- Transcript BART1_0-u42835.005
- Transcript IDBART1_0-u42835.005
- Gene IDBART1_0-u42835
Barley RTD
Exon Structure of BART1_0-u42835.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 34892153 | 34891704 | + |
| chr6H | 2 | 34892456 | 34892398 | + |
| chr6H | 3 | 34893434 | 34893231 | + |
| chr6H | 4 | 34894042 | 34893848 | + |
| chr6H | 5 | 34894525 | 34894361 | + |
| chr6H | 6 | 34895187 | 34894927 | + |
| chr6H | 7 | 34896103 | 34895891 | + |
| chr6H | 8 | 34896414 | 34896192 | + |
| chr6H | 9 | 34897323 | 34896755 | + |
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 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0.233391 | 0.207936 |
| morex | ROO | 0 | 0.547707 | 0 |
| morex | ROO2 | 0 | 0 | 0.546905 |
| morex | NOD | 0.521916 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0.658463 | 0.886692 |
| morex | INF2 | 1.45436 | 0.470315 | 0 |
| morex | CAR5 | 0 | 0.505663 | 0.579668 |
| morex | CAR15 | 0.60446 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0.460146 | 0 |
| morex | PAL | 0.507628 | 0 | 0 |
| morex | SEN | 0 | 0 | 0.41868 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g03690.1 | +3 | 0.0 | 808 | 375/428 (88%) | protein|beta-amylase, putative, expressed |
| TAIR PP10 | AT5G45300 @ ARAPORT AT5G45300.2 @ TAIR |
+3 | 0.0 | 587 | 271/422 (64%) | Symbols: BMY2, BAM8 | beta-amylase 2 | chr5:18353636-18356696 FORWARD LENGTH=687 |
| BRACH PP3 | Bradi3g02800.2.p | +3 | 0.0 | 848 | 396/430 (92%) | pacid=32818287 transcript=Bradi3g02800.2 locus=Bradi3g02800 ID=Bradi3g02800.2.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 (2339 bp)
>BART1_0-u42835.005 2339 150831_barley_pseudomolecules NGCCCCCTCTCCCTCCCCCGGCCCAATTCGTACGTGCGCCCTCTCCAGCCTCTTTTTTAC TGCCCTCATTACTCACCTAGCAGATGTTCGGATTTTGCTTGCTGGAGCAAAATCCACTTT CCGTACGATAATTCAAAACACTGTGAATGACAAATGTATCGATTTCACAAGAAATGATTC GCATTGCGACCATAACACATTCATGTTCTTATTTATGTGCAGCAGGGTGCTTTCCAGGCC ACTTCTCTGGAAACCCCAGTTTTTACCAACTCTCTGAACAGCTATGCCGTTGGGACGCCA TTAGATTCCCAGGCTTCAGCCCTACAAACAGATGATAGCCTGTCACCGTCGTCATTGGAC TCAGTCGTGGTGGCAGAGCAATGCATAAAGAATGAGAGCTTTGGGAATTCAAGTTCAGCC AATTCTTTGAACTGTATGGGTAGTGATCAGCTATTGAGAGCATCAGCAGTATGGGCGGGT GATTACACGAAAACTCCATATATACCATTATGGGCATTATCAATTGTTATTGCCAACTGG TTGATCCTGAGGCTGTACGTGCTGAACTAAGGCATCTGAAATCTTTGAATGTTGATGGAG TTATTGTTGACTGTTGGTGGGGGATTGTAGAAGCCTGGACTCCTCAAAAGTATGAATGGT CTGGCTACAGGGACCTTTTTGGTATCATTAAAGAGTTCAAGCTAAAAGTTCAGGTTGTGT TATCATTTCATGGGTCTGGGGAGTGTGGATCTGGTCCTGTGTTAATTGCTCTTCCTAGGT GGGTAATGGAAATTGCACAAGAGAACCAAGATATATTTTTTACCGATCGAGAAGGTAGGA GGAATACAGAATGCCTCTCCTGGGGAATTGACAAAGAGCGTGTCCTTCGAGGGAGAACTG GCATCGAGGTTTATTTTGATTTCATGAGGAGCTTTCATATGGAATTCAGAACCCTATCTG AAGAGGGTCTTATTTCTGCTATTGAGATTGGATTGGGTGCTTCTGGAGAGCTAAGATACC CTTCGTGTTCAGAAAAAATGGGCTGGAGATATCCTGGTATTGGTGAGTTTCAGTGTTATG ACAGGTATATGCAAAAGAACCTACGGCAATCAGCCTTGACACGGGGGCATTTGTTTTGGG CCCGTGGGCCTGATAATGCTGGCTACTATAATTCAAGGTCACACGAGACTGGCTTTTTTT GTGACGGAGGTGATTATGACAGCTACTATGGGCGGTTCTTCCTTAATTGGTATTCTGGAA TCCTTATAGATCATGTGGATCAGGTGCTCTCACTTGCTACTCTTGCATTTGATGGAGCAG CAGTTGTGGTGAAGATCCCCTCCATCTATTGGTGGTACAGAACTGCAAGCCATGCTGCAG AGCTTACTGCAGGATTCTACAACCCTACAAATCGAGATGGATACTCTCCAGTTTTCAGAA TGCTCAAGAAGCATTCCATAATTCTTAAAGTGGTTTGTTATGGCCCAGAATTTACAGTTC AGGAGAATGATGAAGCACTTGCTGATCCAGAAGGTTTAACCTGGCAGGTTATGAACGCAG CATGGGATCATGGTCTATCTGTAAGTGTAGAGAGTGCTCTTCCATGTCTTGACGTGGACA TGTACTCTCGGATCCTTGACACAGCAAAGCCGAGGAATGATCCTGACCGACACCATCTCT CATTCTTTGCATACCGTCAGCGAACTCCATTCCTTTTGCAGAGAGATGTGTGCTTCTCAG AGCTTGAGACCTTCGTAAAGTGTATGCACGGGGAGGCTATCCAGAACTTTGTAGATTGAA CTTGCTTTGGCGACGCATTCCCTGTTATGTTGCAGCTCGCGTTCTGCAAATTTCCGGATT CCCTGCGTAGCTATCACAAGCTTTAACTCATATTGCTGATTGCTGCGTTCCGGCCATCCC CGCCTTTGCTATGGGTCAGCTAACCAGATGGCACTGAAACTGTTGTGCTGGTGGTGGGCA AGGATTAGCATCCCTTATCTGTGGTACAGGGCTGATAGTTCAGCAAGTTTTTACCGTGGT GTGACCTAGCTTGGGCTAGAAAGATGGAAAGAATGGCGATGTATATATCTAATAGTACTA CACTATCATGCTCTAAGATGCAAAGAAAGCGTCTGAATTCTCCATGGTAAGCTGCTCGAT GACAAGTGCTTGCAGTGGGTTTCCGAGGGATTCCTTGAACTCGCTTTTCCCTTTCTATTT TCCTTTGAACCTTATTGGGACATTTGTATTTCCGTTATGAAAGTAATGGAAAGGGGTTAT GCCCAGCTCAAAAAAAAATAAAATCTCCATGATGCCGAAACATCTTTCTAGACTACGAC
Protein Sequence (429 aa)
>BART1_0-u42835.005 429 150831_barley_pseudomolecules MGIINCYCQLVDPEAVRAELRHLKSLNVDGVIVDCWWGIVEAWTPQKYEWSGYRDLFGII KEFKLKVQVVLSFHGSGECGSGPVLIALPRWVMEIAQENQDIFFTDREGRRNTECLSWGI DKERVLRGRTGIEVYFDFMRSFHMEFRTLSEEGLISAIEIGLGASGELRYPSCSEKMGWR YPGIGEFQCYDRYMQKNLRQSALTRGHLFWARGPDNAGYYNSRSHETGFFCDGGDYDSYY GRFFLNWYSGILIDHVDQVLSLATLAFDGAAVVVKIPSIYWWYRTASHAAELTAGFYNPT NRDGYSPVFRMLKKHSIILKVVCYGPEFTVQENDEALADPEGLTWQVMNAAWDHGLSVSV ESALPCLDVDMYSRILDTAKPRNDPDRHHLSFFAYRQRTPFLLQRDVCFSELETFVKCMH GEAIQNFVD