CTAG	1 cut(s)	333
BisI	GCNGC	1 cut(s)	285
BlsI	GCNGC	1 cut(s)	286
Bme1390I	CCNGG	1 cut(s)	38
BmgT120I	GGNCC	1 cut(s)	34
BmrFI	CCNGG	1 cut(s)	38
BpiI	GAAGAC	1 cut(s)	317
BpuEI	CTTGAG	1 cut(s)	44
BpuMI	CCSGG	1 cut(s)	38
BseRI	GAGGAG	2 cut(s)	188, 314
BshFI	GGCC	2 cut(s)	36, 220
BsiSI	CCGG	1 cut(s)	37
BsmAI	GTCTC	1 cut(s)	159
BsnI	GGCC	2 cut(s)	36, 220
BspACI	CCGC	4 cut(s)	41, 135, 211, 284
BspANI	GGCC	2 cut(s)	36, 220
Bst4CI	ACNGT	1 cut(s)	19
BstMAI	GTCTC	1 cut(s)	159
BstMWI	GCNNNNNNNGC	1 cut(s)	217
BstSCI	CCNGG	1 cut(s)	36
BstV2I	GAAGAC	1 cut(s)	317
BsuRI	GGCC	2 cut(s)	36, 220
BtsI	GCAGTG	1 cut(s)	249
BtsIMutI	CAGTG	2 cut(s)	15, 249
Cfr13I	GGNCC	1 cut(s)	34
CviJI	RGCY	2 cut(s)	36, 220
CviKI_1	RGCY	2 cut(s)	36, 220
EciI	GGCGGA	1 cut(s)	226
EcoRI	GAATTC	1 cut(s)	307
FaiI	YATR	4 cut(s)	10, 73, 237, 296
FauI	CCCGC	1 cut(s)	34
Fnu4HI	GCNGC	1 cut(s)	285
Fsp4HI	GCNGC	1 cut(s)	285
FspBI	CTAG	1 cut(s)	333
GluI	GCNGC	1 cut(s)	285
HaeIII	GGCC	2 cut(s)	36, 220
HapII	CCGG	1 cut(s)	37
HinfI	GANTC	2 cut(s)	176, 214
HpaII	CCGG	1 cut(s)	37
HphI	GGTGA	2 cut(s)	106, 206
Hpy166II	GTNNAC	2 cut(s)	6, 114
Hpy188I	TCNGA	1 cut(s)	48
Hpy188III	TCNNGA	2 cut(s)	23, 162
Hpy8I	GTNNAC	2 cut(s)	6, 114
HpyAV	CCTTC	3 cut(s)	196, 231, 265
HpyCH4III	ACNGT	1 cut(s)	19
HpyF10VI	GCNNNNNNNGC	1 cut(s)	217
LpnPI	CCDG	1 cut(s)	50
MaeI	CTAG	1 cut(s)	333
MboII	GAAGA	3 cut(s)	271, 274, 317
MluCI	AATT	2 cut(s)	253, 307
MlyI	GAGTC	1 cut(s)	185
MmeI	TCCRAC	1 cut(s)	26
MnlI	CCTC	4 cut(s)	150, 166, 201, 292
MspI	CCGG	1 cut(s)	37
MspR9I	CCNGG	1 cut(s)	38
MwoI	GCNNNNNNNGC	1 cut(s)	217
NciI	CCSGG	1 cut(s)	38
PcsI	WCGNNNNNNNCGW	1 cut(s)	334
PfeI	GAWTC	1 cut(s)	214
PkrI	GCNGC	1 cut(s)	286
PleI	GAGTC	1 cut(s)	184
PpsI	GAGTC	1 cut(s)	184
PspPI	GGNCC	1 cut(s)	34
SatI	GCNGC	1 cut(s)	285
Sau96I	GGNCC	1 cut(s)	34
SchI	GAGTC	1 cut(s)	185
ScrFI	CCNGG	1 cut(s)	38
SetI	ASST	2 cut(s)	161, 276
SmlI	CTYRAG	1 cut(s)	23
SmoI	CTYRAG	1 cut(s)	23
Sse9I	AATT	2 cut(s)	253, 307
SsiI	CCGC	4 cut(s)	41, 135, 211, 284
SspMI	CTAG	1 cut(s)	333
StyD4I	CCNGG	1 cut(s)	36
TaaI	ACNGT	1 cut(s)	19
TaqI	TCGA	1 cut(s)	344
TasI	AATT	2 cut(s)	253, 307
TauI	GCSGC	1 cut(s)	287
TfiI	GAWTC	1 cut(s)	214
TscAI	CASTG	2 cut(s)	22, 249
TspDTI	ATGAA	2 cut(s)	215, 320
TspRI	CASTG	2 cut(s)	22, 249
XapI	RAATTY	1 cut(s)	307
XspI	CTAG	1 cut(s)	333

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