- Transcript BART1_0-u42835.010
- Transcript IDBART1_0-u42835.010
- Gene IDBART1_0-u42835
Barley RTD
Exon Structure of BART1_0-u42835.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 34891732 | 34891718 | + |
| chr6H | 2 | 34892153 | 34891926 | + |
| chr6H | 3 | 34892456 | 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 | 34897291 | 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 | 1.01285 | 0.981541 |
| morex | ETI | 1.48599 | 2.778 | 1.58532 |
| morex | LEA | 1.21233 | 0.515026 | 2.03821 |
| morex | EPI | 0.552182 | 2.02448 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0.751305 |
| morex | NOD | 1.97775 | 1.51584 | 0 |
| morex | RAC | 0.751256 | 0.867106 | 1.84056 |
| morex | INF1 | 0.951991 | 0.686785 | 0.526714 |
| morex | INF2 | 0.329404 | 1.44862 | 1.85599 |
| morex | CAR5 | 2.64743 | 1.37849 | 3.78707 |
| morex | CAR15 | 0 | 1.02666 | 0 |
| morex | LEM | 0 | 0.418815 | 0.886582 |
| morex | LOD | 3.21591 | 0.00000895782 | 2.19048 |
| morex | PAL | 0.00000410415 | 0 | 0.928594 |
| morex | SEN | 0 | 1.14817 | 1.46953 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g03690.1 | +2 | 0.0 | 565 | 262/307 (85%) | protein|beta-amylase, putative, expressed |
| TAIR PP10 | AT5G45300 @ ARAPORT AT5G45300.2 @ TAIR |
+2 | 2e-164 | 388 | 181/289 (63%) | Symbols: BMY2, BAM8 | beta-amylase 2 | chr5:18353636-18356696 FORWARD LENGTH=687 |
| BRACH PP3 | Bradi3g02800.2.p | +2 | 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 (2117 bp)
>BART1_0-u42835.010 2117 150831_barley_pseudomolecules CCCCCGGCCCAATTCCAGGGTGCTTTCCAGGCCACTTCTCTGGAAACCCCAGTTTTTACC AACTCTCTGAACAGCTATGCCGTTGGGACGCCATTAGATTCCCAGGCTTCAGCCCTACAA ACAGATGATAGCCTGTCACCGTCGTCATTGGACTCAGTCGTGGTGGCAGAGCAATGCATA AAGAATGAGAGCTTTGGGAATTCAAGTTCAGCCAATTCTTTGAACTGTATGGGTAGTGAT CAGCTATTGAGAGCATCAGCAGTATGGGCGGGTGATTACACGAAAACTCCATATATACCA TTATGGGCATTATCAATTGTTATTGCCAACTGGTTGATCCTGAGGCTGTACGTGCTGAAC TAAGGCATCTGAAATCTTTGAATGTTGATGGAGTTATTGTTGACTGTTGGTGGGGGATTG TAGAAGCCTGGACTCCTCAAAAGTATGAATGGTCTGGCTACAGGGACCTTTTTGGTATCA TTAAAGAGTTCAAGCTAAAAGTTCAGGTTGTGTTATCATTTCATGGGTCTGGGGAGTGTG GATCTGGTCCTGTGTTAATTGCTCTTCCTAGGTGGGTAATGGAAATTGCACAAGAGAACC AAGATATATTTTTTACCGATCGAGAAGGTAGGAGGAATACAGAATGCCTCTCCTGGGGAA TTGACAAAGAGCGTGTCCTTCGAGGGAGAACTGGCATCGAGGTATTGGGTCATCCTTGGT TTATTTTGATTTCATGAGGAGCTTTCATATGGAATTCAGAACCCTATCTGAAGAGGGTCT TATTTCTGCTATTGAGATTGGATTGGGTGCTTCTGGAGAGCTAAGATACCCTTCGTGTTC AGAAAAAATGGGCTGGAGATATCCTGGTATTGGTGAGTTTCAGTGTTATGACAGGTATAT GCAAAAGAACCTACGGCAATCAGCCTTGACACGGGGGCATTTGTTTTGGGCCCGTGGGCC TGATAATGCTGGCTACTATAATTCAAGGTCACACGAGACTGGCTTTTTTTGTGACGGAGG TGATTATGACAGCTACTATGGGCGGTTCTTCCTTAATTGGTATTCTGGAATCCTTATAGA TCATGTGGATCAGGTGCTCTCACTTGCTACTCTTGCATTTGATGGAGCAGCAGTTGTGGT GAAGATCCCCTCCATCTATTGGTGGTACAGAACTGCAAGCCATGCTGCAGAGCTTACTGC AGGATTCTACAACCCTACAAATCGAGATGGATACTCTCCAGTTTTCAGAATGCTCAAGAA GCATTCCATAATTCTTAAAGTGGTTTGTTATGGCCCAGAATTTACAGTTCAGGAGAATGA TGAAGCACTTGCTGATCCAGAAGGTTTAACCTGGCAGGTTATGAACGCAGCATGGGATCA TGGTCTATCTGTAAGTGTAGAGAGTGCTCTTCCATGTCTTGACGTGGACATGTACTCTCG GATCCTTGACACAGCAAAGCCGAGGAATGATCCTGACCGACACCATCTCTCATTCTTTGC ATACCGTCAGCGAACTCCATTCCTTTTGCAGAGAGATGTGTGCTTCTCAGAGCTTGAGAC CTTCGTAAAGTGTATGCACGGGGAGGCTATCCAGAACTTTGTAGATTGAACTTGCTTTGG CGACGCATTCCCTGTTATGTTGCAGCTCGCGTTCTGCAAATTTCCGGATTCCCTGCGTAG CTATCACAAGCTTTAACTCATATTGCTGATTGCTGCGTTCCGGCCATCCCCGCCTTTGCT ATGGGTCAGCTAACCAGATGGCACTGAAACTGTTGTGCTGGTGGTGGGCAAGGATTAGCA TCCCTTATCTGTGGTACAGGGCTGATAGTTCAGCAAGTTTTTACCGTGGTGTGACCTAGC TTGGGCTAGAAAGATGGAAAGAATGGCGATGTATATATCTAATAGTACTACACTATCATG CTCTAAGATGCAAAGAAAGCGTCTGAATTCTCCATGGTAAGCTGCTCGATGACAAGTGCT TGCAGTGGGTTTCCGAGGGATTCCTTGAACTCGCTTTTCCCTTTCTATTTTCCTTTGAAC CTTATTGGGACATTTGTATTTCCGTTATGAAAGTAATGGAAAGGGGTTATGCCCAGCTCA AAAAAAAATAAAATCTC
Protein Sequence (291 aa)
>BART1_0-u42835.010 291 150831_barley_pseudomolecules MRSFHMEFRTLSEEGLISAIEIGLGASGELRYPSCSEKMGWRYPGIGEFQCYDRYMQKNL RQSALTRGHLFWARGPDNAGYYNSRSHETGFFCDGGDYDSYYGRFFLNWYSGILIDHVDQ VLSLATLAFDGAAVVVKIPSIYWWYRTASHAAELTAGFYNPTNRDGYSPVFRMLKKHSII LKVVCYGPEFTVQENDEALADPEGLTWQVMNAAWDHGLSVSVESALPCLDVDMYSRILDT AKPRNDPDRHHLSFFAYRQRTPFLLQRDVCFSELETFVKCMHGEAIQNFVD