- Transcript BART1_0-u33573.005
- Transcript IDBART1_0-u33573.005
- Gene IDBART1_0-u33573
Barley RTD
Exon Structure of BART1_0-u33573.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 84450961 | 84450790 | + |
| chr5H | 2 | 84451442 | 84451339 | + |
| chr5H | 3 | 84451613 | 84451552 | + |
| chr5H | 4 | 84451907 | 84451787 | + |
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 | 0.660098 | 0 | 0.299018 |
| morex | ETI | 3.5173 | 1.39397 | 3.94196 |
| morex | LEA | 2.53736 | 0 | 0.168924 |
| morex | EPI | 0.74244 | 2.05516 | 2.16118 |
| morex | ROO | 0.255171 | 0.607443 | 0 |
| morex | ROO2 | 2.2423 | 1.26345 | 0.679848 |
| morex | NOD | 0.140356 | 3.09208 | 1.22575 |
| morex | RAC | 3.37285 | 5.67157 | 5.08247 |
| morex | INF1 | 3.34849 | 3.30879 | 4.21386 |
| morex | INF2 | 7.55815 | 1.51065 | 1.73861 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0.632802 |
| morex | LEM | 1.26814 | 0 | 1.69351 |
| morex | LOD | 4.75201 | 5.81616 | 1.45225 |
| morex | PAL | 3.19924 | 3.35024 | 3.71989 |
| morex | SEN | 0 | 1.08118 | 1.07571 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g38740.1 | +3 | 3e-52 | 114 | 57/90 (63%) | protein|Dicer, putative, expressed |
| TAIR PP10 | AT3G03300 @ ARAPORT AT3G03300.2 @ TAIR |
+2 | 5e-32 | 77 | 34/57 (60%) | Symbols: DCL2 | dicer-like 2 | chr3:768020-774525 REVERSE LENGTH=1374 |
| BRACH PP3 | Bradi1g15440.1.p | +3 | 6e-63 | 143 | 68/90 (76%) | pacid=32792173 transcript=Bradi1g15440.1 locus=Bradi1g15440 ID=Bradi1g15440.1.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 (459 bp)
>BART1_0-u33573.005 459 150831_barley_pseudomolecules CGCCGCAATCTGGCGCCGCGTGGTGGACGACGCCGAGGTGCTTGTCATGACGCCGCAGAT CCTCCTCGACAACCTCCGACACAGCTTCTTCCGCCTCCAGGACATCGCGTTGCTCATCTT CGACGAGTGCCACCGCGCCAAGGGCAACTCCCCGTATGCGTGCATTCTCAAGTTTACTTC CATTGTAGGAATTCTACCACCCTGTAATGAATTCTAGACCACGGGGCCCTCTGCCGAGGA TATTTGGGATGACTGCTTCGCCCACAGATGCAAAAAATCAGCTGCAAGAGAGCTATTCCA AACGAATCGTCGAACTGGAGAATCTATTGAACTCAAAGGTGTACACAGTTGACAATGAAT CGGCTTTATCGGAATATATACCATTTGCCACTACGAGGATTGTGGAGTACGATGATTCTA TCATCCCATCCAACTCACATAACCATATTAACAGTTGTT
Protein Sequence ( aa)
>BART1_0-u33573.005 150831_barley_pseudomolecules