- Transcript BART1_0-u26461.006
- Transcript IDBART1_0-u26461.006
- Gene IDBART1_0-u26461
Barley RTD
Exon Structure of BART1_0-u26461.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 13553293 | 13552714 | - |
| chr4H | 2 | 13554330 | 13554251 | - |
| chr4H | 3 | 13554582 | 13554412 | - |
| chr4H | 4 | 13555708 | 13555595 | - |
| chr4H | 5 | 13556062 | 13555903 | - |
| chr4H | 6 | 13556270 | 13556187 | - |
| chr4H | 7 | 13557718 | 13557579 | - |
| chr4H | 8 | 13560835 | 13559662 | - |
| chr4H | 9 | 13561248 | 13560935 | - |
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 | 0.37673 | 0 | 0 |
| morex | ETI | 0.283813 | 0.82449 | 0.1088 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0.33411 | 0.611696 | 0 |
| morex | ROO | 0 | 0.000000402236 | 0 |
| morex | ROO2 | 0.233824 | 0.568418 | 0.127078 |
| morex | NOD | 0 | 0.0000000101877 | 0.341229 |
| morex | RAC | 0.6774 | 0.473489 | 1.0195 |
| morex | INF1 | 0.295584 | 0.945686 | 0.628287 |
| morex | INF2 | 0.780517 | 1.8114 | 0.407256 |
| morex | CAR5 | 1.4126 | 1.36314 | 0 |
| morex | CAR15 | 0 | 0.540126 | 0 |
| morex | LEM | 0 | 0.325439 | 0.766839 |
| morex | LOD | 0.723847 | 0.196165 | 0.520586 |
| morex | PAL | 0.842096 | 0.905167 | 0.724686 |
| morex | SEN | 0 | 0.187335 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g29030.1 | +3 | 4e-49 | 109 | 58/120 (48%) | protein|retrotransposon protein, putative, unclassified, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g23634.2.p | +1 | 3e-45 | 167 | 84/140 (60%) | pacid=32774780 transcript=Bradi2g23634.2 locus=Bradi2g23634 ID=Bradi2g23634.2.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 (2817 bp)
>BART1_0-u26461.006 2817 150831_barley_pseudomolecules CTCGCCCATTTTCACTTGTCCTCGCGCTCGCGCGTACGCCTCGCTTTAGTTTCGTCTTCC TCGCTGCTCTTTTCTCCATTCAAAGCTCCAAGCCCCTTCTCCACCCCCACCCTAGCACAT CCTCCTCGACCGACGCCATGGTGTCGCCCTACCGAGCTCATTCCGAAGGTAAGCGCCTCT CCCCACATCCCATCCCTAACCCTACCCCCAACCCGGATCCTGACTCCGCCCCCTCCGGCC CGCCCCAGTCCACGACCCGATGCTGGACATGGTCTTCCAGGCGGCATCCGACAACGACCT CCCCCGCTTAAAGTCGCTGGTCGTGATGCTGGACTTGGGCAGGGGCCGCCCCAAGAAGGT GATTGAGGACTTGAGGGTGGAAGACGATCCCAAGCTTGAAGGTTTCAGCGCGCTGCACAT CGCGGCCAGGGGGAGCCTGGAGGTGTGCAGGTACCTCGTCGAGGAGCTGCTGGTGGATGT GGATCTGGTCGACAAGGAAGGTCCAACTATCTTCAAAACCCTAATCTTTCGGTGCAGGCT TCGTCGAATTGCATGGAGTGCCTATTTTACATGCTGGAATTTGTTGTTCGCTAGGGCTGC TTCATCTGTAGGTCAGGTCTCACGATATCCGACTGTTTTGTGCTTTCTCTGGGTTTGGCA TAGAGGTGCATTATGAGAGCCAGCTTTTGCCATGGCTCCAGGCTCAGCGCAACACAGTCC GGCAACCATAAACATAGCCTAAGATCATCTACGTCAGTATGAACCAATGTATCATAGGCA CCAATATTTTTCTCACCAAATAAAATCATGTTTTGTCATATCCTGTTGTGCTAACTCATG ATCATGCAGCTTTATACGGAAAAAGTCGGCCTTTTTAAGGAAGAAATAAGTCGGTCTTCA TTATGATACTGAATGTGAATACCCTACATAAGCACCGTTCATATAAATAATTAAATAGGC TACTCTTTGAGGGCAAATTAATGTTTATTTTAGGATAGTTTGGTTGTTTAGTTATTGCAC ACATGTATGCACCCCAGCTCTGAGGATGTATTTGATTCTTCTATTCGGGTAGTCGAATGT CTAATTTTCATGCGTCAGTTCCATTTAACCAATACTCTCTCGAGCATTATGAAAATCCTG CGTCATATCGTATCTAACTCGATGGGTCTACTTTGTTTGTCTTGGGGAGCCATATCTAAA TTCTATGCTCTCAGAGAAGACAGGGCAGTGTTAGGAAACTTCTGTGGTGGTATTCTTTTG GAGATAAGACATGCTTTGATACAAAAAAGATCTCATTTCTTGCTACGCTGAGAAGTGCTT TGATATAATTTCATTTTTGTGTGTTTGTTTGCTTTATAGGTAGAACACCTCTGTTTTTTG CAACATACTGCAATGGGGGTACTGCTGAGTATCTTCTTGATCATGGAGCTAATCCAGACA AAGCCGATAACAATGGGGGTTTCCTGTTACATTATGCTGCTGAAATAGGTAGTTGTGAAA TGGTAGAGCTTTTGCTTGCAAAAGGAGCTTACGTTGACCCGGTATGTGCTCGTGGAACAC CACTTCATATTGCTGCTGGTGGAGGGCAGTATGGTGCTATGAAGATTTTATTGGACCACA GTGCAGATTACAACAAGATGGTAGATGGTGTGACACCTCTTATGGCTGCTAAAGATGCCA ACTCAACGGAATGTATCAAGCTCCTAGTTAAGCTGTGGCATCCTGCAATTTGTGACCCCT TGTACCGGACACTTCCACAACCATTTAAAAAAAAACTTGTCGCATATTGAGGCTGGGGAG GACTTCTGCATATGTGCCATGTTGATATTAATAGTTACCTCAACATGGTACCGGTTTATG ACAATTTTGGTGGTTCAGAAGGAGCCTATGCTTAAACGAGAAATCACGGCATCAGAGCTT ATATCACTAGGGAGTATCTCTTTAAAGAAAAAAGATTATGTTGTCGCAGCAAAATTGTAC AGTCAGGCAATGCAGCTTGATCCTGGTGATGCAGTCTTGCTCTCAGACAGGAGCCTTTGT TGGCTTCACATGGGATATGGAAGAAAGGCTTTGCTAGATGCTAATCAATGCAGAAAAATG CGGCCTCTCTGGCCAAAAGCTTGTCGCCGGCAGGGTGAAGCTCTGATGCTACTGAAGGAC TATGAGGGTGCAAGTGAACGGTTCTTGGATGGACTCAAATTGGACCCAGTGGACACTGCT ATCGAGGATGCATTACGGGAAGCTATGAAGTCCTTGATGACGTCTCGGAGCACGAAAGCC AATTGACTATTTGCGTGTCGCAGGGAAATCAGCTGAAGACTTGAAACGGGTCAGGAGTTT CTCCATTTTGCGCAAAGACCGATTTCCTTTAGAAAGTAAAGCGACGTGTCTCATGGCCTG ATGAGAGTGTATTACCGTCGGCATGTTTTGTATGAGCATGACTGTTGATGCTTGCAGTAG TACCCCGCGGAAACTCGTCAGTTGCCATCTATCTGTCGTGTATTACAGGCTCTTATGTCA GGTATTTGGGTCTTCTGAAGCTCACTCGTCTGCCGCTCCTGGTGCAGCGTCCCCGAATGA TCGCAGCCTCTGCATTTGTCTTGTTGCGGTTTTGCTGAATTGCCTCCTGGCTCTGTAGTG TTTTAACTACTCAACGATGGTACAATGTAGTGAAGATGGAGATATCTTGTGTAGGTTTTC TTCGTCCTGTGGGTGCATAATTAGAGGAGCGTGATGTAGGCTAAGTTTTGGTAGCTGCTA TCCCGTCTTGTTTTCCTGACTTCAGCTGGTTGCTGTGTGGGCTCAATGGCATNNNNN
Protein Sequence (155 aa)
>BART1_0-u26461.006 155 150831_barley_pseudomolecules MLILIVTSTWYRFMTILVVQKEPMLKREITASELISLGSISLKKKDYVVAAKLYSQAMQL DPGDAVLLSDRSLCWLHMGYGRKALLDANQCRKMRPLWPKACRRQGEALMLLKDYEGASE RFLDGLKLDPVDTAIEDALREAMKSLMTSRSTKAN