Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0008945

Physical Location & Seq

Genomic Coordinates Reverse (-)

1604950 .. 1611144

Gene Structure 6195 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG023100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 366 bp

ATGGCCAATGACAAAAGCTTGTTCAAGAAAGAACTTGCTCTGGAGAGGAGGCAGGCAGAAGCTTGTCGAATCAGGGAGAAGTATCCGGAGAGAGTACCGGTGATTGTGGAGAAGGCTGTAAAGAGTGACATTCCCGATATTGACAAGAAGAAATACCTTGTCCCTGCTGATTTGACTGTTGGACAATTTGTTTATGTTGTTCGCAAGAGGATCAAGCTCAGTGCAGACAAGGCTATATTTATCTTTGTCAAGAACACTTTACCTTCCACTGCTGCCTCGATGTCTGCAATTTATGAAGAAAACAAGGATGAAGATGGATTCCTTTACATGACCTACAGTGGAGAGCAAGTATTTGGATCCCTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0006950 GO:0006995 GO:0007154 GO:0008150 GO:0009267 GO:0009605 GO:0009987 GO:0009991 GO:0031667 GO:0031668 GO:0031669 GO:0033554 GO:0042594 GO:0043562 GO:0050896 GO:0051716 GO:0071496

KEGG Pathways

Metabolic & Signaling

ko04068 ko04136 ko04137 ko04138 ko04139 ko04140 ko04212 ko04371 ko04621 ko04727 ko05167 map04068 map04136 map04137 map04138 map04139 map04140 map04212 map04371 map04621 map04727 map05167

Pfam Domains

Protein Families

Atg8

Protein Analysis

121

Amino Acids

13.81

Weight (kDa)

8.92

Isoelectric Point (pI)

37.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ATG8	PF02991	16 - 119	5.6e-50	Autophagy protein Atg8 ubiquitin like
APG12	PF04110	42 - 119	5.8e-07	Ubiquitin-like autophagy protein Apg12

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)

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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: OG0008945)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G04620 AT4G04620 AT4G04620 AT4G21980 AT4G21980
fragaria_vesca	FvH4_3g01980 FvH4_3g01980
malus_domestica	MD05G1347700.v1.1 MD10G1322100.v1.1
prunus_persica	Prupe.4G019800_v2.0.a1 Prupe.4G019800_v2.0.a1
pyrus_communis	pycom05g31530 pycom10g27260
rosa_chinensis	RchiOBHm_Chr5g0002891
rosa_laevigata	RLG00000031067
rosa_multiflora	Rmu_sc0020722.1_g000004
rosa_roxburghii	Rroxscaffold_1G00072970
rosa_rugosa	Rorug04G0400400
rosa_samantha	Rh5AG023100 Rh5BG026000 Rh5DG024500
rosa_wichuraiana	Rw5G002180

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	85
AclWI	GGATC	3 cut(s)	218, 351, 364
AcoI	YGGCCR	1 cut(s)	3
AfaI	GTAC	1 cut(s)	96
AgeI	ACCGGT	1 cut(s)	97
AgsI	TTSAA	1 cut(s)	25
AluBI	AGCT	3 cut(s)	18, 62, 217
AluI	AGCT	3 cut(s)	18, 62, 217
AlwI	GGATC	3 cut(s)	218, 351, 364
Aor13HI	TCCGGA	1 cut(s)	85
AoxI	GGCC	1 cut(s)	3
ApeKI	GCWGC	1 cut(s)	272
AsiGI	ACCGGT	1 cut(s)	97
AsuHPI	GGTGA	1 cut(s)	112
BalI	TGGCCA	1 cut(s)	5
BamHI	GGATCC	1 cut(s)	356
BbvI	GCAGC	1 cut(s)	259
BccI	CCATC	1 cut(s)	308
BciVI	GTATCC	1 cut(s)	93
BfmI	CTRYAG	1 cut(s)	334
BfuI	GTATCC	1 cut(s)	93
BisI	GCNGC	1 cut(s)	273
BlsI	GCNGC	1 cut(s)	274
BmiI	GGNNCC	1 cut(s)	358
BpmI	CTGGAG	1 cut(s)	62
BsaWI	WCCGGW	2 cut(s)	85, 97
BsaXI	ACNNNNNCTCC	2 cut(s)	333, 363
Bse118I	RCCGGY	1 cut(s)	97
BseAI	TCCGGA	1 cut(s)	85
BseGI	GGATG	1 cut(s)	313
BseMII	CTCAG	1 cut(s)	232
BseRI	GAGGAG	1 cut(s)	61
BseXI	GCAGC	1 cut(s)	259
BsgI	GTGCAG	1 cut(s)	243
BshFI	GGCC	1 cut(s)	5
BshTI	ACCGGT	1 cut(s)	97
BsiSI	CCGG	2 cut(s)	86, 98
BslFI	GGGAC	1 cut(s)	146
BsmFI	GGGAC	1 cut(s)	146
BsnI	GGCC	1 cut(s)	5
Bsp13I	TCCGGA	1 cut(s)	85
Bsp143I	GATC	2 cut(s)	210, 356
BspANI	GGCC	1 cut(s)	5
BspCNI	CTCAG	1 cut(s)	231
BspEI	TCCGGA	1 cut(s)	85
BspLI	GGNNCC	1 cut(s)	358
BspPI	GGATC	3 cut(s)	218, 351, 364
BsrFI	RCCGGY	1 cut(s)	97
BssAI	RCCGGY	1 cut(s)	97
BssMI	GATC	2 cut(s)	210, 356
Bst4CI	ACNGT	2 cut(s)	178, 338
BstC8I	GCNNGC	1 cut(s)	54
BstDEI	CTNAG	1 cut(s)	218
BstF5I	GGATG	1 cut(s)	313
BstKTI	GATC	2 cut(s)	213, 359
BstMBI	GATC	2 cut(s)	210, 356
BstMWI	GCNNNNNNNGC	1 cut(s)	230
BstSFI	CTRYAG	1 cut(s)	334
BstV1I	GCAGC	1 cut(s)	259
BstX2I	RGATCY	1 cut(s)	356
BstYI	RGATCY	1 cut(s)	356
BsuI	GTATCC	1 cut(s)	93
BsuRI	GGCC	1 cut(s)	5
BtsCI	GGATG	1 cut(s)	313
BtsI	GCAGTG	1 cut(s)	267
BtsIMutI	CAGTG	3 cut(s)	226, 267, 343
Cac8I	GCNNGC	1 cut(s)	54
Cfr10I	RCCGGY	1 cut(s)	97
Csp6I	GTAC	1 cut(s)	95
CspAI	ACCGGT	1 cut(s)	97
CviAII	CATG	1 cut(s)	328
CviJI	RGCY	6 cut(s)	5, 18, 62, 116, 217, 233
CviKI_1	RGCY	6 cut(s)	5, 18, 62, 116, 217, 233
CviQI	GTAC	1 cut(s)	95
DdeI	CTNAG	1 cut(s)	218
DpnI	GATC	2 cut(s)	212, 358
DpnII	GATC	2 cut(s)	210, 356
EaeI	YGGCCR	1 cut(s)	3
FaeI	CATG	1 cut(s)	331
FaiI	YATR	4 cut(s)	195, 236, 294, 329
FaqI	GGGAC	1 cut(s)	146
FatI	CATG	1 cut(s)	327
Fnu4HI	GCNGC	1 cut(s)	273
FokI	GGATG	1 cut(s)	320
Fsp4HI	GCNGC	1 cut(s)	273
GluI	GCNGC	1 cut(s)	273
GsuI	CTGGAG	1 cut(s)	62
HaeIII	GGCC	1 cut(s)	5
HapII	CCGG	2 cut(s)	86, 98
Hin1II	CATG	1 cut(s)	331
HindIII	AAGCTT	2 cut(s)	16, 60
HinfI	GANTC	2 cut(s)	69, 318
HpaII	CCGG	2 cut(s)	86, 98
HphI	GGTGA	1 cut(s)	112
Hpy188III	TCNNGA	5 cut(s)	25, 41, 86, 134, 250
HpyAV	CCTTC	2 cut(s)	106, 273
HpyCH4III	ACNGT	2 cut(s)	178, 338
HpyCH4V	TGCA	2 cut(s)	224, 287
HpyF10VI	GCNNNNNNNGC	1 cut(s)	230
HpyF3I	CTNAG	1 cut(s)	218
Hsp92II	CATG	1 cut(s)	331
Kpn2I	TCCGGA	1 cut(s)	85
Kzo9I	GATC	2 cut(s)	210, 356
LpnPI	CCDG	6 cut(s)	26, 38, 58, 99, 111, 177
Lsp1109I	GCAGC	1 cut(s)	259
MaeIII	GTNAC	1 cut(s)	125
MalI	GATC	2 cut(s)	212, 358
MboI	GATC	2 cut(s)	210, 356
MboII	GAAGA	3 cut(s)	160, 308, 323
MflI	RGATCY	1 cut(s)	356
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	2 cut(s)	185, 288
MluNI	TGGCCA	1 cut(s)	5
MmeI	TCCRAC	1 cut(s)	160
MnlI	CCTC	4 cut(s)	39, 42, 201, 286
Mox20I	TGGCCA	1 cut(s)	5
MroI	TCCGGA	1 cut(s)	85
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	1 cut(s)	364
Msp20I	TGGCCA	1 cut(s)	5
MspI	CCGG	2 cut(s)	86, 98
MwoI	GCNNNNNNNGC	1 cut(s)	230
NdeII	GATC	2 cut(s)	210, 356
NlaIII	CATG	1 cut(s)	331
NlaIV	GGNNCC	1 cut(s)	358
NmuCI	GTSAC	1 cut(s)	125
PfeI	GAWTC	2 cut(s)	69, 318
PinAI	ACCGGT	1 cut(s)	97
PkrI	GCNGC	1 cut(s)	274
PspN4I	GGNNCC	1 cut(s)	358
PsuI	RGATCY	1 cut(s)	356
RsaI	GTAC	1 cut(s)	96
RsaNI	GTAC	1 cut(s)	95
SaqAI	TTAA	1 cut(s)	364
SatI	GCNGC	1 cut(s)	273
Sau3AI	GATC	2 cut(s)	210, 356
SetI	ASST	6 cut(s)	20, 64, 159, 219, 265, 335
SfcI	CTRYAG	1 cut(s)	334
Sse9I	AATT	2 cut(s)	185, 288
TaaI	ACNGT	2 cut(s)	178, 338
TaqI	TCGA	2 cut(s)	67, 278
TasI	AATT	2 cut(s)	185, 288
TfiI	GAWTC	2 cut(s)	69, 318
Tru1I	TTAA	1 cut(s)	364
Tru9I	TTAA	1 cut(s)	364
TscAI	CASTG	3 cut(s)	226, 274, 343
TseFI	GTSAC	1 cut(s)	125
TseI	GCWGC	1 cut(s)	272
Tsp45I	GTSAC	1 cut(s)	125
TspDTI	ATGAA	2 cut(s)	309, 324
TspRI	CASTG	3 cut(s)	226, 274, 343

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