- Transcript BART1_0-u36905.001
- Transcript IDBART1_0-u36905.001
- Gene IDBART1_0-u36905
Barley RTD
Exon Structure of BART1_0-u36905.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 516498882 | 516497993 | + |
| chr5H | 2 | 516499417 | 516499330 | + |
| chr5H | 3 | 516499628 | 516499542 | + |
| chr5H | 4 | 516500536 | 516499724 | + |
| chr5H | 5 | 516501316 | 516500965 | + |
| chr5H | 6 | 516501625 | 516501544 | + |
| chr5H | 7 | 516502467 | 516502239 | + |
| chr5H | 8 | 516505314 | 516504180 | + |
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 | 0.436423 | 0.312975 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0.245789 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0.00000000389041 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0.101245 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0.371024 | 0.324709 | 0 |
| morex | INF1 | 0.0551288 | 0.185757 | 0.262012 |
| morex | INF2 | 0.90579 | 0.351385 | 1.43571 |
| morex | CAR5 | 0.920194 | 0.485789 | 0.000000000790427 |
| morex | CAR15 | 0.190934 | 0 | 0 |
| morex | LEM | 0.29947 | 0 | 0 |
| morex | LOD | 0 | 0 | 0.20078 |
| 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_Os09g28300.1 | +3 | 0.0 | 613 | 384/564 (68%) | protein|remorin C-terminal domain containing protein, putative, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g49050.1.p | +3 | 0.0 | 735 | 448/561 (80%) | 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 (3676 bp)
>BART1_0-u36905.001 3676 150831_barley_pseudomolecules GATGCAACAAGCTGAACCTCCATCTTTCCACCGTAGTAGATGTAGATCTACATGCTGCAT GGTTAGCTGAAACCGCGCGCCCTGCAGCAGAGAGGTCGCCGTCGTTCCAGCAGCGGCCAC CGTGGCGCGGGGCCATCACGCCTGGATATTCACTCCTCGACGGATCACGAGTCACGACGC CGTCGTCCGCCATCGTTTTTCAACCCCTCACCACTACACTACACGGGCAACTCAGGTAGT CGTCACGAGACAATCACGCCGGGTTTAACCGAGGTGAACGGGGGCACGGGAGGTGAGGTG GGTGGAGTTGGTGAGGCGAGGTTCCCTGCGCCGCGGGGCAGAAGAAACAAGAAGCGCGAC ACCGACATGGACGGGGGCGCCGATCGGGGGGCAACAAAACGAGCACAGAAAATGCCCGTT GGTTTCAGCGCCGCGCACGTTGCCTCGCCTCGCGGCCGGCCTCGAGATGCCGGGCGTACG CCGCCCACGTCCCAATCCAATCCACCCCGCCCGCCTCGCTGCCTGACACGTCTATTAAAA TGCCGAGACTTGTCGCTCTTCCATACCCGCCACTCTTAATGGGCACCGCCGGTTGAGGGG GAGAGCGCAGCGAACTCACTGACGAGCCGGGCGAGCGGCTGGTGGGATTCTTGCTTCCCT TCTTGTTTCTGGGACTGAGAATGCGGGGCGCCGGTGATTGCGGGCTGGAGTTCCGGGGCG TGATGGGGGAGGAGGAGGAGGAGGAGGCCGCGTCGGCGTCGGCGTCGGAGAGGGCAATGC GGCGGCGGCGGCGGTGGGGAGCGGAGGCGGACGACGGCTACTCGACGAGCTCCACGGGCG GCCGCGGCGGGAGCAGCGGCAGCGGCAGCGGCTCCTTCGGCTGCGACTCGCCTTTGGCCG GATTCGTGCGCGCGGATGGCGACATGGAAGGCACAGATCTGGAGACAGACGGGCTGGCCG CCACTTCCTCCTCCAGCGCGTTCACGGAGCCGCACGACGACGAGGAGGCGCAGTCGCGGC AAGAACCGGCCAAGAGTCCGGCGGGCACTGCCACTGCCATCCGAGAATGCCAGAGCCAGC GGCGGTGCCGGACAGACGCGGTTTACCTGCACGGTAGGAAGGGGCTCAAGCAGCGGCCGG CCTCGCTCGACTTCGGCAGCGCCGGGTTCAGCAGCGGGACTCCGTTTTCTCCGGGCTTTG TGGTGGGAGGCGCGGGGTTTGTGAGCAAGGGACTTGTGTCATCACAGATCAGCTCAGGGG TGTTTCCGAGTCCCGGCACGCCGAGCTACCCGCGGCGGCACCGGCCATCGGCCTTGGGGT ACCAGAAGGGGTGGAGCTCGGAGAGAGTGCCCCTTCCTTCCAAAGGTAACAACACTAGGA GGTACCCAGGCAGCAGCATGGCATTTCCTCTCAACAACAGGAGGACACTGCCCTCAAAAT GGGAGGATGCAGAGAGGTGGATCTTCAGTCCCAAGTCTAACGCCGGCGATGCGCGTGAGA AGACCGCCACATTGCCCCATGCTCGACGGCCGAAGGCCAAAAGTGGTCCTCTTGGGCCTC CTGGAAGACTTGGTGGACAGTATTCATCTGTATCTTCATCCGTGTCTTTGTTTGACAGTG GGAGAGTTGGGCATTTAGCAGCAAACTCACCTTTCTTGGCGGGAGTACTCATACCTGAAC ATTATGGTGGGGCGAAAAGTAATGTCCGGAGGTACACGAGTGGAACAGCTGGTGACGAAT TTGGTATTGGCATAGTTGGCAGGTCTTCTCTAGCAGCTATCGGGTCGCCTGCTATCCCGT CTACGACGGTGCGCCGACGACTAGATACTGCAATTGAGTCATCTGTGTCATTGCCTAGCA CTCGAGAATCTGTACAAGGCGAAGAGGCTGAGTTTGTAGAAGATTCAGCCCCTGTCGCTA CCCCTATAATTTCAAGGAAGGATACCGCGACTCAAACTAGCCCAGATCTAAGTAGGTCTT CTTCGCCCAGCGCCAGGCCTTCATTTGTTCGCTCGTTTTCAATGCAACAAGCCAAGGAGG AGAGCTGTTTCTCTGATCTTGAGATCAGGGATGTGCAGATGGATGACCGAGTGAGTCTTA CTAGATGGTCCAAGAAGCATGTAACACAGGCCTCTAACAAGAATTCTACAAATATCTTAG AGTGGAACAGAAAAACGGTGGACTCTAAATCTTCTTCCTGGGAATCAACTGAAACAAAGT GCACATTAAAGGTTGAGAGAGAAGAAGCAAAACTTACTGCTTGGGAGAATCTTCAAAAAG CGAAAGCTGAGGCTGCAATTCAGAAGCTAGTGATGAAACTCGAGAAGAAACGATCATTTT CTCTGGACAGAATTTTGAACACCCTCAGGTCTGCTCAAAGAAAAGCACAAGGGATGCGTG ATGCAGCAACAGCAAGCCAAGATGAACATGTTTGCAGAAAGGCCAAAAAGACATCACACG TTACAAAGAATGGCCAGATCAGATCTCTGAGTGGCTGTTTTACTTGCCATGCTTTCTAGT ATCATGCAATCCCGCTACTGAGGATCTGGAGGACCTAGGTTCACTCTTCAGGCCCTTCAG CAGGGAAGTCCGGGTGAAGTTCAGACAGAGACTCACTCTGTGAGTGAAGAATCCAAACAA TCCTCAACTCACCCCCGTCGCATTTTCAGAAGAATATGCCGCTTGCGGCCTGAGCAGGGA CCATGCGTGCGCTGGCTCTCACCATATGGCTCTGCTCATCTGCGCAATCTGCCAAGGGGA CAAGAGAAAATGGAGGCACCGAGGAAAAGGAGCGATGGTGCCTCTGCGTCACCACATGCA CCGACCCGGCAGGCCAGCAGCTAGCACAATGGTAAACAGGTGAAGGCCTCCTTTATCGTT GGCCTTTGCTGGTCCTGTAGTTGCTTCAGGTGTAGCCCATTTGGGTGGGATTGGATGTAC GCCACCATAGAACATTATTAGTATTATTATTTTGCTGCAATCGTTGCTGCTCTCGTGTCT TTACTTTGAGCTGTAGGAGATGCTTCCTCAGGAGGGAAAAAAAAGGTGAACCAGATAAGG CGTTTTGCAGCTTTCCAGCGTTCAGATAGAAAGCAAGCGTCGGGATAGAAAGTGTCCTAC GACCACGAAGTGAGGTTCCTCCCGTGACTTGACCCTCGTGCACCCTCACCCGTAGGCCGA AAGAAAGCAACGTTATGCAGGTCCAAACAAAACCGGATGCTTTTTGGCTGACAAGTTACC ACATGATGTCACGTCACAAACAAAATCGATTGATTGTCAGTATAATTCACCTGTGGCCGC CCACGAGTTAGAAATGACAAGGTGGCATGACACTTTCTTTGGAGCAATTCTAGCGGACCC ACTACGTCGCCAAACATAATTCTTGTTTTCTTAGAGGTTGTTAGCATATGGCGTAGCTTC GTCTTACTTGCGAGGTGCCAAACAAGAGAAATATAGACAACCTTAGGCAGATCTCGGGAA AAGATCGGTCGGATCACGAGCCCGTTCGATGCACCTGCGATGGCTGTGTGATTCACGTAT GACAGCTGACAAGCGTCTGCGACATAACTCATATAAGAGTACATAATAATTATGATTTCA TATATATTTATGGATGTTCGTGTCAAAAAAGAAATGCTCGTGGACATGCCCAATGATTGG ACGTGTCTTCTATTTG
Protein Sequence (612 aa)
>BART1_0-u36905.001 612 150831_barley_pseudomolecules MRGAGDCGLEFRGVMGEEEEEEAASASASERAMRRRRRWGAEADDGYSTSSTGGRGGSSG SGSGSFGCDSPLAGFVRADGDMEGTDLETDGLAATSSSSAFTEPHDDEEAQSRQEPAKSP AGTATAIRECQSQRRCRTDAVYLHGRKGLKQRPASLDFGSAGFSSGTPFSPGFVVGGAGF VSKGLVSSQISSGVFPSPGTPSYPRRHRPSALGYQKGWSSERVPLPSKGNNTRRYPGSSM AFPLNNRRTLPSKWEDAERWIFSPKSNAGDAREKTATLPHARRPKAKSGPLGPPGRLGGQ YSSVSSSVSLFDSGRVGHLAANSPFLAGVLIPEHYGGAKSNVRRYTSGTAGDEFGIGIVG RSSLAAIGSPAIPSTTVRRRLDTAIESSVSLPSTRESVQGEEAEFVEDSAPVATPIISRK DTATQTSPDLSRSSSPSARPSFVRSFSMQQAKEESCFSDLEIRDVQMDDRVSLTRWSKKH VTQASNKNSTNILEWNRKTVDSKSSSWESTETKCTLKVEREEAKLTAWENLQKAKAEAAI QKLVMKLEKKRSFSLDRILNTLRSAQRKAQGMRDAATASQDEHVCRKAKKTSHVTKNGQI RSLSGCFTCHAF