- Transcript BART1_0-u33637.008
- Transcript IDBART1_0-u33637.008
- Gene IDBART1_0-u33637
Barley RTD
Exon Structure of BART1_0-u33637.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 84465569 | 84465563 | + |
| chr5H | 2 | 84473806 | 84473681 | + |
| chr5H | 3 | 84474019 | 84473884 | + |
| chr5H | 4 | 84476025 | 84475935 | + |
| chr5H | 5 | 84478810 | 84477550 | + |
| chr5H | 6 | 84479142 | 84478916 | + |
| chr5H | 7 | 84480117 | 84479843 | + |
| chr5H | 8 | 84480655 | 84480237 | + |
| chr5H | 9 | 84480831 | 84480728 | + |
| chr5H | 10 | 84483365 | 84483169 | + |
| chr5H | 11 | 84483994 | 84483785 | + |
| chr5H | 12 | 84490180 | 84489727 | + |
| chr5H | 13 | 84491799 | 84491518 | + |
| chr5H | 14 | 84493110 | 84492482 | + |
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 | 0.856168 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0.706726 | 0.64586 |
| morex | EPI | 0 | 1.39835 | 0.476056 |
| morex | ROO | 0 | 0.376322 | 0 |
| morex | ROO2 | 0.532396 | 0.181592 | 1.27852 |
| morex | NOD | 0 | 0.603897 | 0 |
| morex | RAC | 1.41254 | 0.232649 | 0.267608 |
| morex | INF1 | 2.05305 | 2.01411 | 5.30327 |
| morex | INF2 | 3.02862 | 3.018 | 4.55311 |
| morex | CAR5 | 0.909119 | 0.401212 | 1.61173 |
| morex | CAR15 | 0.846902 | 0 | 1.75345 |
| morex | LEM | 0 | 0.487337 | 0.742579 |
| morex | LOD | 1.90867 | 0.99246 | 0.412271 |
| morex | PAL | 0.36585 | 0.713825 | 0 |
| morex | SEN | 0.697562 | 0.747425 | 0.381554 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g38740.1 | +3 | 0.0 | 794 | 379/537 (71%) | protein|Dicer, putative, expressed |
| TAIR PP10 | AT3G03300 @ ARAPORT AT3G03300.3 @ TAIR |
+3 | 1e-177 | 365 | 215/546 (39%) | Symbols: DCL2 | dicer-like 2 | chr3:768020-774833 REVERSE LENGTH=1388 |
| BRACH PP3 | Bradi1g15440.3.p | +3 | 0.0 | 840 | 407/537 (76%) | pacid=32792175 transcript=Bradi1g15440.3 locus=Bradi1g15440 ID=Bradi1g15440.3.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 (4418 bp)
>BART1_0-u33637.008 4418 150831_barley_pseudomolecules ACCAAAGCATTTAAAAGTCCTCAAGGCAAATCTACATGGATCGTCTCGGAAAAATGCGAA GAAAGGGATATCAAAATTACACAAGGCATTCTTATATTGCACGGCTAATCTTGGAGTATG GCTAGCGGCAAAGGCTGCTGAGATACACTCAACAACTAACGAACAATTCTTATCTTTCTG GGGTGAAGAACTGGATAAGAATGTTGAAGGCTTTGTTAGAAGCTATAGTGAAGAAGTATA CAGGGAACTCTCATGTTTTTCAGAGAGAGGTCATATTGGTAAAGATTTTGAAGCTGATTT GCAAGATGGGTTATTGACACCTAAAGTTCATTGTCTTGTTCAGTTTCTTCTGGAATACAG GTACATATAATTGTGACCACACAAGTATTGGAGGAGGGGCTGAATGTGCCAGGTTGTCAC TTAGTAATTCGCTTTGATCCACCAACGACTGGGCGCAGCTTTATACAGTCACGTGGTCGA GCTCGGATGCCAAACTCTGAATATGTTTTACTTGTTAGAAGGCACGTCCTTCGATTTTTG TTGCTATTTTTTTGTTTCCAGCGCAAATTTTATTTAATTGTTCATCTTCATGCAAATTAA AATCTTTGTCTTCTGTATTGTGGACATTATCCACCTCTTTTCCCACTTCATCAGTTGAAT ATGATGTGCTCAGTATATAATCCTTGGTCACTAGTACCAGTAAATTGTTGTTTACCTATA TTACTCAGTGTGTTCCGTTTATCAGTTGAATTGTTTATATTGGATTAAGCATACTGGGCT GGGTGTTAAATGCTAGTGTTCACTTACTATTGTGAGATGACTTGATGTGACTGCCGGTAT GACTCCAAATCCTGATATGGTCAAACCTGAAACAATTGATAAATGCCAAGTTCAAAAGCC ACTTGTTTGCTTTTTCATTAAGAATCTAAAATTGACTAGTGTTTCCTAGTGTTCACTTAA TATTGCAAGTTGGCGTGATGTGAGTGCCGTTATGATACCAAATCCTGATATGTTTTCCTG TCAGATCTGTATGGAAACCGCAGGTAACCATAACATGATAAGGATCTGTTTTCAATCGAG ACAACTGTTCATATTTGAGTAGAAAACCGTCCGACTTTTTGCTCGGTTATTGGTGGAAAC TAGTCAGCACTTATGATTATTGTCAGTGAGCTGTGAATTCTATTCCTACTGATTACATTT CTCTATTTAGCTATACAAAAAATGTGGACTCGTGCTACAGTGGAAAAATCGCTATACTCA AGTTGTCTTAAGTTGATTTATTAGTACAGTTTCCTCTTGTATTGCAAAAAAACCCTACTT TACCTTTGTTCTCATCATCACTTCTAGCTCTTTTTGGCATGCTACGTAACATGATGATGC AATGCTTGTGTTTCTGTATCAGGGGGGATGCAGAGGCCCTCTCTAAGACAGTGAAGTTCC TTGCAAGCGGGCAAATGATGCGGGAAGCATCTCTGAAGCTTGCATCTACTATGTGTCAAC CACTAGAAAACACCTTGTTGCAGGGAGAATATTACCGTGTTGAATCTACTGGAGCAACCG TGACTATGAACTCAAGTGTCCAGTTGATTTATTTTTTCTGCTCGAAGCTCCCATCTGATG AATACTTTACACCTCTTCCGAGATTCATTATTGACAAGGAACTACGTACTTGCACCTTGT ACCTTCCCAATAGCAGCCCTGTGCAGACTGTTAATGCAGAAGGAGAAGTTTCTGCCCTCA AAAAGGCAGTTTGTCTTAAGGCCTGCCGAGAATTACACGCTGTCGGCGCCCTAACAGATT ATCTGTTACCAGAATTTGGTTTTCCATGTGAAGAAGAACCCGACATTGTTGTTGAGAAAT ACCAACACGAGCAGCCTGTGTACTTCCCAGAGGAATTTGTGTACAATTGGTCATCCTTTT CTCGTCTTGGAATATATTATTGCTATAAGATTTCAGTAGAAGGGTGCTTGAAAACAACTT ATTGTCCAAATGACATACTTCTAGCTGTGAAATGTGATTTGGGACCAGAGTTTGTCTCTA CCTCACTTCAATTGTTTGGTGCGCAAGATAATGCTAGTCTTGCCATGAAATATGTGGGAA TCATTCATCTGAATCAAGAACAGGTAGTTATGGCCAGAAGGTTTCAGACTACTATTCTTT CTTTGCTTATTAATAAAGACCATTCTGAGGTCAGTAATGCTGTTAAATACTCCCATGAGA TGCAAGTGTCCATTGGAATTGTCTACCTGCTGCTACCCTTAGTTTCTGGCAAAGTTGATT GGTGCAGTATCAAGTTCTCGACCTCGCAAGTGTATGTTGGCAGTAACAAGGATATCAGAC ATTGCCATTCTTGTAAACAAGTTGATTTACTGCAAACAAAAGATGGTCCTCTGTGCAGAT GCATGCTTGAAAGTTCCATTGTTTGCACCCCTCATAATAGCAAATTCTATGCTGTTAATG GGTTCCTTGACTTAAATTCCAAATCTCTTCTGCACCTTCGTGATGGCAGTGCCCTTACCT ACATAAACTATTTCAAGACTAGGCATGGACTCAGTCTAACACATGAAAATCAACCCCTGT TGGCAGCCAGGAGTCCTGTTGAAGTGCGGAATTTCCTCCACAAGCGCCATTATAAAAATA AAAAAGAATCGTGCACTTCACATGGTGTTGAGTTGCCACCTGAGCTCTGCAGACTAGTCA TGTCACCAGTCTCTACTAATACTTTGTACAGCTTCTCGATTATTCCTTCTGTAATGTACC GCATCCAGTGTCTGCTTCTTTCTGCAAAGTTGAAAGATCAACTGGGCCCAATAATGCAGC AGTTTGCCATACCAGCTCTGAAGATTCTAGAAGCAGTAACAACCAAGGAATGCCAAGAGG AATTTTCACAGGAATCATTAGAAACCCTTGGGGATTCTTTCCTCAAGTACATCGCCACGC AACATCTGTATGTCAAACACAAGCTTCAGCATGAGGGGACATTAACCAAGATGAAGAAAA ACTTAATCTCGAATGCAGCTCTATGCCAGCTGGCCTGCAACAACAATCTTGTGGTGCTAG ATAACATTAGTTCCCCTTGTGTTTGGTTGCCAGGGTTACATTCAAGGGGAAGAGTTTAAC CCAAAAGGTTGGATCATTCCAGGGCTTGGTTATGACATGTGTGGTAACAGCAAATTTTCC TTTTTAAGCTCCAATGATATGCACACTTTGAGGAAAATGTCTGTTAGAAGTAAGAGAATA GCAGATACAGTTGAGGCATTGATTGGAGCCTACCTTGGTGCTGCGGGAGAACAGGCTGCA TTTGTTTTCCTAAAATCATTAGGATTGGATATAGGATTTCACAGCACTATTCCACTTGAA AGGAAGATTGTATTAAAATCTGAAAAGTTCATCAACGTGAGAAGTTTGGAAATGATTCTT GGTTATGAGTTCAAGGATACTTCATTGTTGGTGGAAGCATTGACACATGGGTCATACCAG ACTGCTGGCACTACTGCATGCTATCAGAGGCTTGAGTTTCTCGGAGACGCTGTGTTGGAC CATCTCTTCACTATATATTTCTACAATAAGTACCCTGAATGTACTCCAGAATTGTTGACA GATCTTAGATCTGCTTCCGTTAACAACAATTGCTATGCGCATGCAGCTGCTAAAGCAGGA CTAAACAAGCACATTCTTCATTCGTCATTGCCATTGCACGGAAGGATGGCTTACTACTTT GAGAATTTTACTAAGCACCGATTTACAGGTCCATCACATGGTTGGGAAGCTGGCATTGGT CTACCCAAGGTTCTTGGGGATGTTATTGAATCATTAGCCGGTGCCATTTATCTTGACAGC AAGTATGACAAAGAGGTGGTTTGGAGAAGCATGAAAAAGCTATTGGAGCCTCTTGCGACA CCGGAGACGGTTGAGCGTGACCCAGTGAAACTGCTGCAGGAATTTTGTGATCGCAGGTCT TATAGCAGGTCTTACACAAAGGTCCAGAAAGATGGAGTGTCTTCGGTGGTTGGGGAGGTA CAGGTAGAAGGGACTACCTACTCAGCAACTGGAACTGGCCCTGATAAGGTTGTCGCAAAA AAGCTTGCAGCGAAGTTGCTGCTAGAAGATCTGAAGGCTATAGTACCATGACACGCTTGC ATTTGCAGATGATGCAATACTGTATAGCTCCTTCCGACTTCACTTGTATTGTGACTAGCC TGTAGGTAGCCTTTTGAAGTTTTTGTGGGAGTATGCGTGTACTTGACAAATGTGCAGCTC AATCATTGCTTGTGAATATTCAGACTATTGAACTGCACATCTGTGAAGTACGGGCATCGT CTCTCAGAACCATGGTACAGACGATAATGCTACAGTATCCTTAGACTTCTACTTGTACAG TTGTAAGCACAATCTTGAGTGGAAAGCTGGAATATCTT
Protein Sequence (586 aa)
>BART1_0-u33637.008 586 150831_barley_pseudomolecules MLRNMMMQCLCFCIRGDAEALSKTVKFLASGQMMREASLKLASTMCQPLENTLLQGEYYR VESTGATVTMNSSVQLIYFFCSKLPSDEYFTPLPRFIIDKELRTCTLYLPNSSPVQTVNA EGEVSALKKAVCLKACRELHAVGALTDYLLPEFGFPCEEEPDIVVEKYQHEQPVYFPEEF VYNWSSFSRLGIYYCYKISVEGCLKTTYCPNDILLAVKCDLGPEFVSTSLQLFGAQDNAS LAMKYVGIIHLNQEQVVMARRFQTTILSLLINKDHSEVSNAVKYSHEMQVSIGIVYLLLP LVSGKVDWCSIKFSTSQVYVGSNKDIRHCHSCKQVDLLQTKDGPLCRCMLESSIVCTPHN SKFYAVNGFLDLNSKSLLHLRDGSALTYINYFKTRHGLSLTHENQPLLAARSPVEVRNFL HKRHYKNKKESCTSHGVELPPELCRLVMSPVSTNTLYSFSIIPSVMYRIQCLLLSAKLKD QLGPIMQQFAIPALKILEAVTTKECQEEFSQESLETLGDSFLKYIATQHLYVKHKLQHEG TLTKMKKNLISNAALCQLACNNNLVVLDNISSPCVWLPGLHSRGRV