- Transcript BART1_0-u50476.004
- Transcript IDBART1_0-u50476.004
- Gene IDBART1_0-u50476
Barley RTD
Exon Structure of BART1_0-u50476.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 50932907 | 50932674 | - |
| chr7H | 2 | 50933974 | 50933808 | - |
| chr7H | 3 | 50934624 | 50934392 | - |
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 | 0 | 0 |
| morex | ETI | 0.398607 | 0.993311 | 0.576606 |
| morex | LEA | 0.955338 | 0 | 0 |
| morex | EPI | 4.34321 | 0.716006 | 3.05005 |
| morex | ROO | 0 | 0.35878 | 0.329912 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.427896 | 2.31081 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0.899634 | 0.432818 | 1.1058 |
| morex | INF2 | 0.443696 | 0.641409 | 0.00000000534242 |
| morex | CAR5 | 0.558588 | 0 | 1.10666 |
| morex | CAR15 | 0.38779 | 0.418667 | 0.586958 |
| morex | LEM | 2.49518 | 0.285245 | 1.5768 |
| morex | LOD | 0.65337 | 0.748599 | 0 |
| morex | PAL | 0.759108 | 0.447586 | 0.367183 |
| morex | SEN | 0 | 2.99369 | 2.18557 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os06g07760.1 | +2 | 1e-45 | 120 | 60/68 (88%) | protein|sulfiredoxin-1, putative, expressed |
| TAIR PP10 | AT1G31170 @ ARAPORT AT1G31170.4 @ TAIR |
+2 | 2e-33 | 89 | 41/53 (77%) | Symbols: SRX | sulfiredoxin | chr1:11133521-11134686 FORWARD LENGTH=198 |
| BRACH PP3 | Bradi1g47970.2.p | +2 | 6e-55 | 125 | 62/68 (91%) | pacid=32792060 transcript=Bradi1g47970.2 locus=Bradi1g47970 ID=Bradi1g47970.2.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 (634 bp)
>BART1_0-u50476.004 634 150831_barley_pseudomolecules GATCGATGCGACGCTCCGACACGTTAAGCAGAGCAGTAAACGGAAGCAGCAGCGGCAGCA CGAGCGCGACCACGAATGGCGTCTACCTCGAGCTTGGATTTGGGAAAGATCGTGCCGCCG GCCGGCTTCCTCCTCCACCGCCGCACCGCCGTTCCCAGCGCCCCTGTTCTCCGGGGGAGG AGCACGAGCGGGCAGTGCGGCCTCGCTGTCTCGGCCTCGTCTTCCAATGGTAGGTGCAGC TGGCCTCTTCCCATTGAGCGACACGGAGAAGAAAGGCCCTGTGGTGATGGAGATCCCGCT GGAAGATATCCGTAGGCCGCTAATGCGAACGCGTGCTAACGATCCTGAGAAGGTGCAGGA GCTCATGGACAGCATCCGTGTCATCGGCCTCCAAGTACCTATCGACGTGCTGGAAGTCGA CGGAGTCTACTACGGTAGTTTTGTTCAGATCTCAATTGGTCATTCCCCACTCCAAAAGCT ATACCCATTTCCCTCTTCCTGAATATGCCTGCACATGATCCTCAGGATTCTCTGGATGCC ATCGATACGAGGCTCACCAGCGCCTAGGACTCCCAACCATCCGCTGCAAAGTCCGCCGAG GGACCAAAGAAACACTGCGGTGAGCCGATATTCC
Protein Sequence (166 aa)
>BART1_0-u50476.004 166 150831_barley_pseudomolecules IDATLRHVKQSSKRKQQRQHERDHEWRLPRAWIWERSCRRPASSSTAAPPFPAPLFSGGG ARAGSAASLSRPRLPMVGAAGLFPLSDTEKKGPVVMEIPLEDIRRPLMRTRANDPEKVQE LMDSIRVIGLQVPIDVLEVDGVYYGSFVQISIGHSPLQKLYPFPSS