- Transcript BART1_0-u42531.009
- Transcript IDBART1_0-u42531.009
- Gene IDBART1_0-u42531
Barley RTD
Exon Structure of BART1_0-u42531.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 22237825 | 22237675 | + |
| chr6H | 2 | 22239292 | 22238862 | + |
| chr6H | 3 | 22239753 | 22239417 | + |
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 | 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_Os02g03040.2 | +2 | 1e-77 | 238 | 149/182 (82%) | protein|RNA recognition motif containing protein, expressed |
| TAIR PP10 | AT5G52040 @ ARAPORT AT5G52040.3 @ TAIR |
+2 | 6e-43 | 150 | 105/206 (51%) | Symbols: RS41, At-RS41 | RNA-binding (RRM/RBD/RNP motifs) family protein | chr5:21131791-21133318 FORWARD LENGTH=329 |
| BRACH PP3 | Bradi3g02226.1.p | +2 | 3e-87 | 263 | 161/177 (91%) | pacid=32814082 transcript=Bradi3g02226.1 locus=Bradi3g02226 ID=Bradi3g02226.1.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 (919 bp)
>BART1_0-u42531.009 919 150831_barley_pseudomolecules CTTCGAATAGGTTTGGGGAAGATCTGTTTATACAGCAACACCAACATGAGGCCAATTTTC TGCGGGAACCTTGACTATGATGCCCGCCAATCTGAAGTCGAGCGTCTTTTTGGCAAATAT GGAAGAGTGGAGCGAGTTGACATGAAGACAGGATTTGCGTTCGTCTACATGGAAGATGAA CGTGATGCTGAAGATGCTATCCGTAGACTTGATAGAACTGACTTTGGTAGAACAGGGAGG AGACTGAGAGTCGAATGGACAAAGGTGCGCAGTTGTAAACTAATAATAAAAGTCATCTCT CAGTAGCCTTATTTTTCTTAATATCCGTCGTCTATTATTTGTGTAGGAGGATCGCAGTGG TGGTCGGAAAGGAAATGGAAAGAGATCTCCAAGCAGCGTGAAACCAACCAAAACCTTGTT TGTGATCAACTTTGATCCAATCAACACAAGGACAAGAGATCTGGAGAAGCACTTTGATCT GTATGGCAAGATTGCAAATATCAGAATCAGAAGGAACTTTGCATTTGTCCAGTATGAAAC ACAGGAGGATGCTACTAAAGCTCTGGACGGTACTAATGGAAGGGTGATTTCTGTTGAGTA TGCGCTTCGTGACGATGATGAAAAAAGGAACGGGTACAGTCCAGACAGGAGAGGAGGCCG TGATAGGTCTCCTGACAGAAGGGACAATCGTGGTAGGTCGGCAAGTCCTTATGGCAGAGG GCGGGAAAGGGGCAGCCCAGACTATGGCAGGGGCAGGGAGAGGGGCAGCCCGGACTATGG CAAGGGCGGTGCCAGAGATAGTCCTGACTATGTCCGTGGTGGAAGCCCGTACGGCGGCAA AGGGGATGACAGGGCTAGCCCCAAGTATGACCGTGAACGCCGTGAAGCCAGTCCTGCCTA TGACAGGCGCCGCAGGTTC
Protein Sequence (101 aa)
>BART1_0-u42531.009 101 150831_barley_pseudomolecules LRIGLGKICLYSNTNMRPIFCGNLDYDARQSEVERLFGKYGRVERVDMKTGFAFVYMEDE RDAEDAIRRLDRTDFGRTGRRLRVEWTKVRSCKLIIKVISQ