- Transcript BART1_0-u42835.001
- Transcript IDBART1_0-u42835.001
- Gene IDBART1_0-u42835
Barley RTD
Exon Structure of BART1_0-u42835.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 34891732 | 34891700 | + |
| chr6H | 2 | 34892153 | 34891929 | + |
| chr6H | 3 | 34892472 | 34892398 | + |
| chr6H | 4 | 34893434 | 34893231 | + |
| chr6H | 5 | 34894059 | 34893848 | + |
| chr6H | 6 | 34894525 | 34894361 | + |
| chr6H | 7 | 34895187 | 34894927 | + |
| chr6H | 8 | 34896103 | 34895891 | + |
| chr6H | 9 | 34896414 | 34896192 | + |
| chr6H | 10 | 34897441 | 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 | 4.25897 | 4.22611 | 2.40606 |
| morex | ETI | 2.81755 | 1.96172 | 4.09301 |
| morex | LEA | 3.32461 | 3.61788 | 3.56233 |
| morex | EPI | 2.2963 | 2.48514 | 5.11015 |
| morex | ROO | 4.42407 | 1.70577 | 1.37059 |
| morex | ROO2 | 2.74384 | 2.93547 | 1.14456 |
| morex | NOD | 1.43926 | 3.30697 | 6.70136 |
| morex | RAC | 5.11849 | 3.56465 | 2.49205 |
| morex | INF1 | 8.94432 | 8.496 | 8.07399 |
| morex | INF2 | 9.95649 | 12.0632 | 10.0723 |
| morex | CAR5 | 2.68092 | 4.25717 | 1.6667 |
| morex | CAR15 | 0 | 0.0012126 | 1.48782 |
| morex | LEM | 4.48993 | 2.00173 | 0.992059 |
| morex | LOD | 2.28503 | 3.58347 | 1.32175 |
| morex | PAL | 2.80013 | 3.86608 | 1.44573 |
| morex | SEN | 3.31775 | 2.26218 | 2.04408 |
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 | 565 | 262/307 (85%) | protein|beta-amylase, putative, expressed |
| TAIR PP10 | AT5G45300 @ ARAPORT AT5G45300.1 @ TAIR |
+3 | 3e-172 | 388 | 181/289 (63%) | Symbols: BMY2, BAM8 | beta-amylase 2 | chr5:18353636-18356696 FORWARD LENGTH=689 |
| BRACH PP3 | Bradi3g02800.2.p | +3 | 0.0 | 580 | 271/309 (88%) | 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 (2298 bp)
>BART1_0-u42835.001 2298 150831_barley_pseudomolecules NNNNNGCCCCCTCTCCCTCCCCCGGCCCAATTCGGTGCTTTCCAGGCCACTTCTCTGGAA ACCCCAGTTTTTACCAACTCTCTGAACAGCTATGCCGTTGGGACGCCATTAGATTCCCAG GCTTCAGCCCTACAAACAGATGATAGCCTGTCACCGTCGTCATTGGACTCAGTCGTGGTG GCAGAGCAATGCATAAAGAATGAGAGCTTTGGGAATTCAAGTTCAGCCAATTCTTTGAAC TGTATGGGTAGTGATCAGCTATTGAGAGCATCAGCAGTATGGGCGGGTGATTACACGAAA ACTCCATATATACCATTGTACGCCTCTTTGTCTATGGGCATTATCAATTGTTATTGCCAA CTGGTTGATCCTGAGGCTGTACGTGCTGAACTAAGGCATCTGAAATCTTTGAATGTTGAT GGAGTTATTGTTGACTGTTGGTGGGGGATTGTAGAAGCCTGGACTCCTCAAAAGTATGAA TGGTCTGGCTACAGGGACCTTTTTGGTATCATTAAAGAGTTCAAGCTAAAAGTTCAGGTT GTGTTATCATTTCATGGGTCTGGGGAGTGTGGATCTGGTCCTGTGTTAATTGCTCTTCCT AGGTGGGTAATGGAAATTGCACAAGAGAACCAAGATATATTTTTTACCGATCGAGAAGGT AGGAGGAATACAGAATGCCTCTCCTGGGGAATTGACAAAGAGCGTGTCCTTCGAGGGAGA ACTGGCATCGAGGTATTGGGTCATCCTTGGTTTATTTTGATTTCATGAGGAGCTTTCATA TGGAATTCAGAACCCTATCTGAAGAGGGTCTTATTTCTGCTATTGAGATTGGATTGGGTG CTTCTGGAGAGCTAAGATACCCTTCGTGTTCAGAAAAAATGGGCTGGAGATATCCTGGTA TTGGTGAGTTTCAGTGTTATGACAGGTATATGCAAAAGAACCTACGGCAATCAGCCTTGA CACGGGGGCATTTGTTTTGGGCCCGTGGGCCTGATAATGCTGGCTACTATAATTCAAGGT CACACGAGACTGGCTTTTTTTGTGACGGAGGTGATTATGACAGCTACTATGGGCGGTTCT TCCTTAATTGGTATTCTGGAATCCTTATAGATCATGTGGATCAGGTGCTCTCACTTGCTA CTCTTGCATTTGATGGAGCAGCAGTTGTGGTGAAGATCCCCTCCATCTATTGGTGGTACA GAACTGCAAGCCATGCTGCAGAGCTTACTGCAGGATTCTACAACCCTACAAATCGAGATG GATACTCTCCAGTTTTCAGAATGCTCAAGAAGCATTCCATAATTCTTAAAGTGGTTTGTT ATGGCCCAGAATTTACAGTTCAGGAGAATGATGAAGCACTTGCTGATCCAGAAGGTTTAA CCTGGCAGGTTATGAACGCAGCATGGGATCATGGTCTATCTGTAAGTGTAGAGAGTGCTC TTCCATGTCTTGACGTGGACATGTACTCTCGGATCCTTGACACAGCAAAGCCGAGGAATG ATCCTGACCGACACCATCTCTCATTCTTTGCATACCGTCAGCGAACTCCATTCCTTTTGC AGAGAGATGTGTGCTTCTCAGAGCTTGAGACCTTCGTAAAGTGTATGCACGGGGAGGCTA TCCAGAACTTTGTAGATTGAACTTGCTTTGGCGACGCATTCCCTGTTATGTTGCAGCTCG CGTTCTGCAAATTTCCGGATTCCCTGCGTAGCTATCACAAGCTTTAACTCATATTGCTGA TTGCTGCGTTCCGGCCATCCCCGCCTTTGCTATGGGTCAGCTAACCAGATGGCACTGAAA CTGTTGTGCTGGTGGTGGGCAAGGATTAGCATCCCTTATCTGTGGTACAGGGCTGATAGT TCAGCAAGTTTTTACCGTGGTGTGACCTAGCTTGGGCTAGAAAGATGGAAAGAATGGCGA TGTATATATCTAATAGTACTACACTATCATGCTCTAAGATGCAAAGAAAGCGTCTGAATT CTCCATGGTAAGCTGCTCGATGACAAGTGCTTGCAGTGGGTTTCCGAGGGATTCCTTGAA CTCGCTTTTCCCTTTCTATTTTCCTTTGAACCTTATTGGGACATTTGTATTTCCGTTATG AAAGTAATGGAAAGGGGTTATGCCCAGCTCAAAAAAAAATAAAATCTCCATGATGCCGAA ACATCTTTCTAGACTACGACTGAAATTTGGACTGTCTGAGCTGAGGTTAGGTCTGAAATG GTTGTTAGTACTCTGGGAGCTTGTATATAGTATTTTGTTGATCCTAACTTTCCATACCAA CAAAATCCAATGAGCACC
Protein Sequence (291 aa)
>BART1_0-u42835.001 291 150831_barley_pseudomolecules MRSFHMEFRTLSEEGLISAIEIGLGASGELRYPSCSEKMGWRYPGIGEFQCYDRYMQKNL RQSALTRGHLFWARGPDNAGYYNSRSHETGFFCDGGDYDSYYGRFFLNWYSGILIDHVDQ VLSLATLAFDGAAVVVKIPSIYWWYRTASHAAELTAGFYNPTNRDGYSPVFRMLKKHSII LKVVCYGPEFTVQENDEALADPEGLTWQVMNAAWDHGLSVSVESALPCLDVDMYSRILDT AKPRNDPDRHHLSFFAYRQRTPFLLQRDVCFSELETFVKCMHGEAIQNFVD