Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0006705

Physical Location & Seq

Genomic Coordinates Reverse (-)

20976243 .. 20976446

Gene Structure 204 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G018710.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 204 bp

ATGGACAAGAAGCTTCAAATCAAGCTAAATGCAAACCGAATGATTGTTGGAACCTTGCGTGGATTTGACCAGTTCATGAATCTGGTGGTTGATAATACTGTAGAAGTGAATGGTGATGAAAAGACTAACATAGGCATGGTGGTGATCAGAGGAAACAGTGTGGTTAATGTTGAAGCACTTGAACCTGTGGCCAAAATGCAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005682 GO:0005684 GO:0005685 GO:0005686 GO:0005687 GO:0005689 GO:0005737 GO:0005829 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0030532 GO:0032991 GO:0034641 GO:0034719 GO:0035770 GO:0036464 GO:0043170 GO:0043186 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0045495 GO:0046483 GO:0060293 GO:0071004 GO:0071010 GO:0071011 GO:0071013 GO:0071704 GO:0090304 GO:0097159 GO:0097525 GO:0097526 GO:0120114 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

LSM

Protein Analysis

67

Amino Acids

7.45

Weight (kDa)

6.13

Isoelectric Point (pI)

13.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM	PF01423	1 - 57	2.2e-19	LSM domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0006705)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G23930 AT3G11500 AT3G11500
fragaria_vesca	FvH4_6g19160
malus_domestica	MD12G1027400.v1.1
prunus_persica	Prupe.7G104100_v2.0.a1
pyrus_communis	pycom12g02630 pycom14g02630
rosa_chinensis	RchiOBHm_Chr3g0456431 RchiOBHm_Chr3g0474271
rosa_multiflora	Rmu_sc0000041.1_g000021 Rmu_sc0004507.1_g000019 Rmu_sc0007753.1_g000006
rosa_roxburghii	Rroxscaffold_6G00407390
rosa_rugosa	Rorug03G0110900 Rorug03G0139900 Rorug03G0343100 Rorug04G0442800 Rorug05G0558300
rosa_samantha	Rh1AG194800 Rh2BG255200 Rh7BG169600
rosa_wichuraiana	Rw3G017380 Rw3G018710 Rw5G014960 Rw7G015750

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcoI	YGGCCR	1 cut(s)	189
AgsI	TTSAA	3 cut(s)	17, 173, 182
AluBI	AGCT	2 cut(s)	13, 25
AluI	AGCT	2 cut(s)	13, 25
AoxI	GGCC	1 cut(s)	189
AsuHPI	GGTGA	2 cut(s)	125, 154
BalI	TGGCCA	1 cut(s)	191
BclI	TGATCA	1 cut(s)	144
BfmI	CTRYAG	1 cut(s)	99
BmiI	GGNNCC	1 cut(s)	52
Bse1I	ACTGG	1 cut(s)	70
BseNI	ACTGG	1 cut(s)	70
BshFI	GGCC	1 cut(s)	191
BsnI	GGCC	1 cut(s)	191
Bsp143I	GATC	1 cut(s)	144
BspANI	GGCC	1 cut(s)	191
BspHI	TCATGA	1 cut(s)	75
BspLI	GGNNCC	1 cut(s)	52
BsrI	ACTGG	1 cut(s)	70
BssMI	GATC	1 cut(s)	144
Bst4CI	ACNGT	2 cut(s)	100, 158
BstKTI	GATC	1 cut(s)	147
BstMBI	GATC	1 cut(s)	144
BstSFI	CTRYAG	1 cut(s)	99
BsuRI	GGCC	1 cut(s)	191
BtsIMutI	CAGTG	1 cut(s)	163
CciI	TCATGA	1 cut(s)	75
CviAII	CATG	2 cut(s)	76, 136
CviJI	RGCY	3 cut(s)	13, 25, 191
CviKI_1	RGCY	3 cut(s)	13, 25, 191
DpnI	GATC	1 cut(s)	146
DpnII	GATC	1 cut(s)	144
EaeI	YGGCCR	1 cut(s)	189
FaeI	CATG	2 cut(s)	79, 139
FaiI	YATR	3 cut(s)	77, 131, 137
FatI	CATG	2 cut(s)	75, 135
FbaI	TGATCA	1 cut(s)	144
HaeIII	GGCC	1 cut(s)	191
Hin1II	CATG	2 cut(s)	79, 139
HindIII	AAGCTT	1 cut(s)	11
HinfI	GANTC	1 cut(s)	79
HphI	GGTGA	2 cut(s)	125, 154
Hpy188I	TCNGA	1 cut(s)	149
Hpy188III	TCNNGA	1 cut(s)	76
HpyCH4III	ACNGT	2 cut(s)	100, 158
HpyCH4V	TGCA	2 cut(s)	32, 199
Hsp92II	CATG	2 cut(s)	79, 139
Ksp22I	TGATCA	1 cut(s)	144
Kzo9I	GATC	1 cut(s)	144
LpnPI	CCDG	3 cut(s)	68, 83, 198
MalI	GATC	1 cut(s)	146
MboI	GATC	1 cut(s)	144
MlsI	TGGCCA	1 cut(s)	191
MluNI	TGGCCA	1 cut(s)	191
MmeI	TCCRAC	1 cut(s)	28
MnlI	CCTC	1 cut(s)	143
Mox20I	TGGCCA	1 cut(s)	191
MscI	TGGCCA	1 cut(s)	191
MseI	TTAA	1 cut(s)	165
MslI	CAYNNNNRTG	2 cut(s)	134, 140
Msp20I	TGGCCA	1 cut(s)	191
NdeII	GATC	1 cut(s)	144
NlaIII	CATG	2 cut(s)	79, 139
NlaIV	GGNNCC	1 cut(s)	52
PagI	TCATGA	1 cut(s)	75
PfeI	GAWTC	1 cut(s)	79
PspN4I	GGNNCC	1 cut(s)	52
RseI	CAYNNNNRTG	2 cut(s)	134, 140
SaqAI	TTAA	1 cut(s)	165
Sau3AI	GATC	1 cut(s)	144
SetI	ASST	4 cut(s)	15, 27, 56, 187
SfcI	CTRYAG	1 cut(s)	99
SmiMI	CAYNNNNRTG	2 cut(s)	134, 140
TaaI	ACNGT	2 cut(s)	100, 158
TfiI	GAWTC	1 cut(s)	79
Tru1I	TTAA	1 cut(s)	165
Tru9I	TTAA	1 cut(s)	165
TscAI	CASTG	1 cut(s)	163
TspDTI	ATGAA	3 cut(s)	64, 92, 132
TspRI	CASTG	1 cut(s)	163

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