- Transcript BART1_0-u36905.003
- Transcript IDBART1_0-u36905.003
- Gene IDBART1_0-u36905
Barley RTD
Exon Structure of BART1_0-u36905.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 516498882 | 516498206 | + |
| chr5H | 2 | 516499417 | 516499330 | + |
| chr5H | 3 | 516499628 | 516499533 | + |
| 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 | 3.96654 | 8.47457 | 6.90257 |
| morex | ETI | 0.418465 | 0 | 0.367627 |
| morex | LEA | 5.28834 | 1.01674 | 1.49408 |
| morex | EPI | 0 | 0 | 0.139551 |
| morex | ROO | 0.355235 | 1.92229 | 0.694619 |
| morex | ROO2 | 0.406384 | 0.0856091 | 0.126312 |
| morex | NOD | 0.805806 | 0.353721 | 0.112771 |
| morex | RAC | 1.78944 | 1.20666 | 1.10571 |
| morex | INF1 | 2.89236 | 4.19031 | 3.23616 |
| morex | INF2 | 4.71714 | 8.62741 | 4.67283 |
| morex | CAR5 | 4.7552 | 4.34447 | 3.67703 |
| morex | CAR15 | 0.390775 | 0 | 0 |
| morex | LEM | 0.193586 | 0 | 0.424136 |
| morex | LOD | 0.217459 | 0.507366 | 0.453556 |
| morex | PAL | 1.23404 | 0.454034 | 0.678422 |
| 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 | 603 | 383/565 (68%) | protein|remorin C-terminal domain containing protein, putative, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g49050.1.p | +3 | 0.0 | 736 | 451/561 (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 (3472 bp)
>BART1_0-u36905.003 3472 150831_barley_pseudomolecules CTACACTACACGGGCAACTCAGGTAGTCGTCACGAGACAATCACGCCGGGTTTAACCGAG GTGAACGGGGGCACGGGAGGTGAGGTGGGTGGAGTTGGTGAGGCGAGGTTCCCTGCGCCG CGGGGCAGAAGAAACAAGAAGCGCGACACCGACATGGACGGGGGCGCCGATCGGGGGGCA ACAAAACGAGCACAGAAAATGCCCGTTGGTTTCAGCGCCGCGCACGTTGCCTCGCCTCGC GGCCGGCCTCGAGATGCCGGGCGTACGCCGCCCACGTCCCAATCCAATCCACCCCGCCCG CCTCGCTGCCTGACACGTCTATTAAAATGCCGAGACTTGTCGCTCTTCCATACCCGCCAC TCTTAATGGGCACCGCCGGTTGAGGGGGAGAGCGCAGCGAACTCACTGACGAGCCGGGCG AGCGGCTGGTGGGATTCTTGCTTCCCTTCTTGTTTCTGGGACTGAGAATGCGGGGCGCCG GTGATTGCGGGCTGGAGTTCCGGGGCGTGATGGGGGAGGAGGAGGAGGAGGAGGCCGCGT CGGCGTCGGCGTCGGAGAGGGCAATGCGGCGGCGGCGGCGGTGGGGAGCGGAGGCGGACG ACGGCTACTCGACGAGCTCCACGGGCGGCCGCGGCGGGAGCAGCGGCAGCGGCAGCGGCT CCTTCGGCTGCGACTCGCCTTTGGCCGGATTCGTGCGCGCGGATGGCGACATGGAAGGCA CAGATCTGGAGACAGACGGGCTGGCCGCCACTTCCTCCTCCAGCGCCTCCGCAGCGTTCA CGGAGCCGCACGACGACGAGGAGGCGCAGTCGCGGCAAGAACCGGCCAAGAGTCCGGCGG GCACTGCCACTGCCATCCGAGAATGCCAGAGCCAGCGGCGGTGCCGGACAGACGCGGTTT ACCTGCACGGTAGGAAGGGGCTCAAGCAGCGGCCGGCCTCGCTCGACTTCGGCAGCGCCG GGTTCAGCAGCGGGACTCCGTTTTCTCCGGGCTTTGTGGTGGGAGGCGCGGGGTTTGTGA GCAAGGGACTTGTGTCATCACAGATCAGCTCAGGGGTGTTTCCGAGTCCCGGCACGCCGA GCTACCCGCGGCGGCACCGGCCATCGGCCTTGGGGTACCAGAAGGGGTGGAGCTCGGAGA GAGTGCCCCTTCCTTCCAAAGGTAACAACACTAGGAGGTACCCAGGCAGCAGCATGGCAT TTCCTCTCAACAACAGGAGGACACTGCCCTCAAAATGGGAGGATGCAGAGAGGTGGATCT TCAGTCCCAAGTCTAACGCCGGCGATGCGCGTGAGAAGACCGCCACATTGCCCCATGCTC GACGGCCGAAGGCCAAAAGTGGTCCTCTTGGGCCTCCTGGAAGACTTGGTGGACAGTATT CATCTGTATCTTCATCCGTGTCTTTGTTTGACAGTGGGAGAGTTGGGCATTTAGCAGCAA ACTCACCTTTCTTGGCGGGAGTACTCATACCTGAACATTATGGTGGGGCGAAAAGTAATG TCCGGAGGTACACGAGTGGAACAGCTGGTGACGAATTTGGTATTGGCATAGTTGGCAGGT CTTCTCTAGCAGCTATCGGGTCGCCTGCTATCCCGTCTACGACGGTGCGCCGACGACTAG ATACTGCAATTGAGTCATCTGTGTCATTGCCTAGCACTCGAGAATCTGTACAAGGCGAAG AGGCTGAGTTTGTAGAAGATTCAGCCCCTGTCGCTACCCCTATAATTTCAAGGAAGGATA CCGCGACTCAAACTAGCCCAGATCTAAGTAGGTCTTCTTCGCCCAGCGCCAGGCCTTCAT TTGTTCGCTCGTTTTCAATGCAACAAGCCAAGGAGGAGAGCTGTTTCTCTGATCTTGAGA TCAGGGATGTGCAGATGGATGACCGAGTGAGTCTTACTAGATGGTCCAAGAAGCATGTAA CACAGGCCTCTAACAAGAATTCTACAAATATCTTAGAGTGGAACAGAAAAACGGTGGACT CTAAATCTTCTTCCTGGGAATCAACTGAAACAAAGTGCACATTAAAGGTTGAGAGAGAAG AAGCAAAACTTACTGCTTGGGAGAATCTTCAAAAAGCGAAAGCTGAGGCTGCAATTCAGA AGCTAGTGATGAAACTCGAGAAGAAACGATCATTTTCTCTGGACAGAATTTTGAACACCC TCAGGTCTGCTCAAAGAAAAGCACAAGGGATGCGTGATGCAGCAACAGCAAGCCAAGATG AACATGTTTGCAGAAAGGCCAAAAAGACATCACACGTTACAAAGAATGGCCAGATCAGAT CTCTGAGTGGCTGTTTTACTTGCCATGCTTTCTAGTATCATGCAATCCCGCTACTGAGGA TCTGGAGGACCTAGGTTCACTCTTCAGGCCCTTCAGCAGGGAAGTCCGGGTGAAGTTCAG ACAGAGACTCACTCTGTGAGTGAAGAATCCAAACAATCCTCAACTCACCCCCGTCGCATT TTCAGAAGAATATGCCGCTTGCGGCCTGAGCAGGGACCATGCGTGCGCTGGCTCTCACCA TATGGCTCTGCTCATCTGCGCAATCTGCCAAGGGGACAAGAGAAAATGGAGGCACCGAGG AAAAGGAGCGATGGTGCCTCTGCGTCACCACATGCACCGACCCGGCAGGCCAGCAGCTAG CACAATGGTAAACAGGTGAAGGCCTCCTTTATCGTTGGCCTTTGCTGGTCCTGTAGTTGC TTCAGGTGTAGCCCATTTGGGTGGGATTGGATGTACGCCACCATAGAACATTATTAGTAT TATTATTTTGCTGCAATCGTTGCTGCTCTCGTGTCTTTACTTTGAGCTGTAGGAGATGCT TCCTCAGGAGGGAAAAAAAAGGTGAACCAGATAAGGCGTTTTGCAGCTTTCCAGCGTTCA GATAGAAAGCAAGCGTCGGGATAGAAAGTGTCCTACGACCACGAAGTGAGGTTCCTCCCG TGACTTGACCCTCGTGCACCCTCACCCGTAGGCCGAAAGAAAGCAACGTTATGCAGGTCC AAACAAAACCGGATGCTTTTTGGCTGACAAGTTACCACATGATGTCACGTCACAAACAAA ATCGATTGATTGTCAGTATAATTCACCTGTGGCCGCCCACGAGTTAGAAATGACAAGGTG GCATGACACTTTCTTTGGAGCAATTCTAGCGGACCCACTACGTCGCCAAACATAATTCTT GTTTTCTTAGAGGTTGTTAGCATATGGCGTAGCTTCGTCTTACTTGCGAGGTGCCAAACA AGAGAAATATAGACAACCTTAGGCAGATCTCGGGAAAAGATCGGTCGGATCACGAGCCCG TTCGATGCACCTGCGATGGCTGTGTGATTCACGTATGACAGCTGACAAGCGTCTGCGACA TAACTCATATAAGAGTACATAATAATTATGATTTCATATATATTTATGGATGTTCGTGTC AAAAAAGAAATGCTCGTGGACATGCCCAATGATTGGACGTGTCTTCTATTTG
Protein Sequence (615 aa)
>BART1_0-u36905.003 615 150831_barley_pseudomolecules MRGAGDCGLEFRGVMGEEEEEEAASASASERAMRRRRRWGAEADDGYSTSSTGGRGGSSG SGSGSFGCDSPLAGFVRADGDMEGTDLETDGLAATSSSSASAAFTEPHDDEEAQSRQEPA KSPAGTATAIRECQSQRRCRTDAVYLHGRKGLKQRPASLDFGSAGFSSGTPFSPGFVVGG AGFVSKGLVSSQISSGVFPSPGTPSYPRRHRPSALGYQKGWSSERVPLPSKGNNTRRYPG SSMAFPLNNRRTLPSKWEDAERWIFSPKSNAGDAREKTATLPHARRPKAKSGPLGPPGRL GGQYSSVSSSVSLFDSGRVGHLAANSPFLAGVLIPEHYGGAKSNVRRYTSGTAGDEFGIG IVGRSSLAAIGSPAIPSTTVRRRLDTAIESSVSLPSTRESVQGEEAEFVEDSAPVATPII SRKDTATQTSPDLSRSSSPSARPSFVRSFSMQQAKEESCFSDLEIRDVQMDDRVSLTRWS KKHVTQASNKNSTNILEWNRKTVDSKSSSWESTETKCTLKVEREEAKLTAWENLQKAKAE AAIQKLVMKLEKKRSFSLDRILNTLRSAQRKAQGMRDAATASQDEHVCRKAKKTSHVTKN GQIRSLSGCFTCHAF