- Genes
- TAIR(v8) gene set. Protein-coding and non-coding genes are colored yellow. Pseudogenes are colored purple. Genes derived from transposable elements are colored green.
- Genes(v7)
- ORFs as determined from the NCBI genbank files on the Arabidopsis chromosomes.
- Transcripts(v7)
- Determined from the NCBI genbank files on the Arabidopsis chromosomes.
- Gene models
- TAIR8 gene models. 5' and 3' untranslated regions are colored light blue, all other regions are colored dark blue.
- miRNA
- Arabidopsis miRNA loci coordinants downloaded from miRBase. Bars are color coded according to MIRNA (red) and miRNA (green).
- Transposable elements
- DNA elements (transposons) and retroelements from TAIR8.
- Col-0 seedling small RNAs
- Small RNAs from the Col-0.seedling library with perfect matches to the genome. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- Col-0 inf small RNAs
- Small RNAs from the Col-0.inf library with perfect matches to the genome. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- Col-0 leaf H1 small RNAs
- Small RNAs from the Col-0 leaf.H1 library with perfect matches to the genome. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- Col-0 leaf H3 small RNAs
- Small RNAs from the Col-0 leaf.H3 library with perfect matches to the genome. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- Col-0 leaf T0 small RNAs
- Small RNAs from the Col-0 leaf.T0 library with perfect matches to the genome. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- rdr6-15 seedling small RNAs
- Small RNAs from the rdr6-15 seedling library with perfect matches to the genome. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- rdr6-15 inf small RNAs
- Small RNAs from the rdr6-15 inf library with perfect matches to the genome. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- rdr1-1 inf small RNAs
- Small RNAs from the rdr1-1 inf library with perfect matches to the genome. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- rdr2-1 inf small RNAs
- Small RNAs from the rdr2-1 inf library with perfect matches to the genome. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- dcl1-7 inf small RNAs
- Small RNAs from the dcl1-7 inf library with perfect matches to the genome. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- dcl2-1 inf small RNAs
- Small RNAs from the dcl2-1 inf library with perfect matches to the genome. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- dcl3-1 inf small RNAs
- Small RNAs from the dcl3-1 inf library with perfect matches to the genome. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- dcl4-2 inf small RNAs
- Small RNAs from the dcl4-2 inf library with perfect matches to the genome. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- Bartel Col-0 rosette leaves
- Small RNAs from 4 weeks post-germination rosette leaves.
- Bartel Col-0 whole flowers
- Small RNAs from 6 weeks post-germination whole flowers.
- Bartel Col-0 whole siliques
- Small RNAs from 2 months post-germination whole siliques.
- Bartel Col-0 whole seedling
- Small RNAs from 6 days post-germination whole seedling.
- Col-0 leaf
- Small RNAs from Col-0 leaf tissue. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- Col-0 whole plant
- Small RNAs from Col-0 whole plant tissue. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- dcl1-7 whole plant
- Small RNAs from dcl1-7 whole plant tissue. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- dcl2dcl3dcl4 whole plant
- Small RNAs from dcl2-1dcl3-1dcl4-2 whole plant tissue. Bars are color coded according to size (color key is defined in the browser window). The direction of the arrow defines the strand of origin.
- Col-0 inflorescence repA
- Scrolling window ligation-independent small RNA read counts for Col-0 inflorescence replicate A
- Col-0 inflorescence repB
- Scrolling window ligation-independent small RNA read counts for Col-0 inflorescence replicate B
- Col-0 inflorescence repC
- Scrolling window ligation-independent small RNA read counts for Col-0 inflorescence replicate C
- ago1-25 inflorescence repA
- Scrolling window ligation-independent small RNA read counts for ago1-25 inflorescence replicate A
- ago1-25 inflorescence repB
- Scrolling window ligation-independent small RNA read counts for ago1-25 inflorescence replicate B
- ago1-25 inflorescence repC
- Scrolling window ligation-independent small RNA read counts for ago1-25 inflorescence replicate C
- RepeatMasker elements
- DNA elements (transposons) and retroelements are displayed as found from RepeatMasker (with repbase) using the -ar option.
- Tandem Repeats
- Tandem Repeats within the Genome Bars are color coded (green).
- 5s ribosomal
- The 5s ribosomal regions, color coded for sense (blue) and antisense (red) relative to the genome.
- ESTs
- ESTs cooridinates as defined on TAIR.
- DNA/GC Content
- Nucleotide sequence is displayed in windows < 100 nts. The % GC content is displayed in windows > 100 nts.
- 6-Frame Translation
- This track shows the 6-frame DNA translation of this part of the chromosome.
- Col-0 methylation (1) GSM138296
- Methylation IP/total DNA from Henikoff lab.
- Col-0 methylation (2) GSM138297
- Methylation IP/total DNA from Henikoff lab.
- met1-6 transcripts (1) GSM138298
- met1-6 RNA expression from Henikoff lab.
- met1-6 transcripts (2) GSM138299
- met1-6 RNA expression from Henikoff lab.
| For the source code for this browser, see the Generic Model Organism Database Project. For other questions, send mail to asrp_questions at cgrb.oregonstate.edu. |
Note: This page uses cookies to save and restore preference information.
No information is shared.
Generic genome browser version 1.68