Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0010773

Physical Location & Seq

Genomic Coordinates Reverse (-)

404525 .. 405123

Gene Structure 599 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG006400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 279 bp

ATGAGCGGAGCAGGAGCAGAGAGAGGATCTGGAACCACAAAAACTCCTGCAGATTTTCTTAAATCAATTCGGGGGCGACCGGTTGTTGTTAAACTGAATTCTGGTGTTGACTATCGAGGTATTCTGGCTTGTCTTGATGGGTATATGAATATAGCCATGGAGCAAACAGAGGAATATGTCAATGGACAGCTGAAAAATAAGTATGGTGATGCTTTTATTCGTGGAAATAATGTTCTCTACATCAGCACAACAAAGATGACAATAGCAGATGGGGCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0000932 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005688 GO:0005730 GO:0005732 GO:0005737 GO:0006139 GO:0006364 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016072 GO:0022613 GO:0030490 GO:0030532 GO:0031974 GO:0031981 GO:0032991 GO:0034470 GO:0034641 GO:0034660 GO:0035770 GO:0036464 GO:0042254 GO:0042274 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0046540 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0097159 GO:0097525 GO:0097526 GO:0120114 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03018 ko03040 map03018 map03040

Pfam Domains

Protein Families

LSM

Protein Analysis

92

Amino Acids

9.88

Weight (kDa)

8.79

Isoelectric Point (pI)

31.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM	PF01423	18 - 82	7.1e-20	LSM domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0010773)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G43810 AT2G43810 AT2G43810 AT3G59810 AT3G59810 AT3G59810
fragaria_vesca	FvH4_1g00440
malus_domestica	MD02G1003600.v1.1 MD15G1146900.v1.1
prunus_persica	Prupe.7G267700_v2.0.a1
pyrus_communis	pycom15g13170
rosa_chinensis	RchiOBHm_Chr2g0084951 RchiOBHm_Chr7g0189461
rosa_multiflora	Rmu_sc0008647.1_g000026
rosa_rugosa	Rorug01G0457100 Rorug01G0457200 Rorug01G0457300
rosa_samantha	Rh2CG006600 Rh2DG006400
rosa_wichuraiana	Rw2G000480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	6
AciI	CCGC	1 cut(s)	6
AclWI	GGATC	1 cut(s)	34
AcsI	RAATTY	1 cut(s)	97
AgeI	ACCGGT	1 cut(s)	79
AloI	GAACNNNNNNTCC	2 cut(s)	216, 248
AluBI	AGCT	1 cut(s)	190
AluI	AGCT	1 cut(s)	190
AlwI	GGATC	1 cut(s)	34
ApoI	RAATTY	1 cut(s)	97
AsiGI	ACCGGT	1 cut(s)	79
AsuHPI	GGTGA	1 cut(s)	218
BccI	CCATC	2 cut(s)	131, 263
BfmI	CTRYAG	1 cut(s)	48
BmiI	GGNNCC	1 cut(s)	34
BmsI	GCATC	1 cut(s)	199
BsaJI	CCNNGG	1 cut(s)	156
BsaWI	WCCGGW	1 cut(s)	79
BsaXI	ACNNNNNCTCC	2 cut(s)	28, 58
Bse118I	RCCGGY	1 cut(s)	79
BseDI	CCNNGG	1 cut(s)	156
Bsh1285I	CGRYCG	1 cut(s)	80
BshTI	ACCGGT	1 cut(s)	79
BsiEI	CGRYCG	1 cut(s)	80
BsiSI	CCGG	1 cut(s)	80
Bsp143I	GATC	1 cut(s)	26
Bsp19I	CCATGG	1 cut(s)	156
BspACI	CCGC	1 cut(s)	6
BspLI	GGNNCC	1 cut(s)	34
BspMAI	CTGCAG	1 cut(s)	52
BspPI	GGATC	1 cut(s)	34
BsrBI	CCGCTC	1 cut(s)	6
BsrFI	RCCGGY	1 cut(s)	79
BssAI	RCCGGY	1 cut(s)	79
BssECI	CCNNGG	1 cut(s)	156
BssMI	GATC	1 cut(s)	26
BssT1I	CCWWGG	1 cut(s)	156
BstDSI	CCRYGG	1 cut(s)	156
BstKTI	GATC	1 cut(s)	29
BstMBI	GATC	1 cut(s)	26
BstMCI	CGRYCG	1 cut(s)	80
BstMWI	GCNNNNNNNGC	1 cut(s)	272
BstSFI	CTRYAG	1 cut(s)	48
BstX2I	RGATCY	1 cut(s)	26
BstYI	RGATCY	1 cut(s)	26
BtgI	CCRYGG	1 cut(s)	156
Cfr10I	RCCGGY	1 cut(s)	79
CspAI	ACCGGT	1 cut(s)	79
CviAII	CATG	1 cut(s)	157
CviJI	RGCY	3 cut(s)	128, 155, 190
CviKI_1	RGCY	3 cut(s)	128, 155, 190
DpnI	GATC	1 cut(s)	28
DpnII	GATC	1 cut(s)	26
Eco130I	CCWWGG	1 cut(s)	156
EcoRI	GAATTC	1 cut(s)	97
EcoT14I	CCWWGG	1 cut(s)	156
ErhI	CCWWGG	1 cut(s)	156
FaeI	CATG	1 cut(s)	160
FaiI	YATR	7 cut(s)	144, 146, 152, 158, 177, 204, 277
FatI	CATG	1 cut(s)	156
HapII	CCGG	1 cut(s)	80
Hin1II	CATG	1 cut(s)	160
HincII	GTYRAC	1 cut(s)	109
HindII	GTYRAC	1 cut(s)	109
HpaII	CCGG	1 cut(s)	80
HphI	GGTGA	1 cut(s)	218
Hpy166II	GTNNAC	1 cut(s)	109
Hpy188III	TCNNGA	2 cut(s)	30, 134
Hpy8I	GTNNAC	1 cut(s)	109
HpyCH4V	TGCA	1 cut(s)	50
HpyF10VI	GCNNNNNNNGC	1 cut(s)	272
Hsp92II	CATG	1 cut(s)	160
Kzo9I	GATC	1 cut(s)	26
LmnI	GCTCC	3 cut(s)	8, 14, 160
LpnPI	CCDG	5 cut(s)	15, 60, 87, 93, 110
LweI	GCATC	1 cut(s)	199
MalI	GATC	1 cut(s)	28
MbiI	CCGCTC	1 cut(s)	6
MboI	GATC	1 cut(s)	26
MflI	RGATCY	1 cut(s)	26
MluCI	AATT	2 cut(s)	66, 97
MnlI	CCTC	3 cut(s)	17, 110, 163
MseI	TTAA	2 cut(s)	60, 90
MspA1I	CMGCKG	1 cut(s)	190
MspI	CCGG	1 cut(s)	80
MwoI	GCNNNNNNNGC	1 cut(s)	272
NcoI	CCATGG	1 cut(s)	156
NdeII	GATC	1 cut(s)	26
NlaIII	CATG	1 cut(s)	160
NlaIV	GGNNCC	1 cut(s)	34
PinAI	ACCGGT	1 cut(s)	79
PspN4I	GGNNCC	1 cut(s)	34
PstI	CTGCAG	1 cut(s)	52
PsuI	RGATCY	1 cut(s)	26
PvuII	CAGCTG	1 cut(s)	190
SaqAI	TTAA	2 cut(s)	60, 90
Sau3AI	GATC	1 cut(s)	26
SetI	ASST	2 cut(s)	121, 192
SfaNI	GCATC	1 cut(s)	199
SfcI	CTRYAG	1 cut(s)	48
Sse9I	AATT	2 cut(s)	66, 97
SsiI	CCGC	1 cut(s)	6
StyI	CCWWGG	1 cut(s)	156
TaqI	TCGA	1 cut(s)	115
TasI	AATT	2 cut(s)	66, 97
Tru1I	TTAA	2 cut(s)	60, 90
Tru9I	TTAA	2 cut(s)	60, 90
TspDTI	ATGAA	1 cut(s)	161
XapI	RAATTY	1 cut(s)	97

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