Leaf Senescence DataBase

Basic information

Locus name

AT5G55970

Organism

Arabidopsis thaliana

Taxonomic identifier

[NCBI]

Function category

Others

Effect for Senescence

unclear

Gene Description

zinc finger (C3HC4-type RING finger) family protein contains Pfam profile: PF00097 zinc finger, C3HC4 type (RING finger)

Evidence

Genomic evidence:microarray data [Ref 1]

References

1: Buchanan-Wollaston V, Page T, Harrison E, Breeze E, Lim PO, Nam HG, Lin JF, Wu SH, Swidzinski J, Ishizaki K, Leaver CJ
Comparative transcriptome analysis reveals significant differences in gene expression and signalling pathways between developmental and dark/starvation-induced senescence in Arabidopsis.
Plant J. 2005 May;42(4):567-85

Gene Ontology

molecular function

Sequence

Microarray

Sampling

Buchanan-Wollaston V, Page T, Harrison E, Breeze E, Lim PO, Nam HG, Lin JF, Wu SH, Swidzinski J, Ishizaki K, Leaver CJ.
Comparative transcriptome analysis reveals significant differences in gene expression and signalling pathways between developmental and dark/starvation-induced senescence in Arabidopsis.
Plant J. 2005 May;42(4)

Comparation

Legends:
Col: wild type, indicates the ratio of expression in senescing leaves/green leaves.
NahG, coi1 and ein2: indicates the ratio of expression in senescing leaves of mutant/senescing wild type.
D/L: ratio of DARK 5d/control.
CD: Cell Death, ratio of starved cell suspension culture/control.
Genes showing at least 3 fold (ratio) up regulation during leaf senescence.

miRNA Interaction

Details

target: AT5G55970.2
miRNA: ath-miR854a
miRNA: ath-miR854a
mfe: -29.2 kcal/mol
p-value: 0.013961

position:  289
target 5' U             U   A    A 3'
           UCUUCCUCUCUGU UCU UAUC
           AGGAGGAGGGAUA GGA GUAG
miRNA  3' G                        5'

target: AT5G55970.2
miRNA: ath-miR854b
miRNA: ath-miR854b
mfe: -29.2 kcal/mol
p-value: 0.015232

position:  289
target 5' U             U   A    A 3'
           UCUUCCUCUCUGU UCU UAUC
           AGGAGGAGGGAUA GGA GUAG
miRNA  3' G                        5'

target: AT5G55970.2
miRNA: ath-miR854c
miRNA: ath-miR854c
mfe: -29.2 kcal/mol
p-value: 0.013788

position:  289
target 5' U             U   A    A 3'
           UCUUCCUCUCUGU UCU UAUC
           AGGAGGAGGGAUA GGA GUAG
miRNA  3' G                        5'

target: AT5G55970.2
miRNA: ath-miR854d
miRNA: ath-miR854d
mfe: -29.2 kcal/mol
p-value: 0.014861

position:  289
target 5' U             U   A    A 3'
           UCUUCCUCUCUGU UCU UAUC
           AGGAGGAGGGAUA GGA GUAG
miRNA  3' G                        5'

target: AT5G55970.2
miRNA: ath-miR854e
miRNA: ath-miR854e
mfe: -29.2 kcal/mol
p-value: 0.015792

position:  289
target 5' U             U   A    A 3'
           UCUUCCUCUCUGU UCU UAUC
           AGGAGGAGGGAUA GGA GUAG
miRNA  3' G                        5'

Ortholog Group

Ortholog Groups: OG5_159422

Accession	Taxon
NP_194388	Arabidopsis thaliana
NP_568834 ( AT5G55970 )	Arabidopsis thaliana
NP_851197	Arabidopsis thaliana
CMO162C	Cyanidioschyzon merolae strain 10D
NP_001043999	Oryza sativa Japonica Group
29629.m001433	Ricinus communis

Cross Link

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PANTHER	PTHR14155	4.4E-81	9	341	No hit	NA
Pfam	PF13639	8.5E-14	296	339	IPR001841	Zinc finger, RING-type
SUPERFAMILY	SSF57850	1.1E-18	296	341	No hit	NA
ProSiteProfiles	PS50089	12.1	297	338	IPR001841	Zinc finger, RING-type
SMART	SM00184	2.2E-5	297	337	IPR001841	Zinc finger, RING-type