Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0007498

Physical Location & Seq

Genomic Coordinates Forward (+)

13060041 .. 13060448

Gene Structure 408 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG085800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 408 bp

ATGCCGGTTTATGCCCAGAAGGTGCTCGATGAAATTCCCCACAAGGATGCGGTCTGCTATGGGGCGGTGATTGTTGGGCTGGCGCAGAACTCGAGGCCCATTGATGCGCTTTTGGCTTTTGCTGACATGAAATGTAGAGATGTTGGGTCGAGTATGTATACTGTTTCGGGTGCATTGAGGGCCGCGGCGGAGCTTGCGGCTTTGGAGCAATGTAGGATCATACACACACATGCTGTTGTTACGGGGCTTGATGCGAATGTGGTTGTGGGGACAGCTTTGTTAGATGCGTATGGGAAGTCCGGGCTTGTGTCTGATGCTAGACAGGTTTTCGATGAGAATTTGCTGGTGATGAGTCTTGTGGGATGCAATGCTATGCTTGCGGCGTATGATAATAAAGATGATGATTAA

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

DYW_deaminase PPR PPR_2

Protein Analysis

135

Amino Acids

14.29

Weight (kDa)

4.71

Isoelectric Point (pI)

25.94

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0007498)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g04611
malus_domestica	MD13G1221300.v1.1 MD13G1221400.v1.1 MD13G1221500.v1.1
prunus_persica	Prupe.1G048200_v2.0.a1
pyrus_communis	pycom13g19580
rosa_chinensis	RchiOBHm_Chr4g0395381
rosa_laevigata	RLG00000002110 RLG00000009627
rosa_multiflora	Rmu_sc0002791.1_g000013 Rmu_sc0005834.1_g000011 Rmu_sc0010817.1_g000019
rosa_roxburghii	Rroxscaffold_3G00237650 Rroxscaffold_5G00340340
rosa_rugosa	Rorug03G0358000
rosa_samantha	Rh4BG057900 Rh4CG063400 Rh4DG054500 Rh4DG085800 Rh7AG345000 Rh7CG362400 Rh7DG342600
rosa_wichuraiana	Rw0G003280 Rw0G007680 Rw4G004740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	158
AccII	CGCG	1 cut(s)	185
AciI	CCGC	7 cut(s)	50, 65, 183, 185, 188, 197, 380
AclWI	GGATC	1 cut(s)	224
AcsI	RAATTY	2 cut(s)	33, 337
AluBI	AGCT	2 cut(s)	193, 275
AluI	AGCT	2 cut(s)	193, 275
Alw21I	GWGCWC	1 cut(s)	27
AlwI	GGATC	1 cut(s)	224
Ama87I	CYCGRG	1 cut(s)	91
AoxI	GGCC	2 cut(s)	95, 180
ApoI	RAATTY	2 cut(s)	33, 337
AspLEI	GCGC	2 cut(s)	85, 109
AspS9I	GGNCC	2 cut(s)	96, 180
AsuC2I	CCSGG	1 cut(s)	301
AsuHPI	GGTGA	2 cut(s)	79, 358
AvaI	CYCGRG	1 cut(s)	91
Bbv12I	GWGCWC	1 cut(s)	27
BcnI	CCSGG	1 cut(s)	301
BfaI	CTAG	1 cut(s)	318
BisI	GCNGC	4 cut(s)	183, 186, 198, 381
BlsI	GCNGC	4 cut(s)	184, 187, 199, 382
Bme1390I	CCNGG	1 cut(s)	301
BmeT110I	CYCGRG	1 cut(s)	91
BmgT120I	GGNCC	2 cut(s)	96, 180
BmrFI	CCNGG	1 cut(s)	301
BmsI	GCATC	6 cut(s)	37, 94, 241, 274, 304, 353
BpuMI	CCSGG	1 cut(s)	301
BsaJI	CCNNGG	1 cut(s)	183
Bse118I	RCCGGY	1 cut(s)	4
Bse3DI	GCAATG	2 cut(s)	215, 373
BseDI	CCNNGG	1 cut(s)	183
BseGI	GGATG	2 cut(s)	52, 368
BseMI	GCAATG	2 cut(s)	215, 373
Bsh1236I	CGCG	1 cut(s)	185
BshFI	GGCC	2 cut(s)	97, 182
BsiHKAI	GWGCWC	1 cut(s)	27
BsiHKCI	CYCGRG	1 cut(s)	91
BsiSI	CCGG	2 cut(s)	5, 300
BslFI	GGGAC	1 cut(s)	283
BsmFI	GGGAC	1 cut(s)	283
BsnI	GGCC	2 cut(s)	97, 182
BsoBI	CYCGRG	1 cut(s)	91
Bsp1286I	GDGCHC	1 cut(s)	27
Bsp143I	GATC	1 cut(s)	216
BspACI	CCGC	7 cut(s)	50, 65, 183, 185, 188, 197, 380
BspANI	GGCC	2 cut(s)	97, 182
BspFNI	CGCG	1 cut(s)	185
BspPI	GGATC	1 cut(s)	224
BsrDI	GCAATG	2 cut(s)	215, 373
BsrFI	RCCGGY	1 cut(s)	4
BssAI	RCCGGY	1 cut(s)	4
BssECI	CCNNGG	1 cut(s)	183
BssMI	GATC	1 cut(s)	216
BssNAI	GTATAC	1 cut(s)	159
Bst1107I	GTATAC	1 cut(s)	159
Bst4CI	ACNGT	1 cut(s)	163
BstC8I	GCNNGC	3 cut(s)	81, 195, 378
BstDSI	CCRYGG	1 cut(s)	183
BstF5I	GGATG	2 cut(s)	52, 368
BstFNI	CGCG	1 cut(s)	185
BstHHI	GCGC	2 cut(s)	85, 109
BstKTI	GATC	1 cut(s)	219
BstMBI	GATC	1 cut(s)	216
BstMWI	GCNNNNNNNGC	4 cut(s)	113, 179, 194, 377
BstNSI	RCATGY	1 cut(s)	233
BstSCI	CCNGG	1 cut(s)	299
BstUI	CGCG	1 cut(s)	185
BstZ17I	GTATAC	1 cut(s)	159
BsuRI	GGCC	2 cut(s)	97, 182
BtgI	CCRYGG	1 cut(s)	183
BtsCI	GGATG	2 cut(s)	52, 368
Cac8I	GCNNGC	3 cut(s)	81, 195, 378
CfoI	GCGC	2 cut(s)	85, 109
Cfr10I	RCCGGY	1 cut(s)	4
Cfr13I	GGNCC	2 cut(s)	96, 180
Cfr42I	CCGCGG	1 cut(s)	186
CviAII	CATG	2 cut(s)	127, 230
CviJI	RGCY	9 cut(s)	79, 97, 116, 182, 193, 200, 247, 275, 304
CviKI_1	RGCY	9 cut(s)	79, 97, 116, 182, 193, 200, 247, 275, 304
DpnI	GATC	1 cut(s)	218
DpnII	GATC	1 cut(s)	216
EciI	GGCGGA	1 cut(s)	203
Eco88I	CYCGRG	1 cut(s)	91
FaeI	CATG	2 cut(s)	130, 233
FaqI	GGGAC	1 cut(s)	283
FatI	CATG	2 cut(s)	126, 229
FblI	GTMKAC	1 cut(s)	158
Fnu4HI	GCNGC	4 cut(s)	183, 186, 198, 381
FokI	GGATG	2 cut(s)	59, 375
Fsp4HI	GCNGC	4 cut(s)	183, 186, 198, 381
FspBI	CTAG	1 cut(s)	318
GlaI	GCGC	2 cut(s)	84, 108
GluI	GCNGC	4 cut(s)	183, 186, 198, 381
HaeIII	GGCC	2 cut(s)	97, 182
HapII	CCGG	2 cut(s)	5, 300
HhaI	GCGC	2 cut(s)	85, 109
Hin1II	CATG	2 cut(s)	130, 233
Hin6I	GCGC	2 cut(s)	83, 107
HinP1I	GCGC	2 cut(s)	83, 107
HinfI	GANTC	1 cut(s)	352
HpaII	CCGG	2 cut(s)	5, 300
HphI	GGTGA	2 cut(s)	79, 358
Hpy166II	GTNNAC	1 cut(s)	159
Hpy188I	TCNGA	1 cut(s)	313
Hpy8I	GTNNAC	1 cut(s)	159
HpyAV	CCTTC	1 cut(s)	13
HpyCH4III	ACNGT	1 cut(s)	163
HpyCH4V	TGCA	2 cut(s)	173, 366
HpyF10VI	GCNNNNNNNGC	4 cut(s)	113, 179, 194, 377
Hsp92II	CATG	2 cut(s)	130, 233
HspAI	GCGC	2 cut(s)	83, 107
KspI	CCGCGG	1 cut(s)	186
Kzo9I	GATC	1 cut(s)	216
LmnI	GCTCC	2 cut(s)	190, 205
LpnPI	CCDG	6 cut(s)	18, 29, 65, 308, 313, 329
LweI	GCATC	6 cut(s)	37, 94, 241, 274, 304, 353
MaeI	CTAG	1 cut(s)	318
MaeIII	GTNAC	1 cut(s)	238
MalI	GATC	1 cut(s)	218
MboI	GATC	1 cut(s)	216
MhlI	GDGCHC	1 cut(s)	27
MluCI	AATT	2 cut(s)	33, 337
MlyI	GAGTC	1 cut(s)	361
MnlI	CCTC	2 cut(s)	87, 171
MseI	TTAA	1 cut(s)	406
MslI	CAYNNNNRTG	2 cut(s)	45, 228
MspA1I	CMGCKG	1 cut(s)	185
MspI	CCGG	2 cut(s)	5, 300
MspR9I	CCNGG	1 cut(s)	301
MvnI	CGCG	1 cut(s)	185
MwoI	GCNNNNNNNGC	4 cut(s)	113, 179, 194, 377
NciI	CCSGG	1 cut(s)	301
NdeII	GATC	1 cut(s)	216
NlaIII	CATG	2 cut(s)	130, 233
NspI	RCATGY	1 cut(s)	233
PaeR7I	CTCGAG	1 cut(s)	91
PkrI	GCNGC	4 cut(s)	184, 187, 199, 382
PleI	GAGTC	1 cut(s)	360
PpsI	GAGTC	1 cut(s)	360
PspPI	GGNCC	2 cut(s)	96, 180
PspXI	VCTCGAGB	1 cut(s)	91
RseI	CAYNNNNRTG	2 cut(s)	45, 228
SacII	CCGCGG	1 cut(s)	186
SaqAI	TTAA	1 cut(s)	406
SatI	GCNGC	4 cut(s)	183, 186, 198, 381
Sau3AI	GATC	1 cut(s)	216
Sau96I	GGNCC	2 cut(s)	96, 180
SchI	GAGTC	1 cut(s)	361
ScrFI	CCNGG	1 cut(s)	301
SduI	GDGCHC	1 cut(s)	27
SetI	ASST	4 cut(s)	24, 195, 277, 327
SfaNI	GCATC	6 cut(s)	37, 94, 241, 274, 304, 353
Sfr274I	CTCGAG	1 cut(s)	91
Sfr303I	CCGCGG	1 cut(s)	186
SgrBI	CCGCGG	1 cut(s)	186
SlaI	CTCGAG	1 cut(s)	91
SmiMI	CAYNNNNRTG	2 cut(s)	45, 228
SmlI	CTYRAG	1 cut(s)	91
SmoI	CTYRAG	1 cut(s)	91
Sse9I	AATT	2 cut(s)	33, 337
SsiI	CCGC	7 cut(s)	50, 65, 183, 185, 188, 197, 380
SspMI	CTAG	1 cut(s)	318
StyD4I	CCNGG	1 cut(s)	299
TaaI	ACNGT	1 cut(s)	163
TaqI	TCGA	4 cut(s)	27, 92, 149, 330
TasI	AATT	2 cut(s)	33, 337
TauI	GCSGC	4 cut(s)	185, 188, 200, 383
Tru1I	TTAA	1 cut(s)	406
Tru9I	TTAA	1 cut(s)	406
TspDTI	ATGAA	2 cut(s)	45, 143
XapI	RAATTY	2 cut(s)	33, 337
XceI	RCATGY	1 cut(s)	233
XhoI	CTCGAG	1 cut(s)	91
XmiI	GTMKAC	1 cut(s)	158
XspI	CTAG	1 cut(s)	318

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