ARC Centre of Excellence for Plant Energy Biology

Pre-release edition

Loci are annotated with RNA transcript expression detection (Affymetrix 57k GeneChip) for all developmental stages analysed. For loci with multiple array probes, the probe matched by the most number of expressed tissues is used. Contact Reena Narsai with queries.

Usage in Rice DB Search Usage in Rice DB Results
  • Can search for tissue and stress names.
  • Results can be requested as "tissue expression summaries".
Example: show tissue expression summaries for LOC_Os07g18120.1
Example: show tissue expression summaries for OsAffx.28501.1.S1_x_at
Example: show developmental tissues for LOC_Os07g18120.1
Example: show stress expression for LOC_Os07g18120.1

Key

A locus is annotated if its expression is detected in a majority of replicates for a given tissue at any stage, summarised from the list below:

Included tissue Replicates
Dry seed 3
1h seed (aerobic) 3
1h seed (anaerobic) 3
3h seed (aerobic) 3
3h seed (anaerobic) 3
12h seed (aerobic) 3
12h seed (anaerobic) 3
24h (aerobic) 3
24h seed (anaerobic) 3
27h (aerobic) 3
27h (24h A + 3h N) 3
30h (aerobic) 3
30h (24h A + 6h N) 3
27h (anaerobic) 3
27h (24h N + 3h A) 3
30h (anaerobic) 3
30h (24h N + 6h A) 3
Aerobic grown coleoptiles (4 days) 2
Anoxic grown coleoptiles (4 days) 2
Embryo 2
Endosperm 2
Leaf from 7-day seedling 2
Root from 7-day Seedling 2
10-day old seedling 2
Unpollenated stigma at antithesis 3
Ovary at antithesis 3
Suspension cultured cells 1
Seedling shoot 1
Seedling root 1
Mature anther 1
10-day old Embryo 1
10-day old Endosperm 1
Seeds of 5 days after pollenation 1
Root from 7-day old seedling 3
Mature leaf 3
Young Leaf 3
Semi Apical Meristem 3
Young inflorescence (P1, upto 3 cm) 3
Inflorescence (P2, 3-5 cm) 3
Inflorescence (P3, 5-10 cm) 3
Inflorescence (P4, 10-15 cm) 3
Inflorescence (P5, 15-22 cm) 3
Inflorescence (P6, 22-30 cm) 3
Seed (S1, 0-2 days after pollenation) 3
Seed (S2, 3-4 days after pollenation) 3
Seed (S3, 5-10 days after pollenation) 3
Seed (S4, 11-20 days after pollenation) 3
Seed (S5, 21-29 days after pollenation) 3
1-week old seedling (control) 3
Drought stress (seedling) 3
Salt stress (seedling) 3
Cold stress (seedling) 3
2-week old seedling (control) 3
2-week old seedling after heat shock 3
FL478 control (salt tolerant) 3
FL478 salt stressed (salt tolerant) 3
IR29 control (salt tolerant) 2
IR29 salt stressed (salt tolerant) 3
M103 control (salt sensitive) 3
M103 salt stressed (salt sensitive) 3
IR29 control (salt sensitive) 3
IR29 salt stressed (salt sensitive) 3
Agami control (salt tolerant) 3
Agami salt stressed (salt tolerant) 3
IR63731 control (salt tolerant) 3
IR63731 salt stressed (salt tolerant) 3
FL478 roots (control) 3
FL478 roots (salt-treated) 3
IR29 roots (control) 2
IR29 roots (salt-treated) 3
IR63731 roots (control) 3
IR63731 root (salt-treated) 3
Pokkali root (control) 3
Pokkali root (salt-treated) 3
Seedling root grown with no iron, no phosphorus (-Fe-P) 2
Seedling root grown with no iron, plus phosphorus (-Fe+P) 2
Seedling root grown with iron, no phosphorus (+Fe-P) 2
Seedling root grown with both iron and phosphorus (+Fe+P) 2
Seedling shoot grown with no iron, no phosphorus (-Fe-P) 2
Seedling shoot grown with no iron, plus phosphorus (-Fe+P) 2
Seedling shoot grown with iron, no phosphorus (+Fe-P) 2
Seedling shoot grown with both iron and phosphorus (+Fe+P) 2
Azucena seedling (Control, no Arsenate) 3
Azucena seedling with 1ppm Arsenate 3
Bala seedling (Control, no Arsenate) 3
Bala seedling with 1ppm Arsenate 3
Bala root tip at the hard (wax) layer 3
Azucena root tip before the hard (wax) layer 3
Azucena root tip at the hard (wax) layer 3
Azucena root tip buckled at the hard (wax) layer 3
3-week old Nipponbare seedlings, 2-days post-mock treatment (control) 2
3-week old Nipponbare seedlings, 2-days post-infection with S.Hermonithica parasite 2
3-week old Nipponbare seedlings, 4-days post-mock treatment (control) 2
3-week old Nipponbare seedlings, 4-days post-infection with S.Hermonithica parasite 2
3-week old Nipponbare seedlings, 11-days post-mock treatment (control) 2
3-week old Nipponbare seedlings, 11-days post-infection with S.Hermonithica parasite 2
3-week old IAC165 seedlings, 2-days post-mock treatment (control) 2
3-week old IAC165 seedlings, 2-days post-infection with S.Hermonithica parasite 2
3-week old IAC165 seedlings, 4-days post-mock treatment (control) 2
3-week old IAC165 seedlings, 4-days post-infection with S.Hermonithica parasite 2
3-week old IAC165 seedlings, 11-days post-mock treatment (control) 2
3-week old IAC165 seedlings, 11-days post-infection with S.Hermonithica parasite 2
3-days after leaf mock treated (control) 2
3-days after leaf infected with M.grisea (virulent isolate FR13) 2
4-days after leaf mock treated (control) 2
4-days after leaf infected with M.grisea (virulent isolate FR13) 2
11-day WuYun3 seedlings (control) 3
11-day WuYun3 seedlings infected with Rice Stripe Virus (via planthoppers) 3
11-day KT95-418 seedlings (control) 3
11-day KT95-418 seedlings infected with Rice Stripe Virus (via planthoppers) 3
2 h after mock infection (control) 4
2 h after inoculation with X. oryzae pv. oryzicola (Xoc) (strain BLS256) 4
2 h after inoculation with Xanthomonas oryzae pathovar (pv.) oryzae (Xoo) (strain PXO99A) 4
4 h after mock infection (control) 4
4 h after inoculation with X. oryzae pv. oryzicola (Xoc) (strain BLS256) 4
4 h after inoculation with Xanthomonas oryzae pathovar (pv.) oryzae (Xoo) (strain PXO99A) 4
8 h after mock infection (control) 4
8 h after inoculation with X. oryzae pv. oryzicola (Xoc) (strain BLS256) 4
8 h after inoculation with Xanthomonas oryzae pathovar (pv.) oryzae (Xoo) (strain PXO99A) 4
24 h after mock infection (control) 4
24 h after inoculation with X. oryzae pv. oryzicola (Xoc) (strain BLS256) 4
24 h after inoculation with Xanthomonas oryzae pathovar (pv.) oryzae (Xoo) (strain PXO99A) 4
96 h after mock infection (control) 4
96 h after inoculation with X. oryzae pv. oryzicola (Xoc) (strain BLS256) 4
96 h after inoculation with Xanthomonas oryzae pathovar (pv.) oryzae (Xoo) (strain PXO99A) 4
2-week old seedling root mock treated for 30 mins (control) 3
2-week old seedling root cytokinin treated for 30 mins 3
2-week old seedling root mock treated for 120 mins (control) 3
2-week old seedling root cytokinin treated for 120 mins 3
2-week old seedling leaf mock treated for 30 mins (control) 3
2-week old seedling leaf cytokinin treated for 30 mins 3
2-week old seedling leaf mock treated for 120 mins (control) 3
2-week old seedling leaf cytokinin treated for 120 mins 3
1-week old seedlings mock treated (control) 2
1-week old seedlings indole-3-actetic acid treated (control) 2
1-week old seedlings benzyl aminopurine treated (control) 2