- Transcript BART1_0-u27957.003
- Transcript IDBART1_0-u27957.003
- Gene IDBART1_0-u27957
Barley RTD
Exon Structure of BART1_0-u27957.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 166877905 | 166876660 | - |
| chr4H | 2 | 166878412 | 166878081 | - |
| chr4H | 3 | 166878985 | 166878513 | - |
| chr4H | 4 | 166879379 | 166879237 | - |
| chr4H | 5 | 166880213 | 166879812 | - |
| chr4H | 6 | 166880687 | 166880335 | - |
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 | 3.83691 | 6.20759 | 8.69686 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 1289.43 | 2136.91 | 2369.55 |
| morex | EPI | 2776.03 | 1643.57 | 2539.46 |
| morex | ROO | 0.755859 | 0.879071 | 1.21652 |
| morex | ROO2 | 4.03222 | 3.41679 | 4.0864 |
| morex | NOD | 135.078 | 84.6487 | 133.282 |
| morex | RAC | 79.283 | 84.9901 | 91.8467 |
| morex | INF1 | 7.85531 | 10.9931 | 8.57986 |
| morex | INF2 | 8.42013 | 5.90189 | 10.9048 |
| morex | CAR5 | 44.6714 | 17.4928 | 23.8822 |
| morex | CAR15 | 16.453 | 26.3514 | 23.2871 |
| morex | LEM | 666.096 | 651.596 | 825.208 |
| morex | LOD | 6.25692 | 7.33248 | 5.92177 |
| morex | PAL | 227.123 | 277.146 | 261.416 |
| morex | SEN | 5021.29 | 5150.13 | 4920.75 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g47970.1 | +3 | 0.0 | 760 | 375/437 (86%) | protein|AAA-type ATPase family protein, putative, expressed |
| TAIR PP10 | AT2G39730 @ ARAPORT AT2G39730.2 @ TAIR |
+3 | 0.0 | 669 | 334/442 (76%) | Symbols: RCA | rubisco activase | chr2:16571046-16573345 REVERSE LENGTH=446 |
| BRACH PP3 | Bradi4g09125.1.p | +3 | 0.0 | 810 | 398/449 (89%) | pacid=32783475 transcript=Bradi4g09125.1 locus=Bradi4g09125 ID=Bradi4g09125.1.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 (2949 bp)
>BART1_0-u27957.003 2949 150831_barley_pseudomolecules CGTATCTGCAGCTGCAGCTGCAGCGTTTGGTCTTGACGGTCCAAGTCATCCAACCGGCCG GCCAAGACGCTCAGAACCCAATCTCCAGCGTGTGGCCTCTGGGGGATCGGGAGGCTGATC CACAAGCAGGGGTGTGTGTATGCCGCCTCCTCCTCCAAGCTCCCCACAGCAGAGCAGCAA TATGCCAATCCACGTGTATTTAAGGCGTCACATAGCTCGGCCTCTATACTTTGAGCAGCA GCAGTCATTCATCACTGATCACCAGCACAGCCGCGCGCATCCACCGTTGCTAGCAAGGTC GACCAAGCAGCACAGAGATGGCTGCTGCCTTCTCCTCCACCGTCGGGGCTCCGGCTTCTA CGCCGACCAACTTCCTCGGGAAGAAGCTCAAGAAGCAGGTGACCTCGGCCGTGAACTACC ATGGCAAGAGCTCCAAGGCCAACAGGTTCACAGTCATGGCAGCGGAGAACATCGACGAGA AGAGGAACACCGACAAGTGGAAGGGTCTTGCGTACGATATCTCCGACGACCAGCAGGACA TCACCAGAGGGAAGGGCATCGTGGACTCGCTCTTCCAGGCGCCCACGGGCGACGGCACCC ACGAGGCCGTCCTCAGCTCCTACGAGTACGTCAGCCAGGGCCTGCGGAAGTACGACTTCG ACAACACCATGGGAGGCTTCTACATCGCTCCTGCTTTCATGGACAAGCTTGTTGTCCATC TCTCCAAAAACTTCATGACCCTGCCCAACATCAAGAAGCAGCAATAAAATGAATCATTCT GATTCTGAAACTGACCTTGAATCGAAATTCAGATCCCACTCATCTTGGGTATCTGGGGAG GCAAGGGTCAAGGAAAATCATTCCAGTGTGAGCTTGTGTTCGCCAAGATGGGCATCAACC CCATCATGATGAGTGCCGGAGAGCTGGAGAGTGGGAACGCTGGAGAGCCAGCCAAGCTCA TCAGGCAGCGGTACCGTGAGGCTGCAGACATGATCAAGAAGGGTAAGATGTGCTGCCTCT TCATCAACGATCTTGACGCTGGTGCGGGTAGGATGGGCGGAACCACGCAGTACACCGTCA ACAACCAGATGGTGAACGCCACCCTGATGAACATCGCCGATGCCCCCACCAACGTGCAGC TCCCTGGCATGTACAACAAGGAGGAGAACCCCCGTGTGCCCATCGTCGTCACCGGTAACG ATTTCTCGACGCTCTACGCTCCTCTGATCCGTGATGGTCGTATGGAGAAGTTCTACTGGG CTCCCACCCGTGACGACCGTATCGGTGTCTGCAAGGGTATCTTCCAGACCGACAATGTCA GTGACGAGTCTGTCGTCAAGATCGTCGACACCTTCCCAGGACAATCCATTGACTTTTTCG GTGCTCTGCGTGCTCGGGTGTACGACGATGAGGTGCGCAAGTGGGTCGGCTCTACCGGAA TCGAGAACATTGGCAAGAGGCTGGTGAACTCGCGGGACGGGCCCGTGACCTTCGAGCAGC CAAAGATGACAGTCGAGAAGCTGCTAGAGTACGGGCACATGCTCGTCCAGGAGCAGGACA ATGTCAAGCGTGTGCAGCTTGCTGACACCTACATGAGCCAGGCAGCTCTGGGTGATGCTA ACCAGGATGCGATGAAGACTGGTTCCTTCTACGGTTAGAAAATTCTCCATACACACCCAC CATCTCTTGCTGCATAGGAGGAGGTAAAGGAGCACAGCAAGGTACTTTGCCCGTGCCGGA AGGTTGCACCGACCAAAATGCCAAGAACTACGACCCAACGGCAAGGAGCGACGACGGCAG CTGCCTTTACACCTTTTAAGCATGCCACTTTTAATATCTGATGTTTTACCTACCTAAGTC CGCATCGCATCCAAGCGATTGCTGGGCATGTTTTGTTAATATATCTCTAAATATATTGAG TATACCCATTTGGCAAAGACCAATACACCTACTTATCATTTGTCACTCTCAGTATTCATT CCTTCAGTGGAGACTCCTTCTGCTTTGTTGCAAACAGAACAAGAAAGTATTAATTTGAGC TTCAGCTTATTAATTATTATTGCACAAACGCATGGAAACTGAGAGTCAATTGCGATCATG CGATACATACAGCGTGTAATTTTAGCCCTGATGTTCCAACGTCCAAATTAGATCCCCAAA ACTAAACGTCATTTAAGCTTAGAAAGACAAACAGAAAGGAGCAGTTGTTTCAAATGATTG CTGTGGAGAACTACATCCTTAATAAGCAGCTGCATCATGATGTGGTTCCCTAAGAGCATC TCCAGCCGTTCGATCTTCCGGGGCGTAAAATAGCGCCTCCTGGAGGCGCGTCGGCGGAAA AATCGACGTGGGAGGCTCGGGTTCCCAGCCGTCCCCCAAGGTCGCCCCCACCCGCTGATT TCTGCACATTTTCGGTGCTAATTGGCCCACTTTCAGCGCAAATTGGTTCACTTTCGACGC AAAATGAGACCAATTTTGATCCATATTCAGCATGCTTTAACACAAATTAAACAAATCATT TATTTTTCTATCACATAGTTCATCACAGAAATCAATACAAATCAAAAATAGTTTAACAAA TCAAAATAGTTCAACAAATAAAAACTCATAATTCATCACACATCGAGCTAGGCGTTGCCC TTAAGCCTCCATAGGTACTCCACCAAATCGGTTTATAGTTGTTGATGCACCTGTGGGTCT CGAATCTCCTGACACATGTTGATGAAGGCACTCGAAGTTGCCGGTAGCTGGTGATCAACT TGGGCAAGGGGACCCTGCCTGTAATATGGTTCAATGTCAAAGACGGGCTCTTCCCGCTCG CTCTCAATGTTCATGTTGTGCAAGATGACACACCAAGTCATGTCTTCTCACATTTGATCT TTCGACCACGTCTGAGCGGAGTATCGAACAATAGAAAAACGAGATTGGAGCACACCAAAT GCTCGCTCG
Protein Sequence (256 aa)
>BART1_0-u27957.003 256 150831_barley_pseudomolecules MGINPIMMSAGELESGNAGEPAKLIRQRYREAADMIKKGKMCCLFINDLDAGAGRMGGTT QYTVNNQMVNATLMNIADAPTNVQLPGMYNKEENPRVPIVVTGNDFSTLYAPLIRDGRME KFYWAPTRDDRIGVCKGIFQTDNVSDESVVKIVDTFPGQSIDFFGALRARVYDDEVRKWV GSTGIENIGKRLVNSRDGPVTFEQPKMTVEKLLEYGHMLVQEQDNVKRVQLADTYMSQAA LGDANQDAMKTGSFYG