- Transcript BART1_0-u19417.018
- Transcript IDBART1_0-u19417.018
- Gene IDBART1_0-u19417
Barley RTD
Exon Structure of BART1_0-u19417.018
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 156628023 | 156627927 | - |
| chr3H | 2 | 156628970 | 156628728 | - |
grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
Salmon TPM Values: sixteensamplesmorex
These TPM values were generated by using the RNA-seq data from a 16-tissue experiment in Morex (published here) were calculated using Salmon (version Salmon-0.8.2) using BaRTv1.0-QUASI as the reference transcript dataset. Click here for more information about the RNA-seq experiment and materials
| Sample | Treatment | Rep 1 | Rep 2 | Rep 3 |
|---|---|---|---|---|
| morex | EMB | 0.78323 | 0.462938 | 0 |
| morex | ETI | 0 | 0.66565 | 0.263992 |
| morex | LEA | 2.52064 | 0 | 0.629571 |
| morex | EPI | 0 | 0.238318 | 0.523247 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0.378943 | 0.324347 | 0.591237 |
| morex | NOD | 3.01526 | 1.6776 | 0 |
| morex | RAC | 0.424893 | 0.351811 | 1.06449 |
| morex | INF1 | 0 | 1.08823 | 1.2521 |
| morex | INF2 | 0 | 0 | 0.783314 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0.899962 | 0.303713 | 0 |
| morex | PAL | 0.442207 | 0.364342 | 0.335017 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g14180.1 | +3 | 1e-65 | 199 | 99/111 (89%) | protein|OsIAA17 - Auxin-responsive Aux/IAA gene family member, expressed |
| TAIR PP10 | AT4G29080 @ ARAPORT AT4G29080.1 @ TAIR |
+3 | 4e-44 | 145 | 76/133 (57%) | Symbols: PAP2, IAA27 | phytochrome-associated protein 2 | chr4:14323665-14325213 REVERSE LENGTH=305 |
| BRACH PP3 | Bradi2g07770.1.p | +3 | 7e-70 | 209 | 102/111 (92%) | pacid=32771633 transcript=Bradi2g07770.1 locus=Bradi2g07770 ID=Bradi2g07770.1.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
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grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (340 bp)
>BART1_0-u19417.018 340 150831_barley_pseudomolecules GCAGGGCTCAGGTGGTGGGATGGCCACCAATCCGCAGCTACCGCAAGAACACGATGGCAA CCACCACCAACCAGCTGAAGAGCAGCAAGGAGGATTCTGACGCGAAGCAGGGGCAAGAGT TTCTGTATGTCAAAGTCAGCATGGATGGCGCGCCTTACCTGAGGAAGGTTGACCTCAAGA CATACAAGAACTATAAGGACCTGTCTCTGGGGCTAGAGAAAATGTTCATTGGCTTCAGCA CCGATGGTGTATCTGAGAACAGAAAGGATGGTGAATACGTGCTGACCTACGAAGACAAGG ACGGAGACTGGATGCTGGTTGGTGACGTCCCATGGGAGTA
Protein Sequence (112 aa)
>BART1_0-u19417.018 112 150831_barley_pseudomolecules RAQVVGWPPIRSYRKNTMATTTNQLKSSKEDSDAKQGQEFLYVKVSMDGAPYLRKVDLKT YKNYKDLSLGLEKMFIGFSTDGVSENRKDGEYVLTYEDKDGDWMLVGDVPWE