- Transcript BART1_0-u36905.010
- Transcript IDBART1_0-u36905.010
- Gene IDBART1_0-u36905
Barley RTD
Exon Structure of BART1_0-u36905.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 516499417 | 516499181 | + |
| chr5H | 2 | 516499628 | 516499533 | + |
| chr5H | 3 | 516500536 | 516499724 | + |
| chr5H | 4 | 516500786 | 516500683 | + |
| chr5H | 5 | 516501316 | 516500965 | + |
| chr5H | 6 | 516501625 | 516501544 | + |
| chr5H | 7 | 516502867 | 516502239 | + |
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 | 10.903 | 15.1513 | 16.6592 |
| morex | ETI | 6.69574 | 2.46195 | 6.23151 |
| morex | LEA | 17.9585 | 4.06097 | 8.03646 |
| morex | EPI | 1.5939 | 1.76973 | 1.96265 |
| morex | ROO | 3.2831 | 3.74302 | 2.17327 |
| morex | ROO2 | 7.93156 | 6.7453 | 7.2068 |
| morex | NOD | 2.75518 | 5.52245 | 2.88401 |
| morex | RAC | 20.3883 | 22.4985 | 24.0173 |
| morex | INF1 | 14.08 | 15.407 | 15.6562 |
| morex | INF2 | 23.9113 | 21.1681 | 23.6522 |
| morex | CAR5 | 22.2321 | 23.5674 | 25.5756 |
| morex | CAR15 | 1.3218 | 1.26224 | 1.86257 |
| morex | LEM | 6.41892 | 4.15004 | 5.69326 |
| morex | LOD | 12.4901 | 9.893 | 11.4393 |
| morex | PAL | 10.6316 | 7.845 | 9.10836 |
| morex | SEN | 0.653523 | 0.299869 | 0.571767 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g28300.2 | +3 | 5e-163 | 359 | 234/349 (67%) | protein|remorin C-terminal domain containing protein, putative, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g49050.1.p | +3 | 0.0 | 455 | 278/343 (81%) | pacid=32772094 transcript=Bradi2g49050.1 locus=Bradi2g49050 ID=Bradi2g49050.1.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 (2313 bp)
>BART1_0-u36905.010 2313 150831_barley_pseudomolecules TCGCCATCTTGATTCTTGCAGCAAGCGAAAAAGGAGCGGAGGGGGGCACCACCCACACCA ACACCAACACCACACACCCTGGGATTCTCCAGCTTTACAAGATTAACTTTTTAATCGGTG GTGCTAAGGTGCTTCATGGTTGGCTGCAGCCTTTGGCCGGATTCGTGCGCGCGGATGGCG ACATGGAAGGCACAGATCTGGAGACAGACGGGCTGGCCGCCACTTCCTCCTCCAGCGCCT CCGCAGCGTTCACGGAGCCGCACGACGACGAGGAGGCGCAGTCGCGGCAAGAACCGGCCA AGAGTCCGGCGGGCACTGCCACTGCCATCCGAGAATGCCAGAGCCAGCGGCGGTGCCGGA CAGACGCGGTTTACCTGCACGGTAGGAAGGGGCTCAAGCAGCGGCCGGCCTCGCTCGACT TCGGCAGCGCCGGGTTCAGCAGCGGGACTCCGTTTTCTCCGGGCTTTGTGGTGGGAGGCG CGGGGTTTGTGAGCAAGGGACTTGTGTCATCACAGATCAGCTCAGGGGTGTTTCCGAGTC CCGGCACGCCGAGCTACCCGCGGCGGCACCGGCCATCGGCCTTGGGGTACCAGAAGGGGT GGAGCTCGGAGAGAGTGCCCCTTCCTTCCAAAGGTAACAACACTAGGAGGTACCCAGGCA GCAGCATGGCATTTCCTCTCAACAACAGGAGGACACTGCCCTCAAAATGGGAGGATGCAG AGAGGTGGATCTTCAGTCCCAAGTCTAACGCCGGCGATGCGCGTGAGAAGACCGCCACAT TGCCCCATGCTCGACGGCCGAAGGCCAAAAGTGGTCCTCTTGGGCCTCCTGGAAGACTTG GTGGACAGTATTCATCTGTATCTTCATCCGTGTCTTTGTTTGACAGTGGGAGAGTTGGGC ATTTAGCAGCAAACTCACCTTTCTTGGCGGGAGTACTCATACCTGAACATTATGGTGGGG CGAAAAGTAATGTCCGGAGGTACACGAGTGGAACAGCTGGTGACGAATTTGGTATTGGCA TAGTTGGCAGGTCTTCTCTAGCAGCTATCGGGTCGCCTGCTATCCCGTCTACGACGGTGC GCCGACGACTAGATACTGCAATTGAGTCATCTGTGTCATTGCCTAGCACTCGAGAATCTG TACAAGGTTTATGGTAGTCTATTAGCTTGTGGTAGTTTCTCTGTTTGAGGCAGTCTCTCG GATTTACGGGTCTATGAAGTATAAAGCATTGTCAAATTGTGAAGCTCCTCGCGAAGAGGC TGAGTTTGTAGAAGATTCAGCCCCTGTCGCTACCCCTATAATTTCAAGGAAGGATACCGC GACTCAAACTAGCCCAGATCTAAGTAGGTCTTCTTCGCCCAGCGCCAGGCCTTCATTTGT TCGCTCGTTTTCAATGCAACAAGCCAAGGAGGAGAGCTGTTTCTCTGATCTTGAGATCAG GGATGTGCAGATGGATGACCGAGTGAGTCTTACTAGATGGTCCAAGAAGCATGTAACACA GGCCTCTAACAAGAATTCTACAAATATCTTAGAGTGGAACAGAAAAACGGTGGACTCTAA ATCTTCTTCCTGGGAATCAACTGAAACAAAGTGCACATTAAAGGTTGAGAGAGAAGAAGC AAAACTTACTGCTTGGGAGAATCTTCAAAAAGCGAAAGCTGAGGCTGCAATTCAGAAGCT AGTGATGAAACTCGAGAAGAAACGATCATTTTCTCTGGACAGAATTTTGAACACCCTCAG GTCTGCTCAAAGAAAAGCACAAGGGATGCGTGATGCAGCAACAGCAAGCCAAGATGAACA TGTTTGCAGAAAGGCCAAAAAGACATCACACGTTACAAAGAATGGCCAGATCAGATCTCT GAGTGGCTGTTTTACTTGCCATGCTTTCTAGTATCATGCAATCCCGCTACTGAGTAAGTT GCATAGTGATGCCTGCCGTACATGGGGTCTCTGTTGATGAATATTCTAGTGATTTAGATG CCCGTTTTTAATAAAGCCAGTAGCATCTATTCTATGCTCTTTCTGTCACATCAGGCAGAA TAATATAAACTGTGAAATTGTCAATGCTCACTTTTCAGTGTTGTCCTTGAAAATAGTTAT GTTTAATTGTATGCTGCAATGATGCTTGCAGTTCATAATTATGATTTATGTCACCAAATA TAGCATGTCGATAGCTCTTATGTTCACACATAAATACATAATCCATTAAACTTCCTTAAC ATGTTCCATATGCTTGTCATTTTTGACTCTGTCGATCCTTTAAGAACATAATTATTCAGA AATGATTTGAGGCAACTTGAGGTAGCATTGTAG
Protein Sequence (384 aa)
>BART1_0-u36905.010 384 150831_barley_pseudomolecules AILILAASEKGAEGGTTHTNTNTTHPGILQLYKINFLIGGAKVLHGWLQPLAGFVRADGD MEGTDLETDGLAATSSSSASAAFTEPHDDEEAQSRQEPAKSPAGTATAIRECQSQRRCRT DAVYLHGRKGLKQRPASLDFGSAGFSSGTPFSPGFVVGGAGFVSKGLVSSQISSGVFPSP GTPSYPRRHRPSALGYQKGWSSERVPLPSKGNNTRRYPGSSMAFPLNNRRTLPSKWEDAE RWIFSPKSNAGDAREKTATLPHARRPKAKSGPLGPPGRLGGQYSSVSSSVSLFDSGRVGH LAANSPFLAGVLIPEHYGGAKSNVRRYTSGTAGDEFGIGIVGRSSLAAIGSPAIPSTTVR RRLDTAIESSVSLPSTRESVQGLW