- Transcript BART1_0-u21412.004
- Transcript IDBART1_0-u21412.004
- Gene IDBART1_0-u21412
Barley RTD
Exon Structure of BART1_0-u21412.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 469768493 | 469768162 | + |
| chr3H | 2 | 469768956 | 469768572 | + |
| chr3H | 3 | 469769267 | 469769062 | + |
| chr3H | 4 | 469770408 | 469770331 | + |
| chr3H | 5 | 469770817 | 469770618 | + |
| chr3H | 6 | 469772874 | 469771473 | + |
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 | 6.32875 | 4.35428 | 5.45379 |
| morex | ETI | 7.41214 | 11.5017 | 9.18719 |
| morex | LEA | 5.83906 | 3.66082 | 4.80237 |
| morex | EPI | 12.6524 | 12.7517 | 9.25334 |
| morex | ROO | 11.8184 | 5.92786 | 4.04144 |
| morex | ROO2 | 25.9927 | 31.4284 | 29.737 |
| morex | NOD | 12.7251 | 13.023 | 9.78935 |
| morex | RAC | 22.4244 | 22.4474 | 21.5155 |
| morex | INF1 | 12.911 | 10.8524 | 7.6239 |
| morex | INF2 | 7.8906 | 0.993185 | 10.2117 |
| morex | CAR5 | 9.07755 | 7.16643 | 2.51137 |
| morex | CAR15 | 2.01791 | 4.08677 | 1.74388 |
| morex | LEM | 40.2395 | 42.3093 | 49.3007 |
| morex | LOD | 51.6123 | 56.3358 | 39.3615 |
| morex | PAL | 43.7829 | 31.5602 | 30.1695 |
| morex | SEN | 8.40682 | 14.1579 | 11.4438 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g48190.1 | +3 | 3e-85 | 273 | 164/251 (65%) | protein|drought induced 19 protein, putative, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g46240.5.p | +3 | 2e-111 | 340 | 200/225 (89%) | pacid=32778881 transcript=Bradi2g46240.5 locus=Bradi2g46240 ID=Bradi2g46240.5.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 (2603 bp)
>BART1_0-u21412.004 2603 150831_barley_pseudomolecules CCCCGGCCGCGTTCACCAGAAAAAAATACTAAAAAACAAACCCTCCCCCGCGGCTCCACC CTCCGCAACCAACCACGCAACGCGACACCTCTCCCTCCCCCTTCATCTCTTTTTACCCCG TGACGAACGAGCGAGCCCACCAGAACCCACCACCGCGACGCGGTTTCCCTCCCTCCCTCC CGCAGTTAACGTCGCGCACTCACCGCGGCCCAACCCACCACCGCCGGCCGGGACCCGGAC GCCCCGTGCGCCCACTCGTCATCGCCCTACCACCATTCCGACCCCGACGCCACGGGGTAG CTGTCGGCCCGGCCGCTGCTGCTGACCGACCGAAGAAGCTTCCTCGTCGCCTCCTCCTCC TCCTCCTCCTCCTCCGTCAACCGAAAAATCCATCCCCCTTTGAGGTCCTGGGTCACTGCC GCGCTAAGCAACACGGCCAACCGCAGCGCGAATCCCCCGAAGAAAAAGGCTTCGTTTCGG GAACCGCCGCCCGTCGTTGGTCTCTCGCTGTCGGAGTTCGGCGGCGGAGGGAGACGGAGC GACGGGTCTAGGTGGTGTAGCTGAGGAGGTGAGGACCGGCGGAAGCGGCTGGCTGAGTAA GCGGACCAAGAGGAGTTCCGGAAGAGGAATCCATTCCAATCATGGACTCGGAGCACTGGA TCTCGCGCCTCGCCGCCGCCAAGCGCTTCTACGCCGCGCAGCTCGGCCACATCGACGATA TGGCGGGGATGGGGATGGGGATGGGGATGGAGGAGGTGGACATGGACATGGAGGACGACG GGGAGATGGACATGGAGATGGAGATGCAGCTGGAGGAGGCAAGATGGCCGGAGGTCGCCT GCCCCTACTGCTACGAGGACTACGACCTCGGCTCCCTCTGCGTCCACCTCGAGGAGGACC ACCCCTACGAGCCACACCCCGCGCCTTGCCCCATCTGCTCTGAAAAGATTACAAGAGATA TGCTAAATCATATCACCATGCATCACGGTTACTTGTTCAAGGCGCTTCTAGGAGGCGGTC ATAGTCATAGGTCAAGGAACACCACCACCACCACTACAAATATTTATGCTGATCCGCTGC TTTCATCGTTTGGCCTGGGCTTTGCAACATCAGATGCCGAGGAGCCATCAAAATCATCAG TTCCGGTTCTTGATGATACTTCACTTCTTAAGGAGGCGCCTCCTCAACCTTGGGAATCAA GTATCGACTCGTCCCTCACAAGCGAGGAAAGGGAACAAAAGCGGAAACAAGCCACTAGCA GGGCGACCTTTGTGCAAGACCTGGTCCTCTCCACTTTATTTGGAGACGACTGAGTGCTCA AATGGCCCTACATTTTCCTTGTTAGATGGGTGCTTCCTTCACGCTGATTCAGATAGAACT GCAGCACTCTGCCTTGAGTTGGTCAATCTTAACTTGGGCGACAGGGAGAAGTGCGTCTGG TGGTGCACCGTTTCTTCGTGTCAGTCAAGTGCGGATTTTATTTGGGCTTGACACATACAC CTTAATTTATGGTAGCTTGTCCCGTATTTCTCTTTGTCGCCGCATTATCGGACAGCGGTT CCTTGCCTTGTACCATCCTTTTCATCGTCAAGGGACAATCGTCTGTACCAACATCACAGG GCTGTTACATACGCTACACAATGCAATGAGAAATATAGAAGTTCCACCTGTGTGGAAGAA ATAAGCAGAACTCAGGTCCTTGTATGTCACACAAGTGTTGTGCTATGGACAAGGAATGTG TGGTGAGGATGGTGTTGCTCTTTGTGTGAACGTTAACTGCTGTGGATTTCCACACGCTGA CAATGGTAACTGGCAATGGGAATTCCACGCTGAGTCGCTGAATGACTTTGTTCGTGTGAC TTTGAAACTTTGAATTCCATGCTGAATGACTTTGGAACTTTGAATTCCACGTGACTTTGA AACTTTGAGTTCCACGCTGAATGACTTTGGAACTTTGAATTCCACGCTGGCTGAACATGT ACGTTTTTGGTTGCCTGTTTTCTTCGTCGACTAGAAATGGGTCGCTCTCTTTCGTGGTCT CCTGAAAACACCATGGGAAAGAGATGAGACGCTGAAATTCGCTTTGCCACCAGAGTCACA AAGTTAGCGATGTATTTTTTGACATGGAAAGTCCAACGTTTTTCATGGCAATATTTATAG GCACGAGGACCACAAATTTACTTTACAACCGCGGCAATTTTCTGATAAAAAAAATACGGA TTTACCATGCTCGCCAACTGAACTTGTCATTCTCGATGAACATAACTTTTCATGAAAAAG TTTGATTTGCCATGCTTAAAATCTGACGTTCATTGGATATTCGGGTCCCTCTTCTATGTG TCCATACATATGTTTGAATGTGTGCGTGGACACTCTGCTTATCTCTCGTTGGAGAGGTAG AGAACGGTGTTCTTCATTCTTTTTTTCATACTTGTCCATCTTTTTTTTATCAAACTCGAC TTTTGAATTTGACATTGAAATAATTCAAACATAAATATTAGGATCCAAACATAGTTTCTA AATTACTAGTCTAAATTTAATTTCAATTTATTAAGGCACACATGATCTGTTTTTTTCCCG TGGGTCGTCCACAAATGCTCAAC
Protein Sequence (223 aa)
>BART1_0-u21412.004 223 150831_barley_pseudomolecules MDSEHWISRLAAAKRFYAAQLGHIDDMAGMGMGMGMEEVDMDMEDDGEMDMEMEMQLEEA RWPEVACPYCYEDYDLGSLCVHLEEDHPYEPHPAPCPICSEKITRDMLNHITMHHGYLFK ALLGGGHSHRSRNTTTTTTNIYADPLLSSFGLGFATSDAEEPSKSSVPVLDDTSLLKEAP PQPWESSIDSSLTSEEREQKRKQATSRATFVQDLVLSTLFGDD