- Transcript BART1_0-u34851.001
- Transcript IDBART1_0-u34851.001
- Gene IDBART1_0-u34851
Barley RTD
Exon Structure of BART1_0-u34851.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 280032568 | 280030790 | + |
| chr5H | 2 | 280032882 | 280032720 | + |
| chr5H | 3 | 280033483 | 280033320 | + |
| chr5H | 4 | 280034038 | 280033780 | + |
| chr5H | 5 | 280034773 | 280034140 | + |
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 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0.272078 | 0.398842 | 0 |
| morex | CAR5 | 0 | 0.12353 | 0.0166833 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os12g31000.1 | +2 | 0.0 | 652 | 358/523 (68%) | protein|pumilio-family RNA binding repeat domain containing protein, expressed |
| TAIR PP10 | AT1G22240 @ ARAPORT AT1G22240.1 @ TAIR |
+2 | 4e-115 | 364 | 176/319 (55%) | Symbols: APUM8, PUM8 | pumilio 8 | chr1:7853084-7854963 FORWARD LENGTH=515 |
| BRACH PP3 | Bradi4g07100.1.p | +2 | 0.0 | 786 | 410/507 (81%) | pacid=32788499 transcript=Bradi4g07100.1 locus=Bradi4g07100 ID=Bradi4g07100.1.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 (2999 bp)
>BART1_0-u34851.001 2999 150831_barley_pseudomolecules CGAACAGCTCACATGGTACTGCTAGCTCGTGGAACTCATTAACGTGGAAAAGGCGAAAAT AAATTTAGCAATAAGACGAACAGCTTCTTGCAAAAAAGAAAAAAGATGAACAGCTCACAT GGTAGTCGTGGAACTCATTGACATGGGAAAAGCGAAAATATCTCCTTGATCTTTTCTCTC AAGCTGAGGAGTCCGCAAAAATCTGGCTTGTCCGACACATACAATTGGACAAGGAAGCAG AAAGTGTGTATGAGGCAGCACAGCTTCCCCGTCCGAGTGTGCCAAAAAAGTGCAGGATCA TATGACTCACATCCTACATGCAATGGATAGATAGCCCAACCAACGCCTGCCCATCCTTCC CCTCCATTTGCAAATTTGGATCTTGTTCCATTCCAACAAATATCCTGCGCATGGGGAGAT ATTTTCTTTGCGCTGGCCAGGGTCACTCACAAGTGGGTCCCAAAGTGCACCGGATGTCTG CCTCTAGAGACCCAACAAAAGCGTATTTTAAGGGAGGGAAGAGGTCACTGGACGAGAGTG GGCCAAGTCATATGTGTGTGCAGCCAGAAATAGGTGTTTGTGAACCACCGAAGATATTTG GGCTGAGATATTATCTATTTTTGTATTTCCTTTTTTGTTTTCATTTTCGGAGTTGTAGTA GTAATAGAAATGTTTTTTAAGGGTCTAAATATCTGATGTTGAAATAAAAAGTCGGAAAGT GCTTACCCCAAAACAAGAAAATCAGACCAGGTAATAACCTTTCAAAAGAAAAGATTTAAA AGAAGAAGAAAAAAAGCACTCCTCTCACCGGCATCAGTCCTCACTACTTTCGCGCTATCC TTATATAAAAGCACCCCCTCTGCTCTCTCCTCCTCCCACTCCTGCATGCCTCAACGAACC ATCTCCAGGAAAACACCTCACCCCAATCCAACCCCAAACCAATCCTCTCCACAAACAAAT CTAACAGAATTCCCCCACTGATTTTCTCATCGAGATTCGATCAAGATAGTAGTTGGAGAT GAAGCTGGACAGGGAGATGGAGATGCTCCTCAACGAGATCCCTCTCCTCCTCCACGGCGA CGTCCTCGGCTGCAGCGAGCCAGCCGCCGCCGAGACCGACGCCGGCGCCGTCGACTTCGC TTATCTCATCCAAGAACTCGGCGAGATGGGGTTCGTCGAGGACGACGACGACGACGACAG TTTCCTTTACCCAAGGAAGGCCAGCTCATCTCCGACGAGCAACCTCCATTTCATGGACGC TGAGAATTTCGTGGCGTCGCATCCCTTCTCCATGGACAAAGACCGCGAGAGGGCTCTTTT CGATCCGTTTCCCTTCTCCAGCACCTGCTTCGACGCCGCCGTGGGCGACGACTGGGACCT CCTGTGTCGGCCGGTGAGGTCCCGGCTGTGCAAGACGGCGAGGCCGAAGAAGGGTACCTG CAGCAACGGCTGCCAGGCGACGAGCCCCAAGAAGTGCGCGGCGGCGAAGCCGTCCAAGTA CGAGAGCCTTGTCGGGCTGCGCGGGTACATGTACCACGTGGCCAGGGACCAGCACGGCTG CCGGTTCCTCCAGCAGCGGCTCGACGACGGCAAGCGCGAGGTCGATTTCATCTTCACCGG CGTCGCCCGTCACGCCGTCGACCTCATGGTGAACCCATTCGGTAACTACCTCATGCAGAA GCTGCTAGCCGTCTGCAGCGAGGAGCAGAGGATGGGCATCGTGCTGACCCTCACAAAGGA ACCCTTCGTGCTCGTCAGGATCTCTCTCAATGTACATGGGACAAGGGCGGTTCAGAAGCT GATTGAAAGCTTGAAGGCAAGGGAGGAGATTCAGCTCGTCGTCGCAGCTCTGCGCCCCGG GTTCCTGGAGCTCATAAAGGATCCTAATGGTAATCATGTCGTGCAGAAGTGCTTGCAATC GTTCGGGGCCGATGATAACAAGCCGATCTTCGATGCTGCTGCTATTTACTGCCTTGATAT TGGGATGCAATGCCATGGCTGCTGCGTCCTACAGCGGTGTATCGCGCGTTCGACTGGTGA GCACAAGGAGAAGCTGGTTGCCGCGATCGCTCGCAATGGGTTCGAACTTGCACAGGATGC CTATGGAAACTATGTTGTTCAGTATGTGATAGAACTAAAGGTCGCTGCTGCAAATGCAAG TCTGGCACAACAGTTTGAAGGCAAGTACATCCACCTCTCCATGCAGAAGTTCAGCAGCAA CGTTGTCGAGAAATGCCTGAAAGTTTTCAAGGAAGCTGACAAAGCGAACATCATCCTGCA GCTCCTTGCTGCGCCGCAGTTCGAGCGGTTGCTTCTGCACCCTTACGCAAACTATGTAGT CTACGCAGCACTTCAGAATTCCAAGGGCTCTCTACACTCTGCACTGACCAACGCGATCCG GCCTCACGTGGAGCTACTCAGGACCAGCCCATACTGCAAGAGGATCTACTCTCGAGCTTT GCTGAAAAAGTGATGGTCTGATGAGACCATCTCACCATGTGTAACAATAAAGATAGTTTG TCTTGTGCTATTTTTTCGGATTCAAAAGGGATAAAAGTGATCTCACCATGTAGATCTTGT ATAGATCAAAATTTATTTGGTCATGTACTTCTATGTGCACCTTTATTTGATGCACTCTTC CGTTGCCATAATCCATCTGGAATGGTAAGTTCCGATCTAACAAATCGTCATATAGATGTT GATGCACGTACACAATATTGGTGATGTTTCTTGTAACTTAATGTTTGCATTTTTTTTTGC CCTGCAATTGCTCAACCGAATGCCAAAACATGAAGGCAAATAACTGATTTGCAGTCTAAG GAAAGTTACGTGTGACTTTTTCGTAATACATCACAGCACATACTTACTAAGTATGTGGAA AGAGGAAATCACGATTAAAATTTCATTATATTTTACACAACAAGAACACAACACGAACTT TCAAAGGGAAACGTTATAAATCATCCGACAGATCGCAGGCTGGCGATCGCCTTCTTCTC
Protein Sequence (484 aa)
>BART1_0-u34851.001 484 150831_barley_pseudomolecules MKLDREMEMLLNEIPLLLHGDVLGCSEPAAAETDAGAVDFAYLIQELGEMGFVEDDDDDD SFLYPRKASSSPTSNLHFMDAENFVASHPFSMDKDRERALFDPFPFSSTCFDAAVGDDWD LLCRPVRSRLCKTARPKKGTCSNGCQATSPKKCAAAKPSKYESLVGLRGYMYHVARDQHG CRFLQQRLDDGKREVDFIFTGVARHAVDLMVNPFGNYLMQKLLAVCSEEQRMGIVLTLTK EPFVLVRISLNVHGTRAVQKLIESLKAREEIQLVVAALRPGFLELIKDPNGNHVVQKCLQ SFGADDNKPIFDAAAIYCLDIGMQCHGCCVLQRCIARSTGEHKEKLVAAIARNGFELAQD AYGNYVVQYVIELKVAAANASLAQQFEGKYIHLSMQKFSSNVVEKCLKVFKEADKANIIL QLLAAPQFERLLLHPYANYVVYAALQNSKGSLHSALTNAIRPHVELLRTSPYCKRIYSRA LLKK