- Transcript BART1_0-u27957.021
- Transcript IDBART1_0-u27957.021
- Gene IDBART1_0-u27957
Barley RTD
Exon Structure of BART1_0-u27957.021
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 166877905 | 166877540 | - |
| chr4H | 2 | 166878412 | 166878131 | - |
| chr4H | 3 | 166878989 | 166878690 | - |
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 | 0.0000771968 | 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 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| 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_Os11g47970.1 | +3 | 8e-100 | 302 | 162/253 (64%) | protein|AAA-type ATPase family protein, putative, expressed |
| TAIR PP10 | AT2G39730 @ ARAPORT AT2G39730.1 @ TAIR |
+3 | 2e-98 | 298 | 161/290 (56%) | Symbols: RCA | rubisco activase | chr2:16570951-16573345 REVERSE LENGTH=474 |
| BRACH PP3 | Bradi4g09125.2.p | +3 | 2e-127 | 372 | 195/291 (67%) | pacid=32783473 transcript=Bradi4g09125.2 locus=Bradi4g09125 ID=Bradi4g09125.2.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
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grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (948 bp)
>BART1_0-u27957.021 948 150831_barley_pseudomolecules ACAGCCCCATCATGATGAGTGCCGGAGAGCTGGAGAGTGGGAACGCTGGAGAGCCAGCCA AGCTCATCAGGCAGCGGTACCGTGAGGCTGCAGACATGATCAAGAAGGGTAAGATGTGCT GCCTCTTCATCAACGATCTTGACGCTGGTGCGGGTAGGATGGGCGGAACCACGCAGTACA CCGTCAACAACCAGATGGTGAACGCCACCCTGATGAACATCGCCGATGCCCCCACCAACG TGCAGCTCCCTGGCATGTACAACAAGGAGGAGAACCCCCGTGTGCCCATCGTCGTCACCG ACTTTTTCGGTGCTCTGCGTGCTCGGGTGTACGACGATGAGGTGCGCAAGTGGGTCGGCT CTACCGGAATCGAGAACATTGGCAAGAGGCTGGTGAACTCGCGGGACGGGCCCGTGACCT TCGAGCAGCCAAAGATGACAGTCGAGAAGCTGCTAGAGTACGGGCACATGCTCGTCCAGG AGCAGGACAATGTCAAGCGTGTGCAGCTTGCTGACACCTACATGAGCCAGGCAGCTCTGG GTGATGCTAACCAGGATGCGATGAAGACTGGTTCCTTCTACGGTAAAGGAGCACAGCAAG GTACTTTGCCCGTGCCGGAAGGTTGCACCGACCAAAATGCCAAGAACTACGACCCAACGG CAAGGAGCGACGACGGCAGCTGCCTTTACACCTTTTAAGCATGCCACTTTTAATATCTGA TGTTTTACCTACCTAAGTCCGCATCGCATCCAAGCGATTGCTGGGCATGTTTTGTTAATA TATCTCTAAATATATTGAGTATACCCATTTGGCAAAGACCAATACACCTACTTATCATTT GTCACTCTCAGTATTCATTCCTTCAGTGGAGACTCCTTCTGCTTTGTTGCAAACAGAACA AGAAAGTATTAATTTGAGCTTCAGCTTATTAATTATTATTGCACAAAC
Protein Sequence (231 aa)
>BART1_0-u27957.021 231 150831_barley_pseudomolecules SPIMMSAGELESGNAGEPAKLIRQRYREAADMIKKGKMCCLFINDLDAGAGRMGGTTQYT VNNQMVNATLMNIADAPTNVQLPGMYNKEENPRVPIVVTDFFGALRARVYDDEVRKWVGS TGIENIGKRLVNSRDGPVTFEQPKMTVEKLLEYGHMLVQEQDNVKRVQLADTYMSQAALG DANQDAMKTGSFYGKGAQQGTLPVPEGCTDQNAKNYDPTARSDDGSCLYTF