- Transcript BART1_0-u29736.009
- Transcript IDBART1_0-u29736.009
- Gene IDBART1_0-u29736
Barley RTD
Exon Structure of BART1_0-u29736.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 483706600 | 483706533 | + |
| chr4H | 2 | 483706780 | 483706679 | + |
| chr4H | 3 | 483707346 | 483707226 | + |
| chr4H | 4 | 483712126 | 483711486 | + |
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 | 1.45953 | 0.374708 | 0.520784 |
| morex | ETI | 0 | 5.06059 | 0.401221 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 3.80342 | 5.66756 | 1.71298 |
| morex | ROO | 3.50574 | 0 | 0 |
| morex | ROO2 | 2.11098 | 3.20869 | 1.2715 |
| morex | NOD | 0.788104 | 0 | 8.44007 |
| morex | RAC | 1.62985 | 2.7583 | 1.07155 |
| morex | INF1 | 0.951737 | 0 | 0.712316 |
| morex | INF2 | 0.439338 | 0 | 0 |
| morex | CAR5 | 0.270781 | 0.311471 | 0.961728 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.720234 | 0.00538323 | 2.76679 |
| morex | LOD | 0 | 0 | 1.78509 |
| morex | PAL | 0 | 3.66348 | 1.58957 |
| morex | SEN | 3.58832 | 1.59305 | 1.03128 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g27320.1 | +3 | 5e-143 | 407 | 217/262 (83%) | protein|steroid binding protein, putative, expressed |
| TAIR PP10 | AT5G58220 @ ARAPORT AT5G58220.1 @ TAIR |
+3 | 4e-82 | 251 | 142/260 (55%) | Symbols: TTL | transthyretin-like protein | chr5:23554546-23555861 REVERSE LENGTH=324 |
| BRACH PP3 | Bradi1g60700.1.p | +3 | 1e-146 | 416 | 223/261 (85%) | pacid=32804008 transcript=Bradi1g60700.1 locus=Bradi1g60700 ID=Bradi1g60700.1.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
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grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (932 bp)
>BART1_0-u29736.009 932 150831_barley_pseudomolecules GTCACTACAGGTGGAGCAAGGAAGAGCAATCAGCTGCTCTTTCCACAGCCACTGATTCGA CTGCGCAGGAGTTGTCCGAGTGGAATGCCAAATACAGGGAGAAGTTTGGGTTCGTGTTCA TGATATGCGCATCTGGGAGGACTGCCCCTGAGGTCTTAGCTGAGCTTAAGAGGCGTTATG CAAATAGACCAGTTGTTGAGCTTGAGGCTGCGGCAGAGGAAGAACTGAAGATAACTGAGC TGCGTCTTGCAAAGCTTTTCGCATCAGAAACTGCTGCTCCCCCTACTTCAGATCGGATGC GGATTATTGGTGCACACCTTGGAGCTCTTTCCCAGCTTTCTGCCTATAAAGCTCCTGAAA TTACAGGCAACTCCAACCGGACACGCCCTCCTATCACAACCCATGTGCTGGACACGGCTC TTGGATCGCCAGCATCTGGAATTGAAGTTCACCTGGAGATGTGGAAGGACGCGTCAAGTA CCCCGTCATTTGACAACAAAGATTTCAAGGGATGGACAACCCTAGGCTCTTCGATTACAA ACAATGATGGACGCAGCGGTCAGCTGATGGACATCGTTGACAATGTCACTCCTGGTTTCT ACCGCATAAGTTTCAATACCTCCAAGTATGCACCGTCAGGGTTCTTCCCTTACGTGAGCA TCATATTTGAGATAAAAAGAAGCCAGGCGACCGAGCATTTCCATGTGCCTCTTTTACATT CTCCTTTTTCCTTTACCACTTACCGTGGCAGCTAAGCTGTCAATTTGTGTGTAAATCACA TCGAGTGATGGTATTGTTCTGAAACAAGCATAAATGGTCGTAAATCAGGGTGTTTAGATG TCACTGACATTGTGATATTTGAATAATAATGTTCCATGTAATAATAAGCTCGAGTATGCA GTGACATTGGATCAGTTTGTTTTCAATACTTT
Protein Sequence (250 aa)
>BART1_0-u29736.009 250 150831_barley_pseudomolecules HYRWSKEEQSAALSTATDSTAQELSEWNAKYREKFGFVFMICASGRTAPEVLAELKRRYA NRPVVELEAAAEEELKITELRLAKLFASETAAPPTSDRMRIIGAHLGALSQLSAYKAPEI TGNSNRTRPPITTHVLDTALGSPASGIEVHLEMWKDASSTPSFDNKDFKGWTTLGSSITN NDGRSGQLMDIVDNVTPGFYRISFNTSKYAPSGFFPYVSIIFEIKRSQATEHFHVPLLHS PFSFTTYRGS