- Transcript BART1_0-u05042.005
- Transcript IDBART1_0-u05042.005
- Gene IDBART1_0-u05042
Barley RTD
Exon Structure of BART1_0-u05042.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 501617123 | 501616289 | - |
| chr1H | 2 | 501617385 | 501617276 | - |
| chr1H | 3 | 501618080 | 501617967 | - |
| chr1H | 4 | 501618560 | 501618447 | - |
| chr1H | 5 | 501619133 | 501618955 | - |
| chr1H | 6 | 501619865 | 501619229 | - |
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 | 2.0167 | 1.84595 | 6.09034 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 4.74411 | 2.44159 | 0 |
| morex | EPI | 0 | 0 | 0.230026 |
| morex | ROO | 0 | 3.2648 | 3.93902 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 25.7355 | 0 | 0.000816828 |
| morex | RAC | 0 | 0.326664 | 0 |
| morex | INF1 | 3.72381 | 1.66305 | 0.903843 |
| morex | INF2 | 2.43797 | 2.1045 | 3.20604 |
| morex | CAR5 | 5.64985 | 8.39804 | 10.5867 |
| morex | CAR15 | 0.527345 | 0.31 | 0.129234 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0.336792 |
| 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_Os08g06280.7 | +3 | 4e-59 | 196 | 117/123 (95%) | protein|LSD1 zinc finger domain containing protein, expressed |
| TAIR PP10 | AT1G32540 @ ARAPORT AT1G32540.1 @ TAIR |
+3 | 4e-53 | 181 | 105/122 (86%) | Symbols: LOL1 | lsd one like 1 | chr1:11768253-11769591 FORWARD LENGTH=187 |
| BRACH PP3 | Bradi3g16400.3.p | +3 | 9e-60 | 197 | 118/123 (96%) | pacid=32812785 transcript=Bradi3g16400.3 locus=Bradi3g16400 ID=Bradi3g16400.3.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 (1989 bp)
>BART1_0-u05042.005 1989 150831_barley_pseudomolecules ATAAATTTTCACAGCGAACCGTTTGTAACTCGGGAAATGACAAGAATTCTTATTAGAGTA GCTAACATGATGATGTACATGCTAATCCTAGTGTTTTTTTTCGCTTCTTTTCATTCCAAA ACCACATGTTGCTGCACAGGATTGTTGACGGAGATTTCTATAAACGAAAACGAAAGCAAA AAAAATTACACAGAACAGGATAGCGTAGTGAGTTTCGACGGGGCCCACATGGCATAGGGG ATAAGAAAGAGAATCCACGTTCCCAGCCACAGTGCCGTGCTTTACCTTATCTGCCGCATT CCAACTCATGTTGTTATTCTGAGCAAAACTCGACTCGCTCGCTCGTCTCGACATCTGCAC CGGATCGAGCTCAGCAAAGCCCGAGCCGGAGGCGCTCGTCTGCCCGGGGAGCGGCGCCAT GCGGGTCCGCCTCTTCCTCTGAACCGGGCAAGCGCGAGCCGCCTTCTTCCTCCGGCTCGG CGTCGGCGGCGACGACGAGCGTCGGTGGCGGCATAGCACGGTCCAGCGACGAGCAGGTGA TTCGGCGCCCAGCTCTGCTGCCGCGACGAGCGCTGAAGGCGGCTCTCCGTCTGTCTAATT TGACGCTCGATTTGCCTCAGGCCTGCACGGCTCAACTGATTTCATGTAGAGGAGGGCAAT CTGTTCTCATCCCCTCGACTTCCAGCAGAGCGTGCGAAGTCTCGTCCGCAGCAACGACGA CGCCGGCTCAGGCAGCCGCGGGCACGGCAATGCCGGTTCCTCTTGCCCCTTACCCAACTC CTCCTGCGCCCTTCACGCCACCCGCTCCCAATGCAGGGGCTCAAAGCCAACTTGTCTGCT CTGGGTGCCGGAATCTGCTCATGTATCCTGCCGGCGCAACGTCGGTATGCTGCGCGGTTT GCAGTACCGTGACCGCTGTTCCGGCTCCTGGGACCGAGATGGCGCAGCTAGTTTGCGGAG GATGCCACACTCTTCTGATGTACATACGTGGTGCCACAAGTGTACAGTGTTCTTGCTGCC ACACTGTCAACCTGGCAATGGAAGCGAATCAGGTTGCGCATGTAAACTGTGGGAGTTGCC GAATGCTGCTCATGTACCAGTACGGCGCAAGGTCCGTCAAATGTGCAGTCTGCAGTTTCG TGACATCAGTTGGGGCATCATCGGGTGCAGAGCAGAAGCCCAGCAACTGAAATCCTGCAA GTTCATTACGAAGGCAGCTTCCCGAAATAAGAATGCTTTGAGTGCACATGTATAGAGTTC TTCCCAGAAGCAACCTTTTCCTCCCCTCTCCATTTCTCCCTTCGTTGGACCTGGCGAGCT TGCGGAATAAACAAGAGTTTTTGGTAATACATAGTTGCTCAAAATTCGTCGAATCATCTG TGTAACTGGGTCAGACAGATACATGAACCCACCATGTTTATGTTCAAATTTAGCTTCTTT TACTTGTGTTCTATATATTTCAGATTTTTTTTCTTGTGGTCATCGGAAGAATTTCTTCAG ATGTGCTTTGCCGTGCGTATTCTTGAACCGATCTATATCACTGCAGACATGATCATGAAC ATGAACAGTTTACAAACACAGAAAAGTCCAAATGATGCATGGTTAGGGTGTGCAAACACA TCAGAGCTGATGTTGATTGCAAGGACACAGGATTGGGTGAGTGTGGGGCACCATCTCTCT GATTCTTGCCCAACTCTGAATCTACAGCCGATGGCATGTCCCAGCAAGCAAACAGCTTGT GGTGATCCGATGGCATGTCATGCATGATGCATCTGGTTTGACACTGAGAAGGACTGTCAG TCCATGACCACTCTATCAATGCACACAATAATTGCAAGGAAAGTTGTGCAGAAAGGTTTA GAGAACACAATGATGTAAAGGCAGGCATAGATGGCGCTCAGTCGCGTCAGCACTCAGTGC TAGTAACAGCTCAGAAACATACTCGTACTACTGAACAGCAGCATCACTATTCATGTGTTT TTTCCTGTT
Protein Sequence (122 aa)
>BART1_0-u05042.005 122 150831_barley_pseudomolecules MLRGLQYRDRCSGSWDRDGAASLRRMPHSSDVHTWCHKCTVFLLPHCQPGNGSESGCACK LWELPNAAHVPVRRKVRQMCSLQFRDISWGIIGCRAEAQQLKSCKFITKAASRNKNALSA HV