- Transcript BART1_0-u04235.004
- Transcript IDBART1_0-u04235.004
- Gene IDBART1_0-u04235
Barley RTD
Exon Structure of BART1_0-u04235.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 454317765 | 454317349 | + |
| chr1H | 2 | 454318681 | 454318456 | + |
| chr1H | 3 | 454319789 | 454319063 | + |
| chr1H | 4 | 454321096 | 454320645 | + |
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 | 1.44679 | 0.628598 | 0.0526827 |
| morex | ETI | 4.79987 | 4.43797 | 4.05169 |
| morex | LEA | 0 | 1.39913 | 1.62643 |
| morex | EPI | 2.81721 | 4.85226 | 4.19465 |
| morex | ROO | 0 | 1.36402 | 0.000000840239 |
| morex | ROO2 | 1.0336 | 1.41683 | 1.85563 |
| morex | NOD | 0.663249 | 6.14415 | 1.14105 |
| morex | RAC | 6.87094 | 5.48345 | 5.98889 |
| morex | INF1 | 0 | 1.02974 | 0 |
| morex | INF2 | 0.910064 | 1.25331 | 1.92446 |
| morex | CAR5 | 5.05057 | 4.30475 | 1.45139 |
| morex | CAR15 | 0.00169121 | 0.308021 | 0 |
| morex | LEM | 5.61094 | 1.23224 | 2.57279 |
| morex | LOD | 5.23177 | 4.33397 | 8.13815 |
| morex | PAL | 1.15917 | 3.22706 | 2.44034 |
| morex | SEN | 3.31901 | 5.86607 | 5.23995 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g33880.1 | +1 | 2e-42 | 152 | 87/143 (61%) | protein|cysteine proteinase inhibitor precursor protein, putative, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g25507.3.p | +1 | 2e-63 | 208 | 125/165 (76%) | pacid=32774293 transcript=Bradi2g25507.3 locus=Bradi2g25507 ID=Bradi2g25507.3.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 (1822 bp)
>BART1_0-u04235.004 1822 150831_barley_pseudomolecules GCCGGACAAATCGGCTCCGATCCACCGCCCGATCCGGGCCGTGGACGTCTGGGATGCCTC GATCCGTCGCTGTCCCCCACACGCCAACCGAACCTGCCCCACTCGCTTTCCCCAACCCAA GAAGCAACGCGACGCAAGCAGGCAGGCAGACAGCCACCACACGCCGACGCCAAACCCCGC GAACCAATCGGGAGCTCGGGAGGAGCGACGATGGCCCGCCGCAGCGGCTGCTCCGTCGGC GCCGCGCTCCTCGCCCTCGCCGCCCTCCTCGCCGCCTCGGCCGTCCCCGGGGCCGCCGGG TTCCACCTCGGCGGCGACGAGAGCGGCCTCGTGCGGGGCATGCTCGCCGCCGTCCGCGAG CGGGCCGAGGCCGAGGACGCCGCGCGCTTCGCCGTCGCTGAGCACAACAGGAAGCAGGGT TCTGCATTGGAGTTTACACGGGTTGTGGACGCGAAAAGGCAAGTGGTTGCTGGGACCTTG CACAACCTGATGGTGGAGGTAGTGGATTCTGGAAAGAAAAGTATGTACAAGGCAAAGGTA TGGGTGAAGCCGTGGCAAAATTTCAAGGCGGTTGTCGAGTTCCGTCATGCCGGGGACTTC CAGTCTGAGTCTTCCGTTGCTTCTGATGGTAGCACTGGGCAAGCTATCCTCAAGCTGTCC CTTCAAACCGACATGGCACCCAAGATGCACAGCAACGATAACACTGGACTTTCTGTTGAC TCGTCCTCTTCTCAGGTCTGTTTGATCACCCCTTCTCATGTTCAACTCGTCACAATGCCT TTTCCAGTCACCATCAAAATGTCAAGTAGTTCATATTCATGGGCTAATATGTCTTATGGT TGATGATTTAACTTCCCTAGTAAGAAATAAATAAGGACTTATCATGTTGTCTTGCTACTG CAGAAGTCTTTTATTCGAGAGGCAACATCCTAATCCAAATTAGGTTGCTGTCGCAAGTGT ATTATCCACATACTATGAACATGAAAGATCTAAGCATTTGCAATCCACCACCACCTAGTG TCACTCATTTTTCTGTTCTCTGTTTGAAGAAAGTATAGTCAATCATACACCAACACCAGG TCTTCCCCATGAAATCATTTGCAACTTGCAGTGATGACATAGTTTATCCATTTTTTGAGT AACCTATTTTCAAGATCCTGGAAGGGGAGCCTTGGCGCAGAGGTAAAGCTGTCGCCTTGT TCCATGAGGTCACGGGTTCAAGTCCTGGAAACAGTCTCTTGCAGAAATGCAGGGAAATGC TGTGTATAGAAGACCCAAAGTGGTCAGACCCTTCGCAAGCGGGAGCTACGTGCACCGGGC TGCCCCTATTTTCAAGATGCTGGTACCATGGCGTTCTATTATCCTTCACGGCACACAAGG CGTGAAGGTTGCTTCCATGGAGTATGGAACTGGAAGGCGTGAAGGTCGGAACATGAGGTT CTGAAATGTAGCTGCCAGCAACTTGTGAACTTAAGTACTACTAGTAGTTTCCCCTGTGCA AAGTTTTTATCCACCGTTAGTCTGTTATCAAAGTCTTCATCCCCTGTTAGATAGTACTAC TATATGCTGTCACACGGACATTCTTTGAGCTTTTGACAGTTTGACGTCTGAACTCTGTAT ATTTGTTTTAAAACGTGGTGACTCTGTATATTACATACTGTTCATGCCCAGGTAAGTACA TTATGGCATTATTAGTGTTGCCTTCATTTGTTCATTCATGTCCCGAAGGACAAGGCATGT GTTCGGTGAACCTACATATATACAAGTCACCACTCGCTTTGTATAAAAAATGTAAGACCT TTTTTGACAGTGACGTTGCCAA
Protein Sequence (280 aa)
>BART1_0-u04235.004 280 150831_barley_pseudomolecules AGQIGSDPPPDPGRGRLGCLDPSLSPTRQPNLPHSLSPTQEATRRKQAGRQPPHADAKPR EPIGSSGGATMARRSGCSVGAALLALAALLAASAVPGAAGFHLGGDESGLVRGMLAAVRE RAEAEDAARFAVAEHNRKQGSALEFTRVVDAKRQVVAGTLHNLMVEVVDSGKKSMYKAKV WVKPWQNFKAVVEFRHAGDFQSESSVASDGSTGQAILKLSLQTDMAPKMHSNDNTGLSVD SSSSQVCLITPSHVQLVTMPFPVTIKMSSSSYSWANMSYG