Leaf Senescence DataBase

Basic information

Locus name

AT3G62770

Alias

ATATG18A

Organism

Arabidopsis thaliana

Taxonomic identifier

[NCBI]

Function category

Nutrient recycling:Autophagy

Effect for Senescence

delay

Gene Description

Required for autophagosome formation during nutrient deprivation and senescence.

Evidence

Genetic evidence:Mutant [Ref 1]

References

1: Xiong Y, Contento AL, Bassham DC
AtATG18a is required for the formation of autophagosomes during nutrient stress and senescence in Arabidopsis thaliana.
Plant J. 2005 May;42(4):535-46

Gene Ontology

molecular function

protein binding

Sequence

Mutant information

Mutant name

AtATG18a RNAi plant

Mutant/Transgenic

transgenic

Ecotype

Col-0

Mutagenesis type

RNAi

miRNA Interaction

Details

target: AT3G62770.1
miRNA: ath-miR2938
miRNA: ath-miR2938
mfe: -24.9 kcal/mol
p-value: 0.042648

position:  428
target 5' U  C  U        C      U 3'
           UG GA CCCUUUCG GAGAUU
           AC CU GGGAGAGU UUCUAG
miRNA  3' G     U        U        5'

target: AT3G62770.1
miRNA: ath-miR830
miRNA: ath-miR830
mfe: -20.5 kcal/mol
p-value: 0.017375

position:  752
target 5' U   G                G 3'
           GCU UUUCUCAGGGU GUUG
           UGA GAAGAGUUUUA CAAU
miRNA  3' G   A           U      5'

target: AT3G62770.1
miRNA: ath-miR831
miRNA: ath-miR831
mfe: -27.9 kcal/mol
p-value: 0.006894

position:  983
target 5' A              U   G  G 3'
           AGGAGGGGUGCGGA AGA CA
           UUCUUCUCAUGCUU UCU GU
miRNA  3' G              C   A    5'

target: AT3G62770.1
miRNA: ath-miR854a
miRNA: ath-miR854a
mfe: -28.3 kcal/mol
p-value: 0.018277

position:  1157
target 5' A  G  G              C 3'
           UC UC UCUCUGUCUUUAUU
           AG AG AGGGAUAGGAGUAG
miRNA  3' G  G  G                5'

target: AT3G62770.1
miRNA: ath-miR854b
miRNA: ath-miR854b
mfe: -28.3 kcal/mol
p-value: 0.019168

position:  1157
target 5' A  G  G              C 3'
           UC UC UCUCUGUCUUUAUU
           AG AG AGGGAUAGGAGUAG
miRNA  3' G  G  G                5'

target: AT3G62770.1
miRNA: ath-miR854c
miRNA: ath-miR854c
mfe: -28.3 kcal/mol
p-value: 0.017917

position:  1157
target 5' A  G  G              C 3'
           UC UC UCUCUGUCUUUAUU
           AG AG AGGGAUAGGAGUAG
miRNA  3' G  G  G                5'

target: AT3G62770.1
miRNA: ath-miR854d
miRNA: ath-miR854d
mfe: -28.3 kcal/mol
p-value: 0.019610

position:  1157
target 5' A  G  G              C 3'
           UC UC UCUCUGUCUUUAUU
           AG AG AGGGAUAGGAGUAG
miRNA  3' G  G  G                5'

target: AT3G62770.1
miRNA: ath-miR854e
miRNA: ath-miR854e
mfe: -28.3 kcal/mol
p-value: 0.019984

position:  1157
target 5' A  G  G              C 3'
           UC UC UCUCUGUCUUUAUU
           AG AG AGGGAUAGGAGUAG
miRNA  3' G  G  G                5'

target: AT3G62770.3
miRNA: ath-miR2938
miRNA: ath-miR2938
mfe: -24.9 kcal/mol
p-value: 0.045698

position:  428
target 5' U  C  U        C      U 3'
           UG GA CCCUUUCG GAGAUU
           AC CU GGGAGAGU UUCUAG
miRNA  3' G     U        U        5'

target: AT3G62770.3
miRNA: ath-miR830
miRNA: ath-miR830
mfe: -20.5 kcal/mol
p-value: 0.018392

position:  752
target 5' U   G                G 3'
           GCU UUUCUCAGGGU GUUG
           UGA GAAGAGUUUUA CAAU
miRNA  3' G   A           U      5'

target: AT3G62770.3
miRNA: ath-miR831
miRNA: ath-miR831
mfe: -27.9 kcal/mol
p-value: 0.007562

position:  983
target 5' A              U   G  G 3'
           AGGAGGGGUGCGGA AGA CA
           UUCUUCUCAUGCUU UCU GU
miRNA  3' G              C   A    5'

target: AT3G62770.3
miRNA: ath-miR854a
miRNA: ath-miR854a
mfe: -28.3 kcal/mol
p-value: 0.020274

position:  1157
target 5' A  G  G              C 3'
           UC UC UCUCUGUCUUUAUU
           AG AG AGGGAUAGGAGUAG
miRNA  3' G  G  G                5'

target: AT3G62770.3
miRNA: ath-miR854b
miRNA: ath-miR854b
mfe: -28.3 kcal/mol
p-value: 0.020941

position:  1157
target 5' A  G  G              C 3'
           UC UC UCUCUGUCUUUAUU
           AG AG AGGGAUAGGAGUAG
miRNA  3' G  G  G                5'

target: AT3G62770.3
miRNA: ath-miR854c
miRNA: ath-miR854c
mfe: -28.3 kcal/mol
p-value: 0.019818

position:  1157
target 5' A  G  G              C 3'
           UC UC UCUCUGUCUUUAUU
           AG AG AGGGAUAGGAGUAG
miRNA  3' G  G  G                5'

target: AT3G62770.3
miRNA: ath-miR854d
miRNA: ath-miR854d
mfe: -28.3 kcal/mol
p-value: 0.021819

position:  1157
target 5' A  G  G              C 3'
           UC UC UCUCUGUCUUUAUU
           AG AG AGGGAUAGGAGUAG
miRNA  3' G  G  G                5'

target: AT3G62770.3
miRNA: ath-miR854e
miRNA: ath-miR854e
mfe: -28.3 kcal/mol
p-value: 0.021881

position:  1157
target 5' A  G  G              C 3'
           UC UC UCUCUGUCUUUAUU
           AG AG AGGGAUAGGAGUAG
miRNA  3' G  G  G                5'

Ortholog Group

Ortholog Groups: OG5_128185

Accession	Taxon
NP_001030918	Arabidopsis thaliana
NP_181613	Arabidopsis thaliana
NP_191203	Arabidopsis thaliana
NP_567132 ( AT3G62770 )	Arabidopsis thaliana
NP_973650	Arabidopsis thaliana
ACO61635	Micromonas sp. RCC299
NP_001042130	Oryza sativa Japonica Group
NP_001045307	Oryza sativa Japonica Group
e_gw1.06.00.207.1	Ostreococcus tauri
e_gw1.26.59.1	Physcomitrella patens subsp. patens
e_gw1.41.57.1	Physcomitrella patens subsp. patens
fgenesh1_pm.scaffold_53000009	Physcomitrella patens subsp. patens
29729.m002396	Ricinus communis
30129.m000356	Ricinus communis
e_gw1.17.79.1	Thalassiosira pseudonana CCMP1335
XP_002955876	Volvox carteri f. nagariensis

Cross Link

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PANTHER	PTHR11227	3.2E-199	50	424	No hit	NA
SUPERFAMILY	SSF50978	1.2E-31	75	330	IPR017986	WD40-repeat-containing domain
SMART	SM00320	340.0	155	190	IPR001680	WD40 repeat
SMART	SM00320	0.1	237	277	IPR001680	WD40 repeat
Pfam	PF00400	0.0	245	272	IPR001680	WD40 repeat
SMART	SM00320	0.1	280	321	IPR001680	WD40 repeat
Pfam	PF00400	0.0	294	320	IPR001680	WD40 repeat

Mutant Image

Different from previous report, we found that atg18a (SALK_111282C) mutant exhibited normal or slightly delayed senescence phenotype compared with wild type Col-0 (7-week-old).