Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0006138

Physical Location & Seq

Genomic Coordinates Reverse (-)

22013776 .. 22014147

Gene Structure 372 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG131000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 372 bp

ATGATTGCGGGGTATGCACAATGTGGGAAGTCTAGGGAAGCTTTGGGTTTGTTCCATTTGATGCAAATGGAGGGTGTGAGGGTGAATGAGGTGTGTATGGTTTCGGTGTTATCGGCATGTTGTCACTTGGGGGCACTGGATCGAGGGAGATGGGCTCATGCATATATAGAGAGAAACAAGGTGAGGATGATAGTGACATTGGGGACTGCACTGCTTGACATGTATGCGAAATGTGGGAATATGAGTAAGGCCATGGAAGTGTTTTGGGGGATGAAGGAAAAGAATGTGTATACGTGGAGTGTTGCTTTGGGGGGACTAGCTGTGAATGGCTTTGGTGAGAAGTGTCTTGAGCTTTTCTCAGTCATGGAGTGA

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

DYW_deaminase PPR PPR_2

Protein Analysis

123

Amino Acids

13.63

Weight (kDa)

8.24

Isoelectric Point (pI)

28.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	1 - 42	6.7e-07	PPR repeat family

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)

Image

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Publication-ready

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Orthologous Genes (Group: OG0006138)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G40405 AT5G40405
fragaria_vesca	FvH4_4g32050
malus_domestica	MD13G1079400.v1.1 MD16G1079200.v1.1 MD16G1079300.v1.1
prunus_persica	Prupe.1G267400_v2.0.a1
pyrus_communis	pycom13g06910 pycom16g06850
rosa_chinensis	RchiOBHm_Chr1g0381771 RchiOBHm_Chr4g0440691 RchiOBHm_Chr4g0440711
rosa_laevigata	RLG00000006158 RLG00000008805 RLG00000026207
rosa_multiflora	Rmu_sc0000463.1_g000002 Rmu_sc0008418.1_g000010
rosa_roxburghii	Rroxscaffold_5G00381500 Rroxscaffold_7G00185760
rosa_rugosa	Rorug01G0430800 Rorug04G0327600
rosa_samantha	Rh1BG411600 Rh4AG379300 Rh4BG131000 Rh4BG392100
rosa_wichuraiana	Rw1G039640 Rw4G011000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	290
AciI	CCGC	1 cut(s)	8
AclWI	GGATC	1 cut(s)	147
AdeI	CACNNNGTG	1 cut(s)	23
AflIII	ACRYGT	1 cut(s)	219
AluBI	AGCT	3 cut(s)	41, 320, 352
AluI	AGCT	3 cut(s)	41, 320, 352
AlwI	GGATC	1 cut(s)	147
AoxI	GGCC	1 cut(s)	249
AsuHPI	GGTGA	3 cut(s)	94, 193, 347
BaeGI	GKGCMC	1 cut(s)	136
BanII	GRGCYC	1 cut(s)	157
BccI	CCATC	1 cut(s)	144
BfaI	CTAG	2 cut(s)	33, 317
BmsI	GCATC	1 cut(s)	51
BplI	GAGNNNNNCTC	3 cut(s)	139, 171, 341
BpuEI	CTTGAG	1 cut(s)	368
BsaAI	YACGTR	1 cut(s)	294
BsaJI	CCNNGG	1 cut(s)	252
Bse1I	ACTGG	1 cut(s)	141
BseDI	CCNNGG	1 cut(s)	252
BseGI	GGATG	2 cut(s)	192, 276
BseMII	CTCAG	1 cut(s)	372
BseNI	ACTGG	1 cut(s)	141
BseSI	GKGCMC	1 cut(s)	136
BsgI	GTGCAG	1 cut(s)	192
BshFI	GGCC	1 cut(s)	251
BslFI	GGGAC	2 cut(s)	217, 327
BsmFI	GGGAC	2 cut(s)	217, 327
BsnI	GGCC	1 cut(s)	251
Bsp1286I	GDGCHC	2 cut(s)	136, 157
Bsp143I	GATC	1 cut(s)	139
Bsp19I	CCATGG	1 cut(s)	252
BspACI	CCGC	1 cut(s)	8
BspANI	GGCC	1 cut(s)	251
BspCNI	CTCAG	1 cut(s)	371
BspPI	GGATC	1 cut(s)	147
BsrI	ACTGG	1 cut(s)	141
BssECI	CCNNGG	1 cut(s)	252
BssMI	GATC	1 cut(s)	139
BssNAI	GTATAC	1 cut(s)	291
BssT1I	CCWWGG	1 cut(s)	252
Bst1107I	GTATAC	1 cut(s)	291
BstBAI	YACGTR	1 cut(s)	294
BstDEI	CTNAG	1 cut(s)	358
BstDSI	CCRYGG	1 cut(s)	252
BstF5I	GGATG	2 cut(s)	192, 276
BstKTI	GATC	1 cut(s)	142
BstMBI	GATC	1 cut(s)	139
BstMWI	GCNNNNNNNGC	1 cut(s)	14
BstNSI	RCATGY	2 cut(s)	120, 223
BstSLI	GKGCMC	1 cut(s)	136
BstZ17I	GTATAC	1 cut(s)	291
BsuRI	GGCC	1 cut(s)	251
BtgI	CCRYGG	1 cut(s)	252
BtsCI	GGATG	2 cut(s)	192, 276
BtsI	GCAGTG	1 cut(s)	209
BtsIMutI	CAGTG	2 cut(s)	134, 209
CviAII	CATG	5 cut(s)	117, 158, 220, 253, 364
CviJI	RGCY	6 cut(s)	41, 155, 251, 320, 330, 352
CviKI_1	RGCY	6 cut(s)	41, 155, 251, 320, 330, 352
DdeI	CTNAG	1 cut(s)	358
DpnI	GATC	1 cut(s)	141
DpnII	GATC	1 cut(s)	139
DraIII	CACNNNGTG	1 cut(s)	23
Eco130I	CCWWGG	1 cut(s)	252
Eco24I	GRGCYC	1 cut(s)	157
EcoT14I	CCWWGG	1 cut(s)	252
EcoT22I	ATGCAT	1 cut(s)	163
EcoT38I	GRGCYC	1 cut(s)	157
ErhI	CCWWGG	1 cut(s)	252
FaeI	CATG	5 cut(s)	120, 161, 223, 256, 367
FaqI	GGGAC	2 cut(s)	217, 327
FatI	CATG	5 cut(s)	116, 157, 219, 252, 363
FblI	GTMKAC	1 cut(s)	290
FokI	GGATG	2 cut(s)	199, 283
FriOI	GRGCYC	1 cut(s)	157
FspBI	CTAG	2 cut(s)	33, 317
HaeIII	GGCC	1 cut(s)	251
Hin1II	CATG	5 cut(s)	120, 161, 223, 256, 367
HindIII	AAGCTT	1 cut(s)	39
HphI	GGTGA	3 cut(s)	94, 193, 347
Hpy166II	GTNNAC	1 cut(s)	291
Hpy188III	TCNNGA	1 cut(s)	347
Hpy8I	GTNNAC	1 cut(s)	291
HpyAV	CCTTC	1 cut(s)	268
HpyCH4IV	ACGT	1 cut(s)	293
HpyCH4V	TGCA	4 cut(s)	17, 64, 161, 209
HpyF10VI	GCNNNNNNNGC	1 cut(s)	14
HpyF3I	CTNAG	1 cut(s)	358
HpySE526I	ACGT	1 cut(s)	293
Hsp92II	CATG	5 cut(s)	120, 161, 223, 256, 367
Kzo9I	GATC	1 cut(s)	139
LpnPI	CCDG	1 cut(s)	122
LweI	GCATC	1 cut(s)	51
MaeI	CTAG	2 cut(s)	33, 317
MaeII	ACGT	1 cut(s)	293
MaeIII	GTNAC	2 cut(s)	122, 193
MalI	GATC	1 cut(s)	141
MboI	GATC	1 cut(s)	139
MhlI	GDGCHC	2 cut(s)	136, 157
MnlI	CCTC	5 cut(s)	64, 72, 82, 137, 177
Mph1103I	ATGCAT	1 cut(s)	163
MslI	CAYNNNNRTG	1 cut(s)	257
MwoI	GCNNNNNNNGC	1 cut(s)	14
NcoI	CCATGG	1 cut(s)	252
NdeII	GATC	1 cut(s)	139
NlaIII	CATG	5 cut(s)	120, 161, 223, 256, 367
NmuCI	GTSAC	2 cut(s)	122, 193
NsiI	ATGCAT	1 cut(s)	163
NspI	RCATGY	2 cut(s)	120, 223
PciI	ACATGT	1 cut(s)	219
Ppu21I	YACGTR	1 cut(s)	294
PscI	ACATGT	1 cut(s)	219
RseI	CAYNNNNRTG	1 cut(s)	257
Sau3AI	GATC	1 cut(s)	139
SduI	GDGCHC	2 cut(s)	136, 157
SetI	ASST	6 cut(s)	43, 93, 183, 296, 322, 354
SfaNI	GCATC	1 cut(s)	51
SmiMI	CAYNNNNRTG	1 cut(s)	257
SmlI	CTYRAG	1 cut(s)	347
SmoI	CTYRAG	1 cut(s)	347
SsiI	CCGC	1 cut(s)	8
SspMI	CTAG	2 cut(s)	33, 317
StyI	CCWWGG	1 cut(s)	252
TaiI	ACGT	1 cut(s)	296
TaqI	TCGA	1 cut(s)	142
TscAI	CASTG	2 cut(s)	141, 216
TseFI	GTSAC	2 cut(s)	122, 193
Tsp45I	GTSAC	2 cut(s)	122, 193
TspDTI	ATGAA	1 cut(s)	287
TspRI	CASTG	2 cut(s)	141, 216
XceI	RCATGY	2 cut(s)	120, 223
XmiI	GTMKAC	1 cut(s)	290
XspI	CTAG	2 cut(s)	33, 317
Zsp2I	ATGCAT	1 cut(s)	163

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