Leaf Senescence DataBase

Basic information

Locus name

AT5G62620

Organism

Arabidopsis thaliana

Taxonomic identifier

[NCBI]

Function category

Lipid/Carbohydrate metabolism

Effect for Senescence

unclear

Gene Description

galactosyltransferase family protein contains Pfam profile: PF01762 galactosyltransferase

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

biological process	protein glycosylation
cellular component	membrane
molecular function	carbohydrate binding galactosyltransferase activity

Pathway

KEGG

map00051 (EC 2.4.1.-)
map00510 (EC 2.4.1.-)
map00512 (EC 2.4.1.-)
map00513 (EC 2.4.1.-)
map00514 (EC 2.4.1.-)
map00522 (EC 2.4.1.-)
map00524 (EC 2.4.1.-)
map00533 (EC 2.4.1.-)
map00540 (EC 2.4.1.-)
map00550 (EC 2.4.1.-)
map00561 (EC 2.4.1.-)
map00563 (EC 2.4.1.-)
map00600 (EC 2.4.1.-)
map00601 (EC 2.4.1.-)
map00603 (EC 2.4.1.-)
map00604 (EC 2.4.1.-)
map00906 (EC 2.4.1.-)
map00908 (EC 2.4.1.-)
map00941 (EC 2.4.1.-)
map00942 (EC 2.4.1.-)
map00944 (EC 2.4.1.-)
map00945 (EC 2.4.1.-)
map00965 (EC 2.4.1.-)

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: AT5G62620.1
miRNA: ath-miR844
miRNA: ath-miR844
mfe: -21.9 kcal/mol
p-value: 0.077139

position:  1720
target 5' U   G                 G 3'
           GCU AG AGGAUGGCU GUGA
           UGA UC UUCUACCGA UAUU
miRNA  3' U      A         A      5'

target: AT5G62620.1
miRNA: ath-miR861-3p
miRNA: ath-miR861-3p
mfe: -24.0 kcal/mol
p-value: 0.036023

position:  1853
target 5' U              G    A 3'
           UCUUUGGGGACAUA UUAU
           AGGAACUUCUGUAU GGUA
miRNA  3' C              A    G 5'

target: AT5G62620.2
miRNA: ath-miR844
miRNA: ath-miR844
mfe: -21.9 kcal/mol
p-value: 0.076582

position:  1720
target 5' U   G                 G 3'
           GCU AG AGGAUGGCU GUGA
           UGA UC UUCUACCGA UAUU
miRNA  3' U      A         A      5'

target: AT5G62620.2
miRNA: ath-miR861-3p
miRNA: ath-miR861-3p
mfe: -24.0 kcal/mol
p-value: 0.035792

position:  1853
target 5' U              G    A 3'
           UCUUUGGGGACAUA UUAU
           AGGAACUUCUGUAU GGUA
miRNA  3' C              A    G 5'

Ortholog Group

Ortholog Groups: OG5_131417

Accession	Taxon
NP_001119480	Arabidopsis thaliana
NP_001154260	Arabidopsis thaliana
NP_174032	Arabidopsis thaliana
NP_177618	Arabidopsis thaliana
NP_193838	Arabidopsis thaliana
NP_201068 ( AT5G62620 )	Arabidopsis thaliana
21670	Chlamydomonas reinhardtii
NP_001051611	Oryza sativa Japonica Group
NP_001051614	Oryza sativa Japonica Group
NP_001058369	Oryza sativa Japonica Group
NP_001059116	Oryza sativa Japonica Group
NP_001060925	Oryza sativa Japonica Group
fgenesh1_pg.scaffold_163000055	Physcomitrella patens subsp. patens
fgenesh1_pm.scaffold_237000010	Physcomitrella patens subsp. patens
29736.m002069	Ricinus communis
30059.m000456	Ricinus communis
30147.m014042	Ricinus communis

Cross Link

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00337	9.6E-50	187	399	IPR001079	Galectin, carbohydrate recognition domain
ProSiteProfiles	PS51304	31.6	187	401	IPR001079	Galectin, carbohydrate recognition domain
SUPERFAMILY	SSF49899	8.2E-24	190	286	IPR008985	Concanavalin A-like lectin/glucanases superfamily
SMART	SM00908	3.1E-27	191	400	IPR001079	Galectin, carbohydrate recognition domain
PANTHER	PTHR11214	1.1E-210	241	570	IPR002659	Glycosyl transferase, family 31
SUPERFAMILY	SSF49899	8.2E-24	342	400	IPR008985	Concanavalin A-like lectin/glucanases superfamily
Pfam	PF01762	4.5E-18	447	559	IPR002659	Glycosyl transferase, family 31

Subcellular Localization

Localization 1
	Localization	plasma membrane
	Evidence	SUBAcon
	Pubmed ID	23180787

Localization 2
	Localization	plasma membrane,endoplasmic reticulum
	Evidence	SUBAcon
	Pubmed ID	23180787