- Transcript BART1_0-u14701.003
- Transcript IDBART1_0-u14701.003
- Gene IDBART1_0-u14701
Barley RTD
Exon Structure of BART1_0-u14701.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 698441756 | 698441496 | + |
| chr2H | 2 | 698442073 | 698441997 | + |
| chr2H | 3 | 698442289 | 698442184 | + |
| chr2H | 4 | 698442484 | 698442385 | + |
| chr2H | 5 | 698443523 | 698443478 | + |
| chr2H | 6 | 698444416 | 698443957 | + |
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 | 8.21572 | 4.50326 | 0.361428 |
| morex | ETI | 12.5052 | 11.2118 | 11.7731 |
| morex | LEA | 4.79231 | 1.33282 | 7.06895 |
| morex | EPI | 11.1157 | 20.7073 | 10.9708 |
| morex | ROO | 3.63599 | 5.35432 | 1.57691 |
| morex | ROO2 | 21.3413 | 16.5065 | 18.2438 |
| morex | NOD | 11.8382 | 19.896 | 23.9976 |
| morex | RAC | 21.2031 | 26.2895 | 27.0176 |
| morex | INF1 | 8.11696 | 10.4826 | 10.1713 |
| morex | INF2 | 4.10993 | 6.21829 | 12.117 |
| morex | CAR5 | 7.06937 | 4.1429 | 7.83297 |
| morex | CAR15 | 1.87475 | 3.66971 | 0.132395 |
| morex | LEM | 14.5204 | 13.7815 | 13.3801 |
| morex | LOD | 17.6159 | 25.902 | 18.1396 |
| morex | PAL | 12.162 | 16.5321 | 14.2192 |
| morex | SEN | 13.9744 | 13.8419 | 10.4703 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os04g50864.1 | +2 | 6e-86 | 257 | 125/140 (89%) | protein|expressed protein |
| TAIR PP10 | AT1G68310 @ ARAPORT AT1G68310.2 @ TAIR |
+2 | 3e-66 | 206 | 99/126 (79%) | Symbols: AE7 | Protein of unknown function (DUF59) | chr1:25599812-25601239 FORWARD LENGTH=157 |
| BRACH PP3 | Bradi1g72250.4.p | +2 | 4e-88 | 262 | 127/139 (91%) | pacid=32792585 transcript=Bradi1g72250.4 locus=Bradi1g72250 ID=Bradi1g72250.4.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
Click here to see more tracks within GBrowse -->
grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (1050 bp)
>BART1_0-u14701.003 1050 150831_barley_pseudomolecules CTCCCACCTCCGATCCCGATCTGAAAAAAAACCCTCGGCCACACAGGGGCCGCTAGGGTT CCCGCCGCCTCCACCGCCCCCCCGCCGGCACTCCGCCGCCGCAGCCGCACGTCCAGCCGG CCTAAACCTCCTCTGCCCCGCCTCACGCGCCTCCCTGGAGCAGCCGCGCCCGCCCAACAG GGCCGAGGCCTAGCAGCGGCGTCGTGGATTGGAGTTGCCGCTCCCACCAAGCAGCGCCTC CCCCCGGAGCTCCGCCGGCAGAGAGAGGCGCACCCGTCAGGCACCAGAAGACATAGATGA AAATGCAACAGAGGCCATAGACCAGCTTGAGATATTTGATCATATTAGAGACATAAAGGA CCCAGAACATCCATACTCATTGGAAGATCTTAATGTGGTAAATGAAGACTCGGTCGAAAT CAATGATGAACTTAGTCATGTCAGGGTTACTTTCACCCCAACAGTGGAGCATTGCAGTAT GGCCACTATCATTGGCCTTTGCTTACGTGTGAAGCTGATGCGGAGTCTTCCACCTCGTTA CAAGGTGGACATACGGTTGACTCCTGGATCACATGCAACTGAAGCTGCCGTGAACAAGCA ACTGAGCGACAAAGAACGTGTGGCGGCCGCGCTGGAGAATTCAAACCTGCTGGACATAGT GGAGGAATGCTTGTCACCGACGCTCGGTTGAGACCTGAGTAGGACTGGAAACCAGTGTGT GGATATATTCCTAGACCACAACAGATATTTGAGAAGAATTATAGGCGGTGCAGGACGTGT GCATGAATTTTGAGGCCCCATGCCTCTCTGTAAGCACATTGCTGCTGCTTCAGCTCTCGT ATCGTAGTGGTAGTATGTAGGTCGTCGAGTGCTGCTATTTTTTTCTTGGAAGAACTGGGT GCTGCTACGTTTTTGTACGGTCCTGATTGTACATTGAGGGATAATAGTGCGGTGATCCGT GCCGTCTCTAAAATTCTGTCTGGGTTACTGTTATCCTGGGTCATGAATTGAATATATCAT GCTTATCCTTTTATTTGAACTTGATGTTTT
Protein Sequence ( aa)
>BART1_0-u14701.003 150831_barley_pseudomolecules