- Transcript BART1_0-u50476.003
- Transcript IDBART1_0-u50476.003
- Gene IDBART1_0-u50476
Barley RTD
Exon Structure of BART1_0-u50476.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 50932604 | 50931911 | - |
| chr7H | 2 | 50932907 | 50932689 | - |
| chr7H | 3 | 50933968 | 50933808 | - |
| chr7H | 4 | 50934626 | 50934396 | - |
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 | 1.06975 | 0.58929 | 0.879571 |
| morex | ETI | 1.16267 | 1.19498 | 0.616259 |
| morex | LEA | 1.85422 | 3.12843 | 4.99301 |
| morex | EPI | 8.95496 | 15.3115 | 13.5999 |
| morex | ROO | 0 | 0.882861 | 0 |
| morex | ROO2 | 0.598799 | 0.38181 | 0.213538 |
| morex | NOD | 1.71516 | 1.3445 | 2.01859 |
| morex | RAC | 0.322261 | 0.63417 | 0.446054 |
| morex | INF1 | 0.877242 | 0.479818 | 1.09355 |
| morex | INF2 | 0.876259 | 1.7155 | 1.33374 |
| morex | CAR5 | 0.364964 | 1.35957 | 0.342111 |
| morex | CAR15 | 0.24197 | 0 | 0 |
| morex | LEM | 0.336538 | 1.5043 | 1.41473 |
| morex | LOD | 2.50201 | 1.67932 | 4.27349 |
| morex | PAL | 1.62148 | 1.47722 | 1.31795 |
| morex | SEN | 4.62023 | 5.06132 | 4.96775 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os06g07760.1 | +3 | 6e-52 | 143 | 84/118 (71%) | protein|sulfiredoxin-1, putative, expressed |
| TAIR PP10 | AT1G31170 @ ARAPORT AT1G31170.2 @ TAIR |
+3 | 2e-34 | 90 | 41/53 (77%) | Symbols: ATSRX, SRX | sulfiredoxin | chr1:11133521-11134228 FORWARD LENGTH=125 |
| BRACH PP3 | Bradi1g47970.2.p | +3 | 2e-59 | 168 | 92/113 (81%) | pacid=32792060 transcript=Bradi1g47970.2 locus=Bradi1g47970 ID=Bradi1g47970.2.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 (1305 bp)
>BART1_0-u50476.003 1305 150831_barley_pseudomolecules CAGATCGATGCGACGCTCCGACACGTTAAGCAGAGCAGTAAACGGAAGCAGCAGCGGCAG CACGAGCGCGACCACGAATGGCGTCTACCTCGAGCTTGGATTTGGGAAAGATCGTGCCGC CGGCCGGCTTCCTCCTCCACCGCCGCACCGCCGTTCCCAGCGCCCCTGTTCTCCGGGGGA GGAGCACGAGCGGGCAGTGCGGCCTCGCTGTCTCGGCCTCGTCTTCCAATGCTGGCCTCT TCCCATTGAGCGACACGGAGAAGAAAGGCCCTGTGGTGATGGAGATCCCGCTGGAAGATA TCCGTAGGCCGCTAATGCGAACGCGTGCTAACGATCCTGAGAAGGTGCAGGAGCTCATGG ACAGCATCCGTGTCATCGGCCTCCAAGTACCTATCGACGTGCTGGAAGTCGACGGAGTCT ACTACGGTAGTTTTGTTCAGATCTCAATTGGTCATTCCCCACTCCAAAAGCTATACCCAT TTCCCTCTTCCTGAATATGCCTGCACATGATCCTCAGGATTCTCTGGATGCCATCGATAC GAGGCTCACCAGCGCCTAGGACTCCCAACCATCCGCTGCAAAGTCCGCCGAGGGACCAAA GAAACACTGCGGCACCATATGCGATGAATCGGTGGTTAGCGATGAATGGACAATCCATGG ATTGCTTCAGCCAGGAAGTGTCGTCTGTTATGTCTAGTGCTAAAAAAAACTTTCTCCTCC TGTAATCATCTATACGTGTAAATGTTACCCAATCCAATGTATAAAATAGCACAATTCAGC TGGCGCTTCTGCTCCTTCTGTTGCATACAGTAATCTCTACAGCTCTGCTTGGGCAAGAAT TCAACTGAAGGTTCAGGCTGGAGTGCAGGGTCTAAACTCTCAGAAATGCAGTGCCCCCTG AAGCTTCATTAGCAAATTCAGGGCCATTCGGGGTGCGGTTTTTTCCTTCTCATATGCACT GTGAATTGACTGGTTACTGTGAAAGTTGCAATATCTGAAACTTTGAGATCGTCATCCTCA GAAAACAGTGCAGTCTCTCTATTCACTAGATTCTGAAGATAAAATGTTTTCAGAAGAGAT ACAAAATGAAGGAAGCAGTTCTATGTTCCTGATAAGAGTGTAACTTGGCACCTGATCTGC CCCTACCCCGTGTTCAAACATAGAGCATCTCCTACATATGATGGATAAGTTGGTGCCCAA AAATAGTTTTATGACAGGAGAGAGAAGGTTTTTTACGTCATTGTGGCGGCTATTGCTCCA TCAGGTGATGTAAGAGTAGTGGCCGAAATGGCCTTTTTTCTTCGT
Protein Sequence (138 aa)
>BART1_0-u50476.003 138 150831_barley_pseudomolecules MASTSSLDLGKIVPPAGFLLHRRTAVPSAPVLRGRSTSGQCGLAVSASSSNAGLFPLSDT EKKGPVVMEIPLEDIRRPLMRTRANDPEKVQELMDSIRVIGLQVPIDVLEVDGVYYGSFV QISIGHSPLQKLYPFPSS