- Transcript BART1_0-u25331.004
- Transcript IDBART1_0-u25331.004
- Gene IDBART1_0-u25331
Barley RTD
Exon Structure of BART1_0-u25331.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 679779870 | 679779575 | + |
| chr3H | 2 | 679780077 | 679779949 | + |
| chr3H | 3 | 679780262 | 679780159 | + |
| chr3H | 4 | 679780772 | 679780595 | + |
| chr3H | 5 | 679781035 | 679780884 | + |
| chr3H | 6 | 679782384 | 679781761 | + |
| chr3H | 7 | 679782577 | 679782473 | + |
| chr3H | 8 | 679783932 | 679783777 | + |
| chr3H | 9 | 679784080 | 679784000 | + |
| chr3H | 10 | 679784262 | 679784187 | + |
| chr3H | 11 | 679784610 | 679784345 | + |
| chr3H | 12 | 679785333 | 679785100 | + |
| chr3H | 13 | 679786251 | 679785445 | + |
| chr3H | 14 | 679786764 | 679786475 | + |
| chr3H | 15 | 679788703 | 679787992 | + |
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 | 4.10117 | 9.1733 | 9.16383 |
| morex | ETI | 5.99937 | 3.81065 | 6.89312 |
| morex | LEA | 11.1737 | 3.83923 | 6.18677 |
| morex | EPI | 2.03775 | 5.66553 | 3.52885 |
| morex | ROO | 0.00000000128487 | 2.90671 | 0.81896 |
| morex | ROO2 | 4.67022 | 6.8038 | 6.47508 |
| morex | NOD | 5.01328 | 6.48548 | 3.76033 |
| morex | RAC | 5.34962 | 7.25393 | 6.66629 |
| morex | INF1 | 14.0224 | 16.9848 | 19.7621 |
| morex | INF2 | 18.8414 | 22.7314 | 18.3948 |
| morex | CAR5 | 17.7491 | 17.8602 | 11.6334 |
| morex | CAR15 | 3.28649 | 7.54924 | 1.97094 |
| morex | LEM | 11.081 | 6.80495 | 5.74725 |
| morex | LOD | 11.2978 | 12.2465 | 12.5695 |
| morex | PAL | 7.16422 | 5.64666 | 6.93123 |
| morex | SEN | 3.30709 | 3.00334 | 2.73742 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g68810.1 | +2 | 0.0 | 901 | 530/701 (76%) | protein|expressed protein |
| TAIR PP10 | AT1G24706 @ ARAPORT AT1G24706.2 @ TAIR |
+3 | 0.0 | 592 | 294/431 (68%) | Symbols: THO2 | THO2 | chr1:8742210-8755250 FORWARD LENGTH=1823 |
| BRACH PP3 | Bradi2g58697.3.p | +2 | 0.0 | 1023 | 574/700 (82%) | pacid=32780757 transcript=Bradi2g58697.3 locus=Bradi2g58697 ID=Bradi2g58697.3.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 (4210 bp)
>BART1_0-u25331.004 4210 150831_barley_pseudomolecules GTCCTTGTTAATATTTGTTGATCATATTTGATAATTACGGCTCTTTGGAAAAGTCTTTAA TCTTAATGTTTTGAAAATGCAAGCAATAGTTCTATATATCCTTCTAATCACTGGGGGTGC TTGTGTTTCCCCTTCCAGTATTGTTAGTCTTTAATCTTCATCTTTATGCTTCTATTCTGA ACCAACAAACTTTTAACAGCTGCAAGAAGCATCTTTCCATGGAGCTTAAATGCCTTTTCC AATACATAGTTAATCAACTGAAGAAAGGATTGGGCACTGAGCTTGTTGTACTTGAGGAAC TCATTCAGCAAATGGCAAATGTACAGTACACTGAGAACATGACTGATGAACAGGTTGATG CTATGGCAGGAAGTGAAACATTGCGGCTTCAATCTTCGCTGTTTGGATCAACACGGAACT ATAAGGTCCTGAATAAGTCTACTAACAAATTGCGGGATTCTTTGCTTCCAAAAGATGAAC CTAAACTGGCAATTCCTCTACTACTGCTCGTTGCCCAGCACAGATCCAAGATTATAATAA ATGCAGATGCCACATATATCAAAATGGTTAGCGAGCAGTTTGATAGATGCCATGGAATAC TACTTCAGTATGCCGAGTTTCTTTCAAGTGCTGTAACTTCATCAACCTATGTTCAGCTAG TACCTCCGCTGGAAGATCTCGTTTATAAATATCATATCGAGCCAGATATTGCTTTTCTTA TATACCGCCCTGTAATGAGGCTTTTCAAAAGCGCTAATGGTGGCGAGGCCTGTTGGCCTC TGGATGACAATGAAGAAGGGGAGTCTGTATCATGTGATGAAATGATCTTGCATGGTGATT CATCTCAGAAGTTAATCATGTGGTCAGATCTTCTCAACACAATCCGAACAATTTTGCCAG CAAAAGCCTGGAACGGCCTTTCACCCGAATTGTATGCTACTTTCTGGGGTTTAACACTGT ATGATCTTCATTTTCCAAAAGATCGTTATGATGCAGAAATCAAGAAGCTGCATGAAAATC TCAAACAACTTGAAGATAACTCAGATAACTCTAGCATTGCAATATCAAGACGTAAGAAGG ATAAGGAGAGAATCCAAGATTTGCTGGACAAATTGAACAATGAATCTGACAAGCATCAGC ACCATGTTCTATCAGTGCTCCAAAGGCTAACCCGTGAAAAGGATAAATGGCTGAGTTCCA GTCCGGACGCACTGAAGATCAACATGGAATTTCTCCAGCGTTGCATATATCCACGCTGTG TTCTTAGCATGCAGGATGCTGTATATTGTGCTACATTCGTCCAGATGATGCATTCACTTG GGACTCCATTTTTCAACACGGTGAATCATATAGATGTTTTCATCTGCAAGACACTACAGC CAATGATCTGTTGTTGTACAGAATATGAGGCTGGCAGGCTGGGAAGGTTTCTTCATGAGA CCCTGAAGATGGCCTACCATTGGAAGGTAGCTTATTGATTCAAAGTGACGAATCAATATA TGAGCGTGAATGTGGAAATAAGCCGGGATTCGCTGTATACTTCAGATTTCCAAATAGTCA ACGCGTATCTTATCCTCAGTTTGTTAAAGTTCATTGGAAATGGAGTGGAAGAATTACCAA GGTGCTTAATCAATGTATGGAGTCAAAGGAATACATGGAAATCAGAAACGCCCTTATTGT GCTCACAAAGATAACTAGTATTTTTCCTGTGATGCGAAAAAGCGGTATCAACATCGAGAA AAGGGTTGCGAAGCTAAAGGGGGATGAGAGGGAAGATCTGAAAGTACTGGCCACTGGTGT AGCTGCTGCTCTGGCCGCTCGCAAGAGTTCATGGGTGTCTGAAGAAGAGTTTGGCATGGG TCACCTTGATCTGAAGCCAGTGCTTGCAAAACCTATTGCTGGAAATCAGTATGCAGATCC CTCGACAGCAAAAGATCATAGCGTTCGTGCAAAATCTGTAGAGGGTAGGCATGAAAGGTC AGAAAATGCAATGAAGCCTGATGCTCAACATAAGAAGAATGCCTCAACTACAAACGGGTC TGATAGTCAAATACCATCTTCCTCTGCACAAGGAAAAGGTTCAGGGATTGCACGCGGTGC AGATGAACCTCCAAAACTTTTGTCCGATGATGGAGTTAAAGTCTTGAAGCCTACTGCAGA ACCCGAGACAAGAGCGTCACAAAAGCGTGCTGTACACAATGCTGCAAAGGTATCTAAGCA TGATGTGGTGAAGGAAGATGCAAAACCTGGGAGATCTACTAGCAGGGGTCTTAATCAACA AGCCTCTGCTATTCCTGTTGACAAAGAAGTATTGTCTCAGGCAGCTGATGGTGTGCTGGA TACTAATCCCACTAGTCCGTTGGTTGGCACAAATGGTAATGTACATCCGGCACCACGAAA GCAAAAAAGATCTGTCGCCGTTGAAGAACAAGAGAGGACAGGTAAACGAAGGAAAGGAGA GATTGAAGGCCGGGATGGTGACTTGGCAGAACACCATACGGACAAAGAAAAAAAATTGGA CCCGCGATCAGTAGATAAATTTCGTTCTGTGGATCATGAGAGAGGTGCTAGTGAGGAACA AAACCTAATTCGGACAGAGAAATTAAAAGAAAAGTTCGATGAGAAATATGAAAGAGATCA TAGAGAAAAAGCAGATCGGTCTGAGAGGCGCCGTGGAGAAGACGTGGTTGAGAGACCAAC AGACAGATCATTGGAAAGGAGAGAGCGTTCTATTGAAAAGATGCAAGAGAGAGTTCCTGA AAAAGGAAGAGAAGACAGGAATAAGGAGGAGAGGAACAAAATTAAGCATGAACCCATAGA CCGAGCACATACTATTAAGAATGAACCCATAGACCGAGCACATACTATTAAGCATGAACC CATAGACCGAGCACATACTATTAAGCATGAACCCATAGACCGAGCACATACTTCTGACGA ACGCTTCCGAGGGCAAAGCTTGCCACCACCTCCACCTCTTCCAACTAGTTTTGTACCCCA ATCAGTCGCTGCTAACCGAAGAGATGAAGACATTGACCGAAGGGGGAGCAGCACCAGGCA TACACAGCGGTTGTCTCCCAGGCGTGATGAGAAAGAAAGGTGGCACTTGGAGGAGAATGC TCCGCTGTTGCAGGATGATGGGAAGCACAGGAGAGAGGAAGATCTCCGGGATAGAAAGCG TGAAGATAGGGATGTTTCATCAAGCAAGGTAGACGACAGGGATAGGGACAAAGGTAATAC TGTGAAGGAAGATAGTGATCCTAATAGTGCATCCAAACGTCGAAAGATTAAAAGAGAACA GTCTGCTTTGGAGGCTGGGGAATACGCGCCTTCTGCTCCACAGCCTCCGAGCGTTGGACC TGGTAACTCACAGTATGAAATACGAGAGAGAGAAAGAAAGGGTGCTATTTCACAGCATCG TCCATCACATGCTGATGACCTTCCTAGGATGCATGCCAAGGATTCAACAAGCAAGACAAG TCGTAGAGAGGCTGACCAAACGCATGATAGAGAATGGGAAGAGGAGAAGAGGCCAAGAAC TGAAGCAAAGAGGAAGCATCGGAAGTAGGTTCATGCGGGTGTCTTGATCATTCTCACATA TCAAGGTGTTTCACTTGGCGATGTGCACCTGCGAACAAGTCGCTTTCTTGTAGGAGGAAA ATGTATCTGGCATATTTGAACCATTCAGTGTGTATGCCTCACTCCATGGTTTTAGAAAGG TTTGCTGGGGCTGAAGAGGATCCACATGATCAATCCTTCAGCAGTACTCCGTCAATGCTA TCCAGATGCAAATTATTGCAAACATTGTTGATTGCAAGGAACATATGGCCTGTTATACAG GTCGTTATAAACATTTTAGCAATGTGGAATGTAAGGAAGAGTACATGGGCCATACCATTA ACTTAGACGGATTTGCTGTAAACAAGGATGAGCAGTTTTTCGCCCAGCTATTTTTTGTAT TTTATTTTGTACTAAATGCAGACAGTTTTGTTGTGGGAGGCATTTGTGCTTCCTTTTTCT GCACCGTCTAGGAGGAATAGCAGGGTGGCGGGTTGTGAGTAGGTTGTACATGTACAGTTA CAATGGTCGCATGAACCATCGTGTTCTAGATGTTAAACTGAGATGGTTGCATAAACCGTC GTGTTCTAAATGTTAACTGAGATGGTTGCATGAACTGTTGTGTTCCACTTCCTCCGTTCT TAAATACAAG
Protein Sequence (643 aa)
>BART1_0-u25331.004 643 150831_barley_pseudomolecules MESKEYMEIRNALIVLTKITSIFPVMRKSGINIEKRVAKLKGDEREDLKVLATGVAAALA ARKSSWVSEEEFGMGHLDLKPVLAKPIAGNQYADPSTAKDHSVRAKSVEGRHERSENAMK PDAQHKKNASTTNGSDSQIPSSSAQGKGSGIARGADEPPKLLSDDGVKVLKPTAEPETRA SQKRAVHNAAKVSKHDVVKEDAKPGRSTSRGLNQQASAIPVDKEVLSQAADGVLDTNPTS PLVGTNGNVHPAPRKQKRSVAVEEQERTGKRRKGEIEGRDGDLAEHHTDKEKKLDPRSVD KFRSVDHERGASEEQNLIRTEKLKEKFDEKYERDHREKADRSERRRGEDVVERPTDRSLE RRERSIEKMQERVPEKGREDRNKEERNKIKHEPIDRAHTIKNEPIDRAHTIKHEPIDRAH TIKHEPIDRAHTSDERFRGQSLPPPPPLPTSFVPQSVAANRRDEDIDRRGSSTRHTQRLS PRRDEKERWHLEENAPLLQDDGKHRREEDLRDRKREDRDVSSSKVDDRDRDKGNTVKEDS DPNSASKRRKIKREQSALEAGEYAPSAPQPPSVGPGNSQYEIRERERKGAISQHRPSHAD DLPRMHAKDSTSKTSRREADQTHDREWEEEKRPRTEAKRKHRK