Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0001597

Physical Location & Seq

Genomic Coordinates Forward (+)

17198976 .. 17199974

Gene Structure 999 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG122500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 324 bp

ATGGCCATGGATGGCAGCAATGCAGCAGCAGCGGAGGAATTGGTCGTGGGTTGCTTCGTCTCCATCAAGACCACCTTGGGCGACGACTTCCAAGGCCAGGTCATCACCTTCGACCGCCCCTCCAACATCCTCATCCTTCAAGAGGTCTCAGAGCCAGAGATACTCAGACAAGCAGAGGCAGTGTGTGAGAGGATCGGAGTTGGTGTCACCAGCCAGGCTCAGAACATTTTCGATGCCTTGTCTAAGACGCTTCCAGTAAGCTGGGACAAGACTGTCATAGTTGTGATGAATGAGGTTCGTGTGAGCAGTCCATATCTTCCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Protein Analysis

107

Amino Acids

11.57

Weight (kDa)

4.3

Isoelectric Point (pI)

56.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM12_LSM	PF21166	13 - 50	4.9e-10	LSM12, LSM domain
AD	PF09793	53 - 105	1.4e-17	Anticodon-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001597)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G24050 AT1G70220 AT1G70220
fragaria_vesca	FvH4_4g34930
malus_domestica	MD13G1087800.v1.1 MD16G1088100.v1.1
prunus_persica	Prupe.1G258500_v2.0.a1 Prupe.1G258600_v2.0.a1
pyrus_communis	pycom13g07550
rosa_chinensis	RchiOBHm_Chr1g0347741 RchiOBHm_Chr2g0143691 RchiOBHm_Chr3g0467191 RchiOBHm_Chr4g0444371 RchiOBHm_Chr4g0444381 RchiOBHm_Chr5g0030111 RchiOBHm_Chr7g0224821
rosa_laevigata	RLG00000005836
rosa_multiflora	Rmu_sc0000962.1_g000074 Rmu_sc0001209.1_g000005 Rmu_sc0006184.1_g000013 Rmu_sc0011110.1_g000001
rosa_roxburghii	Rroxscaffold_5G00369700 Rroxscaffold_5G00384910
rosa_rugosa	Rorug01G0030100 Rorug04G0111300 Rorug04G0352300 Rorug04G0352400
rosa_samantha	Rh1AG203300 Rh1CG051400 Rh1CG188600 Rh1DG055700 Rh3AG134000 Rh3BG155300 Rh4AG231500 Rh4AG412700 Rh4BG424200 Rh4CG438500 Rh4DG419500 Rh5DG213500 Rh6AG083500 Rh6BG138800 Rh6CG072700 Rh6CG136300 Rh6DG069900 Rh6DG122500 Rh7AG494600
rosa_wichuraiana	Rw1G006150 Rw1G007330 Rw3G012680 Rw4G035450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	272
AciI	CCGC	2 cut(s)	32, 115
AclWI	GGATC	1 cut(s)	200
AcoI	YGGCCR	1 cut(s)	3
AfiI	CCNNNNNNNGG	2 cut(s)	97, 142
AgsI	TTSAA	1 cut(s)	140
AjnI	CCWGG	2 cut(s)	96, 213
AluBI	AGCT	1 cut(s)	261
AluI	AGCT	1 cut(s)	261
Alw26I	GTCTC	2 cut(s)	64, 151
AlwI	GGATC	1 cut(s)	200
AoxI	GGCC	2 cut(s)	3, 94
ApeKI	GCWGC	4 cut(s)	15, 23, 26, 29
Asp700I	GAANNNNTTC	1 cut(s)	227
AsuHPI	GGTGA	2 cut(s)	97, 199
BalI	TGGCCA	1 cut(s)	5
BbvI	GCAGC	4 cut(s)	27, 35, 38, 41
BccI	CCATC	2 cut(s)	5, 71
BciT130I	CCWGG	2 cut(s)	98, 215
BcoDI	GTCTC	2 cut(s)	64, 151
BfaI	CTAG	1 cut(s)	322
BisI	GCNGC	4 cut(s)	16, 24, 27, 30
BlsI	GCNGC	4 cut(s)	17, 25, 28, 31
Bme1390I	CCNGG	2 cut(s)	98, 215
BmrFI	CCNGG	2 cut(s)	98, 215
BmsI	GCATC	1 cut(s)	223
BsaI	GGTCTC	1 cut(s)	151
BsaJI	CCNNGG	3 cut(s)	6, 75, 91
BsaXI	ACNNNNNCTCC	4 cut(s)	104, 134, 189, 219
Bsc4I	CCNNNNNNNGG	2 cut(s)	97, 142
Bse1I	ACTGG	1 cut(s)	254
Bse3DI	GCAATG	1 cut(s)	25
BseBI	CCWGG	2 cut(s)	98, 215
BseDI	CCNNGG	3 cut(s)	6, 75, 91
BseGI	GGATG	3 cut(s)	16, 126, 132
BseLI	CCNNNNNNNGG	2 cut(s)	97, 142
BseMI	GCAATG	1 cut(s)	25
BseMII	CTCAG	3 cut(s)	162, 178, 233
BseNI	ACTGG	1 cut(s)	254
BseXI	GCAGC	4 cut(s)	27, 35, 38, 41
BseYI	CCCAGC	1 cut(s)	261
Bsh1285I	CGRYCG	1 cut(s)	115
BshFI	GGCC	2 cut(s)	5, 96
BsiEI	CGRYCG	1 cut(s)	115
BslFI	GGGAC	1 cut(s)	278
BslI	CCNNNNNNNGG	2 cut(s)	97, 142
BsmAI	GTCTC	2 cut(s)	64, 151
BsmBI	CGTCTC	1 cut(s)	64
BsmFI	GGGAC	1 cut(s)	278
BsnI	GGCC	2 cut(s)	5, 96
Bso31I	GGTCTC	1 cut(s)	151
Bsp143I	GATC	1 cut(s)	192
Bsp19I	CCATGG	1 cut(s)	6
BspACI	CCGC	2 cut(s)	32, 115
BspANI	GGCC	2 cut(s)	5, 96
BspCNI	CTCAG	3 cut(s)	161, 177, 232
BspPI	GGATC	1 cut(s)	200
BspTNI	GGTCTC	1 cut(s)	151
BsrDI	GCAATG	1 cut(s)	25
BsrI	ACTGG	1 cut(s)	254
BssECI	CCNNGG	3 cut(s)	6, 75, 91
BssMI	GATC	1 cut(s)	192
BssT1I	CCWWGG	3 cut(s)	6, 75, 91
Bst2UI	CCWGG	2 cut(s)	98, 215
Bst4CI	ACNGT	1 cut(s)	274
BstDEI	CTNAG	4 cut(s)	148, 164, 219, 243
BstDSI	CCRYGG	1 cut(s)	6
BstENI	CCTNNNNNAGG	1 cut(s)	140
BstF5I	GGATG	3 cut(s)	16, 126, 132
BstKTI	GATC	1 cut(s)	195
BstMAI	GTCTC	2 cut(s)	64, 151
BstMBI	GATC	1 cut(s)	192
BstMCI	CGRYCG	1 cut(s)	115
BstMWI	GCNNNNNNNGC	1 cut(s)	29
BstNI	CCWGG	2 cut(s)	98, 215
BstSCI	CCNGG	2 cut(s)	96, 213
BstV1I	GCAGC	4 cut(s)	27, 35, 38, 41
BstXI	CCANNNNNNTGG	1 cut(s)	261
BsuRI	GGCC	2 cut(s)	5, 96
BtgI	CCRYGG	1 cut(s)	6
BtsCI	GGATG	3 cut(s)	16, 126, 132
BtsI	GCAGTG	1 cut(s)	186
BtsIMutI	CAGTG	1 cut(s)	186
CseI	GACGC	1 cut(s)	256
CviAII	CATG	1 cut(s)	7
CviJI	RGCY	6 cut(s)	5, 96, 154, 213, 218, 261
CviKI_1	RGCY	6 cut(s)	5, 96, 154, 213, 218, 261
DdeI	CTNAG	4 cut(s)	148, 164, 219, 243
DpnI	GATC	1 cut(s)	194
DpnII	GATC	1 cut(s)	192
DrdI	GACNNNNNNGTC	1 cut(s)	272
DseDI	GACNNNNNNGTC	1 cut(s)	272
EaeI	YGGCCR	1 cut(s)	3
Eco130I	CCWWGG	3 cut(s)	6, 75, 91
Eco31I	GGTCTC	1 cut(s)	151
EcoNI	CCTNNNNNAGG	1 cut(s)	140
EcoRII	CCWGG	2 cut(s)	96, 213
EcoT14I	CCWWGG	3 cut(s)	6, 75, 91
ErhI	CCWWGG	3 cut(s)	6, 75, 91
Esp3I	CGTCTC	1 cut(s)	64
FaeI	CATG	1 cut(s)	10
FaiI	YATR	3 cut(s)	8, 278, 313
FalI	AAGNNNNNCTT	2 cut(s)	59, 91
FaqI	GGGAC	1 cut(s)	278
FatI	CATG	1 cut(s)	6
Fnu4HI	GCNGC	4 cut(s)	16, 24, 27, 30
FokI	GGATG	3 cut(s)	23, 113, 119
Fsp4HI	GCNGC	4 cut(s)	16, 24, 27, 30
FspBI	CTAG	1 cut(s)	322
GluI	GCNGC	4 cut(s)	16, 24, 27, 30
GsaI	CCCAGC	1 cut(s)	265
HaeIII	GGCC	2 cut(s)	5, 96
HgaI	GACGC	1 cut(s)	256
Hin1II	CATG	1 cut(s)	10
HphI	GGTGA	2 cut(s)	97, 199
Hpy188I	TCNGA	4 cut(s)	151, 167, 197, 222
Hpy188III	TCNNGA	2 cut(s)	67, 140
Hpy99I	CGWCG	1 cut(s)	86
HpyAV	CCTTC	2 cut(s)	118, 146
HpyCH4III	ACNGT	1 cut(s)	274
HpyCH4V	TGCA	1 cut(s)	23
HpyF10VI	GCNNNNNNNGC	1 cut(s)	29
HpyF3I	CTNAG	4 cut(s)	148, 164, 219, 243
Hsp92II	CATG	1 cut(s)	10
Kzo9I	GATC	1 cut(s)	192
LpnPI	CCDG	8 cut(s)	83, 110, 168, 200, 223, 227, 247, 267
Lsp1109I	GCAGC	4 cut(s)	27, 35, 38, 41
LweI	GCATC	1 cut(s)	223
MaeI	CTAG	1 cut(s)	322
MaeIII	GTNAC	1 cut(s)	205
MalI	GATC	1 cut(s)	194
MboI	GATC	1 cut(s)	192
MboII	GAAGA	1 cut(s)	308
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	1 cut(s)	38
MluNI	TGGCCA	1 cut(s)	5
MmeI	TCCRAC	1 cut(s)	147
MnlI	CCTC	7 cut(s)	28, 130, 136, 140, 169, 183, 286
Mox20I	TGGCCA	1 cut(s)	5
MroXI	GAANNNNTTC	1 cut(s)	227
MscI	TGGCCA	1 cut(s)	5
MslI	CAYNNNNRTG	1 cut(s)	281
Msp20I	TGGCCA	1 cut(s)	5
MspA1I	CMGCKG	1 cut(s)	32
MspR9I	CCNGG	2 cut(s)	98, 215
MvaI	CCWGG	2 cut(s)	98, 215
MwoI	GCNNNNNNNGC	1 cut(s)	29
NcoI	CCATGG	1 cut(s)	6
NdeII	GATC	1 cut(s)	192
NlaIII	CATG	1 cut(s)	10
NmuCI	GTSAC	1 cut(s)	205
PdmI	GAANNNNTTC	1 cut(s)	227
PkrI	GCNGC	4 cut(s)	17, 25, 28, 31
Psp6I	CCWGG	2 cut(s)	96, 213
PspFI	CCCAGC	1 cut(s)	261
PspGI	CCWGG	2 cut(s)	96, 213
RseI	CAYNNNNRTG	1 cut(s)	281
SatI	GCNGC	4 cut(s)	16, 24, 27, 30
Sau3AI	GATC	1 cut(s)	192
ScrFI	CCNGG	2 cut(s)	98, 215
SetI	ASST	6 cut(s)	77, 102, 110, 147, 263, 297
SfaNI	GCATC	1 cut(s)	223
SmiMI	CAYNNNNRTG	1 cut(s)	281
Sse9I	AATT	1 cut(s)	38
SsiI	CCGC	2 cut(s)	32, 115
SspMI	CTAG	1 cut(s)	322
StyD4I	CCNGG	2 cut(s)	96, 213
StyI	CCWWGG	3 cut(s)	6, 75, 91
TaaI	ACNGT	1 cut(s)	274
TaqI	TCGA	2 cut(s)	111, 231
TasI	AATT	1 cut(s)	38
TscAI	CASTG	1 cut(s)	186
TseFI	GTSAC	1 cut(s)	205
TseI	GCWGC	4 cut(s)	15, 23, 26, 29
Tsp45I	GTSAC	1 cut(s)	205
TspDTI	ATGAA	1 cut(s)	302
TspRI	CASTG	1 cut(s)	186
XagI	CCTNNNNNAGG	1 cut(s)	140
XmnI	GAANNNNTTC	1 cut(s)	227
XspI	CTAG	1 cut(s)	322

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