- Transcript BART1_0-u29736.001
- Transcript IDBART1_0-u29736.001
- Gene IDBART1_0-u29736
Barley RTD
Exon Structure of BART1_0-u29736.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 483706263 | 483705742 | + |
| chr4H | 2 | 483706465 | 483706392 | + |
| chr4H | 3 | 483706600 | 483706543 | + |
| chr4H | 4 | 483706780 | 483706679 | + |
| chr4H | 5 | 483707382 | 483707226 | + |
| chr4H | 6 | 483712253 | 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 | 2.54783 | 10.5508 | 9.00898 |
| morex | ETI | 9.37246 | 13.0609 | 15.5073 |
| morex | LEA | 8.04367 | 4.21372 | 3.47935 |
| morex | EPI | 8.65634 | 10.5932 | 3.86416 |
| morex | ROO | 0.000000893223 | 4.70413 | 2.88634 |
| morex | ROO2 | 24.5877 | 21.4874 | 20.1124 |
| morex | NOD | 9.56307 | 19.0847 | 20.4901 |
| morex | RAC | 22.5917 | 23.2738 | 24.001 |
| morex | INF1 | 12.1596 | 16.9887 | 11.6998 |
| morex | INF2 | 16.8151 | 15.2807 | 15.6959 |
| morex | CAR5 | 6.48299 | 11.7891 | 17.0628 |
| morex | CAR15 | 3.93327 | 5.08978 | 4.3713 |
| morex | LEM | 14.9272 | 13.1524 | 12.1476 |
| morex | LOD | 15.5873 | 16.1717 | 15.422 |
| morex | PAL | 22.7061 | 18.8226 | 21.7882 |
| morex | SEN | 9.54994 | 8.67304 | 10.8232 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g27320.1 | +1 | 7e-162 | 465 | 284/335 (85%) | protein|steroid binding protein, putative, expressed |
| TAIR PP10 | AT5G58220 @ ARAPORT AT5G58220.1 @ TAIR |
+1 | 4e-91 | 283 | 167/321 (52%) | Symbols: TTL | transthyretin-like protein | chr5:23554546-23555861 REVERSE LENGTH=324 |
| BRACH PP3 | Bradi1g60700.1.p | +1 | 3e-177 | 504 | 292/333 (88%) | pacid=32804008 transcript=Bradi1g60700.1 locus=Bradi1g60700 ID=Bradi1g60700.1.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 (1681 bp)
>BART1_0-u29736.001 1681 150831_barley_pseudomolecules TCTCAGTGATGCAGTAAAATATGGTCATCTCCATTGAAAATTACGAAAAAAAATTCGTTG CAATGTACGGGCCTTTTGTTAGTAAGTGTAAGTGCTTTTATATTAGTTTACGGAGGGAGT ATTTAGAAAGCGTAGGGAGTACTTAGTATTTAGATCGGTAAATTCACCTTCGTCTTACCC TTCCGGCAAAAACAGGTGTTGCTCTCGTAGCGCTCGCTCTCACCCACCCTTCCCCAACTC GCATCCAGCGCCGCAACCCCTCGTCTCTCCCCCCCTTCCGATCTGAGGCGTCGTTGGAGA TCGGCGGCAACCGAAGAGGCGTCCGACGACGGCCGTCGCGGGTGGCACCAGTGCAGTGGA GCAAATCAACCAGTTGAGATGGCGACATTGAGGCCGCTGAGCGTGGAGGAGGTGCTGAGG GTGAACGGCAGCCACCGCTTTGCCGCCGCGCTGGCTGCCGCCTCCCCCTTTGATTCTCTT GCCAACGCGCTCCTTGCCGCCCGCCGCATCTGGCTGAACGAGGTGGACGTGACTGGATGG CTGGAGGCCTTCGCTGCCCACCCACCCATCGGAAGCACCTCCTCCTCCGTCTCCAAGTGG AGCAAGGAAGAGCAATCAGCTGCTCTTTCCACAGCCACTGATTCGACTGCGCAGGAGTTG TCCGAGTGGAATGCCAAATACAGGGAGAAGTTTGGGTTCGTGTTCATGATATGCGCATCT GGGAGGACTGCCCCTGAGGTCTTAGCTGAGCTTAAGAGGCGTTATGCAAATAGACCAGTT GTTGAGCTTGAGGCTGCGGCAGAGGAAGAACTGAAGATAACTGAGCTGCGTCTTGCAAAG CTTTTCGCATCAGAAACTGCTGCTCCCCCTACTTCAGGTGAAAATCAGATTAGCCAACCG GATAAAGCAGCAGATCGGATGCGGATTATTGGTGCACACCTTGGAGCTCTTTCCCAGCTT TCTGCCTATAAAGCTCCTGAAATTACAGGCAACTCCAACCGGACACGCCCTCCTATCACA ACCCATGTGCTGGACACGGCTCTTGGATCGCCAGCATCTGGAATTGAAGTTCACCTGGAG ATGTGGAAGGACGCGTCAAGTACCCCGTCATTTGACAACAAAGATTTCAAGGGATGGACA ACCCTAGGCTCTTCGATTACAAACAATGATGGACGCAGCGGTCAGCTGATGGACATCGTT GACAATGTCACTCCTGGTTTCTACCGCATAAGTTTCAATACCTCCAAGTATGCACCGTCA GGGTTCTTCCCTTACGTGAGCATCATATTTGAGATAAAAAGAAGCCAGGCGACCGAGCAT TTCCATGTGCCTCTTTTACATTCTCCTTTTTCCTTTACCACTTACCGTGGCAGCTAAGCT GTCAATTTGTGTGTAAATCACATCGAGTGATGGTATTGTTCTGAAACAAGCATAAATGGT CGTAAATCAGGGTGTTTAGATGTCACTGACATTGTGATATTTGAATAATAATGTTCCATG TAATAATAAGCTCGAGTATGCAGTGACATTGGATCAGTTTGTTTTCAATACTTTTATCCA TTGCTATTTGTGATTGGGTGGCCTTGAGTGTGGTATTACATCTCTACTTCAGATTTGACA TGTCGCATACTTTAGGCTAGTCATAATGGGGAGTGTCATGTATCTATGTGACATTGGTCC A
Protein Sequence (332 aa)
>BART1_0-u29736.001 332 150831_barley_pseudomolecules MATLRPLSVEEVLRVNGSHRFAAALAAASPFDSLANALLAARRIWLNEVDVTGWLEAFAA HPPIGSTSSSVSKWSKEEQSAALSTATDSTAQELSEWNAKYREKFGFVFMICASGRTAPE VLAELKRRYANRPVVELEAAAEEELKITELRLAKLFASETAAPPTSGENQISQPDKAADR MRIIGAHLGALSQLSAYKAPEITGNSNRTRPPITTHVLDTALGSPASGIEVHLEMWKDAS STPSFDNKDFKGWTTLGSSITNNDGRSGQLMDIVDNVTPGFYRISFNTSKYAPSGFFPYV SIIFEIKRSQATEHFHVPLLHSPFSFTTYRGS