- Transcript BART1_0-u14163.001
- Transcript IDBART1_0-u14163.001
- Gene IDBART1_0-u14163
Barley RTD
Exon Structure of BART1_0-u14163.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 677022138 | 677021848 | + |
| chr2H | 2 | 677024530 | 677022916 | + |
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 | 2.60212 | 2.56243 | 3.72087 |
| morex | ETI | 30.3511 | 33.0888 | 35.4218 |
| morex | LEA | 7.39031 | 12.8748 | 7.00199 |
| morex | EPI | 6.5386 | 3.16849 | 4.09206 |
| morex | ROO | 0.38203 | 0.607297 | 0.151361 |
| morex | ROO2 | 0.296557 | 0.619977 | 0 |
| morex | NOD | 4.18345 | 5.15161 | 5.79792 |
| morex | RAC | 0.928452 | 2.76687 | 2.82617 |
| morex | INF1 | 8.55367 | 7.54603 | 8.82521 |
| morex | INF2 | 10.803 | 10.1099 | 11.2804 |
| morex | CAR5 | 8.91498 | 5.4954 | 7.80529 |
| morex | CAR15 | 0.482699 | 0 | 0.350486 |
| morex | LEM | 12.331 | 11.3355 | 8.41855 |
| morex | LOD | 2.01542 | 4.07484 | 0.96235 |
| morex | PAL | 6.27013 | 7.95681 | 8.13413 |
| morex | SEN | 18.5801 | 5.279 | 7.50259 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os04g47020.1 | +3 | 2e-168 | 485 | 271/352 (77%) | protein|genetic modifier, putative, expressed |
| TAIR PP10 | AT4G11570 @ ARAPORT AT4G11570.2 @ TAIR |
+3 | 1e-61 | 209 | 96/197 (49%) | Symbols: | Haloacid dehalogenase-like hydrolase (HAD) superfamily protein | chr4:7004743-7005864 FORWARD LENGTH=373 |
| BRACH PP3 | Bradi5g18060.7.p | +3 | 7e-180 | 516 | 278/340 (82%) | pacid=32810154 transcript=Bradi5g18060.7 locus=Bradi5g18060 ID=Bradi5g18060.7.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 (1906 bp)
>BART1_0-u14163.001 1906 150831_barley_pseudomolecules GCACACCCCCTCCCCACCTCGCCCGGTGTAGGCACGCACACGCTGACAAAGGGCCCCTCG CCCCTCGTGTCCCAGCTGCCATGGACACGGAGCGGCCGCCGCGAGGGCCAATGGACGAGG CAGCCGGCCGCATTATTGCCTATCCGGATGGGAGGCCATCCCCACCATCCAAGGGAAGAA GCGCCGGGCACCGAGCGAGCCGTGCGGGGGCGCCTCCTCTACTCCCTCCCCACTCCCGCC GATGCTCTTCAGCTCCACCTCCGACCTCCGCATCATCTTCTTCTTCCACGGGTGAAGTGT TCAGCTATGCTTCTCGTTGACCAGTCACACTTGAACTGAATCGACTTTGCTGCGAAGTGC TTGACAGTTTCAGTGAAAGTGTAGAGGACTTAGCAATGATCTCATCCATCAGCTTACTTG ACAGTTCCCACCAGCTCATTCAGAAACTGTACAGAAAATGCTGGCCAAGTAACTCAAATT CCAAACTGAACATGCATGCAACCGCGAAATCTGGGGGTAAGAGCATGAGGGTGAAGATGG CACTTCTGAAGCCCCATGCAACTGACTTCAAGAGGAATCATCAAGCCCACGAGGAAGACA ATGTGTTTTACAAATTAGTTTATAGGCTCCCTGAAAGCCTTAGCTGTCTGTACACCAGTC AAAAACCAGTCAGAAAGAAGAAACAACAGAAGCAAGGAACTGTGTCCAGTAACCGGTTTG GTGTGATCTTGGAGTGGGAGGGAGTTGTTGTGGAAGATGATGACCCGGACCTGGAGCCCC GAGTGTGGTATGTATTATCACTTGAAGAGGCGAAGTCTTTCCCTCCGGATGAAACGCTGA AGAAAATCGAGGGAATGAGAACTGATCAGGCCATCTCAGAAGTCTTAAGTTGGTCGAAAG ATCGACAAGAAATCGAAAGGTTAGCAGCACGTAAGGAGGTCATATATCAGAAACTCCGAG GTACTTTCTATCAGCTGCGGCCAGGTGTTCTCGACTTCTTGAACACCCTTGTGGATTCTG ATATTCCAATAGCAGTAACAGCTTCTCGCCCCAGAATGAGCCTGGAAGAAAGCATAAAAG CCGTTGGTCTGCAAGGCTATTTCGATGTCATAGTGGCGGCGGAGGACTTCCACCGAGGGA AACCCGAGGGTGAGATTTTTGAGGTTGCAGCAGACCAGCTTGGTCTTGAGCCTGATGTCT GTCTTGTGATGGGTAGCTCAAACTTGACGACGCAGTCTGCACATACTGCTGGGATGAGGT GTGTGGCGGTTGCAAGCCGGCACCCTGCCTATGAACTTCATGCAGCAAACCATGTTGTGA GATGGCTCGATCAACTCTCTGTTGTTGACCTGCAGAGGCTCGCCAATGGCGAGGTTCTTG GGCGCAGGGGCAGACAATCTGACATGGACATGGAGATTGTGATCGAGGAGTGATGTTTCT GCAGGCACTTATCTACTACTAATATATAACTGTGTTGTAACTTCAGTACTGCATTACATT TTGTGACAGACCAAGTAGTGTAACACGTAACAGATCAGCGTTCACTTCTTGTTTTCTTGT AATGCATAACTGAAACTCAGTTAGCTTAGATGCTTTCAATCATCAGAAAGGAGTTGGAAG CGAAGAAACTTTCCACATTGCAAGTCTTTTGCTGTGCGGTACATATACTACCTCTTATAT TTTGTTCCCCTGGCCATTTCAGAGATGAACGTTGGGGTTTTTTAGTGCTATATTGGTGAG TGACGATTAACTGAAAATATGTGGAAAATGCTTTATTTACAGAAAGTGTTGGCAATAATC ATGTCACATGCATTAAAGTCCTAATCAGCAGGGAGTATATGCGATGTTTGAGATTGCATG AGCTAGCTCTACGTGTTGTAGTAGCATTGGAGTTGTCTGTATGTTT
Protein Sequence (345 aa)
>BART1_0-u14163.001 345 150831_barley_pseudomolecules MISSISLLDSSHQLIQKLYRKCWPSNSNSKLNMHATAKSGGKSMRVKMALLKPHATDFKR NHQAHEEDNVFYKLVYRLPESLSCLYTSQKPVRKKKQQKQGTVSSNRFGVILEWEGVVVE DDDPDLEPRVWYVLSLEEAKSFPPDETLKKIEGMRTDQAISEVLSWSKDRQEIERLAARK EVIYQKLRGTFYQLRPGVLDFLNTLVDSDIPIAVTASRPRMSLEESIKAVGLQGYFDVIV AAEDFHRGKPEGEIFEVAADQLGLEPDVCLVMGSSNLTTQSAHTAGMRCVAVASRHPAYE LHAANHVVRWLDQLSVVDLQRLANGEVLGRRGRQSDMDMEIVIEE