- Transcript BART1_0-u14701.002
- Transcript IDBART1_0-u14701.002
- Gene IDBART1_0-u14701
Barley RTD
Exon Structure of BART1_0-u14701.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 698441756 | 698441290 | + |
| chr2H | 2 | 698442073 | 698441943 | + |
| chr2H | 3 | 698442289 | 698442184 | + |
| chr2H | 4 | 698442484 | 698442385 | + |
| chr2H | 5 | 698443523 | 698443478 | + |
| chr2H | 6 | 698444659 | 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 | 2.74622 | 2.52226 | 3.26861 |
| morex | ETI | 4.7131 | 4.26134 | 5.63175 |
| morex | LEA | 2.90626 | 1.51901 | 2.75607 |
| morex | EPI | 0.341694 | 1.35235 | 0.885241 |
| morex | ROO | 3.70081 | 2.00895 | 1.23036 |
| morex | ROO2 | 2.15862 | 2.87138 | 3.15605 |
| morex | NOD | 2.41274 | 4.37026 | 6.66905 |
| morex | RAC | 3.84744 | 5.69607 | 5.0096 |
| morex | INF1 | 2.96057 | 7.08101 | 7.15943 |
| morex | INF2 | 5.44002 | 6.22575 | 4.90798 |
| morex | CAR5 | 5.56404 | 5.81864 | 6.45904 |
| morex | CAR15 | 0.481416 | 1.22816 | 1.68023 |
| morex | LEM | 5.32402 | 1.99246 | 3.62228 |
| morex | LOD | 3.89482 | 5.34835 | 5.09247 |
| morex | PAL | 4.71286 | 4.08562 | 3.13302 |
| morex | SEN | 4.87277 | 3.5584 | 4.24956 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os04g50864.1 | +1 | 2e-94 | 285 | 138/159 (87%) | protein|expressed protein |
| TAIR PP10 | AT1G68310 @ ARAPORT AT1G68310.2 @ TAIR |
+1 | 3e-72 | 226 | 111/153 (73%) | Symbols: AE7 | Protein of unknown function (DUF59) | chr1:25599812-25601239 FORWARD LENGTH=157 |
| BRACH PP3 | Bradi1g72250.4.p | +1 | 2e-97 | 291 | 141/159 (89%) | 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 (1553 bp)
>BART1_0-u14701.002 1553 150831_barley_pseudomolecules GTTTTTGCACATATTTTATTTTGTTTTAATGTAAATATTATCAGTGTTAATTTATCAGTA TTAATTTATAAATCGGGTGGCAAAGGTGGGTAAATATTCTACAACTTCTAGGGGGCATTC GAAAATGGTTGGTTGAGAAATTGAAAAAGTTAGGGTCAGACGACTGCAAAACGATTCATC ACGGTGAAAGGAGCCACGAGGAGAGCCTCCCACCTCCGATCCCGATCTGAAAAAAAACCC TCGGCCACACAGGGGCCGCTAGGGTTCCCGCCGCCTCCACCGCCCCCCCGCCGGCACTCC GCCGCCGCAGCCGCACGTCCAGCCGGCCTAAACCTCCTCTGCCCCGCCTCACGCGCCTCC CTGGAGCAGCCGCGCCCGCCCAACAGGGCCGAGGCCTAGCAGCGGCGTCGTGGATTGGAG TTGCCGCTCCCACCAAGCAGCGCCTCCCCCCGGAGCTCCGCCGGCAGAGGGAAAATAGTA ATGGAGTTGATAAATGCTAACCCTGTGATTCATGAGAAAAGAGAGAGGCGCACCCGTCAG GCACCAGAAGACATAGATGAAAATGCAACAGAGGCCATAGACCAGCTTGAGATATTTGAT CATATTAGAGACATAAAGGACCCAGAACATCCATACTCATTGGAAGATCTTAATGTGGTA AATGAAGACTCGGTCGAAATCAATGATGAACTTAGTCATGTCAGGGTTACTTTCACCCCA ACAGTGGAGCATTGCAGTATGGCCACTATCATTGGCCTTTGCTTACGTGTGAAGCTGATG CGGAGTCTTCCACCTCGTTACAAGGTGGACATACGGTTGACTCCTGGATCACATGCAACT GAAGCTGCCGTGAACAAGCAACTGAGCGACAAAGAACGTGTGGCGGCCGCGCTGGAGAAT TCAAACCTGCTGGACATAGTGGAGGAATGCTTGTCACCGACGCTCGGTTGAGACCTGAGT AGGACTGGAAACCAGTGTGTGGATATATTCCTAGACCACAACAGATATTTGAGAAGAATT ATAGGCGGTGCAGGACGTGTGCATGAATTTTGAGGCCCCATGCCTCTCTGTAAGCACATT GCTGCTGCTTCAGCTCTCGTATCGTAGTGGTAGTATGTAGGTCGTCGAGTGCTGCTATTT TTTTCTTGGAAGAACTGGGTGCTGCTACGTTTTTGTACGGTCCTGATTGTACATTGAGGG ATAATAGTGCGGTGATCCGTGCCGTCTCTAAAATTCTGTCTGGGTTACTGTTATCCTGGG TCATGAATTGAATATATCATGCTTATCCTTTTATTTGAACTTGATGTTTTATCCTTTTTT ATTTAGTCGTGCTCGAGTTGCTGAAGAAAAAATAAAAGGGCAGCACTACTGAGGGATGGT GTGGTGATCCGTGCTGTCTCGTGTCTATGTCCAGCATAACCGTTCTCCTCGGTCATTATT TCACAATCATGTTTGAATAGAATTGTTTTCTCTTCTGTTTAGATTTTATTATAAATATAT GTGTTTTTTTTTTGAGCGGGAGATCTTTGTGTTTGGTCTTGAATCCAATGTTG
Protein Sequence (156 aa)
>BART1_0-u14701.002 156 150831_barley_pseudomolecules MELINANPVIHEKRERRTRQAPEDIDENATEAIDQLEIFDHIRDIKDPEHPYSLEDLNVV NEDSVEINDELSHVRVTFTPTVEHCSMATIIGLCLRVKLMRSLPPRYKVDIRLTPGSHAT EAAVNKQLSDKERVAAALENSNLLDIVEECLSPTLG