- GBrowse
- JBrowse
- TASUKE

Home
GBrowse

1
2
3
4
5
6
7
8
9
10
11
12

Mt
Pt

File
Help

no error

no details

IRGSP-1.0: 292 bp from chr01:41,693,890..41,694,181

Browser Select Tracks Snapshots Custom Tracks Preferences

Search

Search

Landmark or Region: Examples: ABC transporter, chr1, chr02:1..105000, Os03g0100300, AK060852, LOC_Os01g54390.
Data Source	Scroll/Zoom: Flip

Overview

Overview

Region

Region

Details

Details

Representative transcripts

Predicted genes

Repeat regions

MSU Osa1 Rice Gene Models

Clear highlighting

<< Back to Browser Show Active Tracks Only Show Favorites Only

Clear All Favorites

Tracks

Tracks

FSTs

FSTs

All on All off

CGT (Ds) [?]	GSNU (Ds) [?]	TRIM (T-DNA) [?]
CSIRO (T-DNA) [?]	NIAS (Tos17) [?]	UCD (Ds) [?]
Genoplante (T-DNA) [?]	POSTECH (T-DNA) [?]

Gene predictions

Gene predictions

All on All off

JIGSAW [?]

General

General

All on All off

DNA/GC Content

IsoSeq

IsoSeq

All on All off

IsoSeq, Leaf, GC [?]

Markers

Markers

All on All off

SSR [?]

Masked regions

Masked regions

All on All off

Organelle [?]

Repeat regions [?]

Repeat units [?]

Misc

Misc

All on All off

Centromere [?]

Minimum Tiling Path [?]

OMAP

OMAP

All on All off

Oryza alta [?]	Oryza glaberrima [?]	Oryza officinalis [?]
Oryza australiensis [?]	Oryza granulata [?]	Oryza punctata [?]
Oryza brachyantha [?]	Oryza minuta [?]	Oryza ridleyi [?]
Oryza coarctata [?]	Oryza nivara [?]	Oryza rufipogon [?]

Other rice annotations

Other rice annotations

All on All off

MSU Osa1 Rice Gene Models [?]

RAP1, RAP2, and RAP3 transcripts [?]

RefSeq Annotation Release 102 [?]

Protein alignments

Protein alignments

All on All off

Swiss-Prot (identical) [?]

Swiss-Prot plant division [?]

TrEMBL plant division [?]

RAP annotation

RAP annotation

All on All off

Gene locus [?]	Predicted locus [?]
Predicted genes [?]	Representative transcripts [?]

RNA-seq

RNA-seq

Phosphate (Oono et al.)

Phosphate (Oono et al.)

Root

Root

All on All off

HighP, 10d, Root [?]	HighP, 5d, Root [?]	LowP, 1d, Root [?]
HighP, 10d-Rec, Root [?]	LowP, 10d, Root [?]	LowP, 5d, Root [?]
HighP, 1d, Root [?]	LowP, 10d-Rec, Root [?]	P, Cont, Root [?]

Shoot

Shoot

All on All off

HighP, 10d, Shoot [?]	LowP, 10d, Shoot [?]	P, Cont, Shoot [?]
HighP, 1d, Shoot [?]	LowP, 1d, Shoot [?]
HighP, 5d, Shoot [?]	LowP, 5d, Shoot [?]

Phosphate (Secco et al.)

Phosphate (Secco et al.)

Root

Root

All on All off

+P, 1h, Root [?]	+P, 6h, Root [?]	-P, 24h, Root [?]
+P, 21d, Root [?]	+P, 7d, Root [?]	-P, 3d, Root [?]
+P, 21d_1h, Root [?]	-P, 1h, Root [?]	-P, 6h, Root [?]
+P, 21d_24h, Root [?]	-P, 21d, Root [?]	-P, 7d, Root [?]
+P, 21d_6h, Root [?]	-P, 21d_1h, Root [?]	P_resupply, 21d_1h, Root [?]
+P, 24h, Root [?]	-P, 21d_24h, Root [?]	P_resupply, 21d_24h, Root [?]
+P, 3d, Root [?]	-P, 21d_6h, Root [?]	P_resupply, 21d_6h, Root [?]

Shoot

Shoot

All on All off

+P, 1h, Shoot [?]	+P, 6h, Shoot [?]	-P, 24h, Shoot [?]
+P, 21d, Shoot [?]	+P, 7d, Shoot [?]	-P, 3d, Shoot [?]
+P, 21d_1h, Shoot [?]	-P, 1h, Shoot [?]	-P, 6h, Shoot [?]
+P, 21d_24h, Shoot [?]	-P, 21d, Shoot [?]	-P, 7d, Shoot [?]
+P, 21d_6h, Shoot [?]	-P, 21d_1h, Shoot [?]	P_resupply, 21d_1h, Shoot [?]
+P, 24h, Shoot [?]	-P, 21d_24h, Shoot [?]	P_resupply, 21d_24h, Shoot [?]
+P, 3d, Shoot [?]	-P, 21d_6h, Shoot [?]	P_resupply, 21d_6h, Shoot [?]

Salinity (Mizuno et al.)

Salinity (Mizuno et al.)

Root

Root

All on All off

Salt, 1h, Root [?]

Salt, Cont, Root [?]

Shoot

Shoot

All on All off

Salt, 1h, Shoot [?]

Salt, Cont, Shoot [?]

Tissues (Sakai et al.)

Tissues (Sakai et al.)

All on All off

Callus [?]	Panicle (before flowering) [?]	Shoot [?]
Leaf [?]	Root [?]
Panicle (after flowering) [?]	Seed [?]

RNAs

RNAs

All on All off

miRBase [?]	rRNA regions [?]	sRNAs [?]
miRBase (primary transcript) [?]	rRNAs [?]	tRNAs [?]

Short-Read Assembly Browser

Short-Read Assembly Browser

All on All off

Guangluai4 [?]

Koshihikari [?]

Transcript mapping

Transcript mapping

All on All off

ESTs (Oryza) [?]	mRNAs (Oryza) [?]	O. sativa indica & O. rufipogon FL-cDNAs [?]
ESTs (Other Poaceae) [?]	mRNAs (Other cereals) [?]	O. sativa japonica FL-cDNAs [?]

Organelle

Organelle

All on All off

organelle_predicted_gene [?]	organelle_rRNA
organelle_RNA_editing	organelle_tRNA

Analysis

Analysis

All on All off

Restriction Sites

Snapshots

Snapshot Name

Snapshot Timestamp [GMT]

Custom Tracks

[Help with uploading custom tracks]

There are no tracks yet.

Add custom tracks : [From text] [From a URL] [From a file]

Show grid	Image Width 450 640 800 1024	Highlight feature(s) (feature1 feature2...) Clear highlighting
Cache tracks		Highlight regions (region1:start..end region2:start..end) Clear highlighting
Show tooltips		Region Size (bp)

© 2017 National Agriculture and Food Research Organization All Rights Reserved.

Disclaimer |
FAQ |
Contact