- Transcript BART1_0-u11397.001
- Transcript IDBART1_0-u11397.001
- Gene IDBART1_0-u11397
Barley RTD
Exon Structure of BART1_0-u11397.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 405593990 | 405593634 | + |
| chr2H | 2 | 405594558 | 405594075 | + |
| chr2H | 3 | 405594715 | 405594650 | + |
| chr2H | 4 | 405594910 | 405594845 | + |
| chr2H | 5 | 405595321 | 405595025 | + |
| chr2H | 6 | 405595560 | 405595400 | + |
| chr2H | 7 | 405596685 | 405596579 | + |
| chr2H | 8 | 405598229 | 405596793 | + |
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 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0.0000000625774 | 0.331462 | 0.0061608 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0.00182532 | 0.688314 | 0.0000534106 |
| morex | ROO2 | 0.500815 | 0.0674006 | 0 |
| morex | NOD | 0.585441 | 0 | 0 |
| morex | RAC | 0 | 0 | 0.477769 |
| morex | INF1 | 0.000351894 | 0.0000865836 | 0.0300302 |
| morex | INF2 | 0.248347 | 1.16427 | 0 |
| morex | CAR5 | 0.142339 | 0.000093538 | 0.0000196559 |
| morex | CAR15 | 1.09342 | 0 | 0.000653128 |
| morex | LEM | 0 | 0.00329748 | 0 |
| morex | LOD | 0.511753 | 0 | 0 |
| morex | PAL | 0 | 0 | 0.00304373 |
| 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_Os07g05010.1 | +2 | 2e-76 | 258 | 150/239 (63%) | protein|helix-loop-helix DNA-binding domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g58230.1.p | +2 | 3e-139 | 422 | 258/388 (66%) | pacid=32794195 transcript=Bradi1g58230.1 locus=Bradi1g58230 ID=Bradi1g58230.1.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 (2975 bp)
>BART1_0-u11397.001 2975 150831_barley_pseudomolecules TCTACTTACTGAATTTGGATTTTCATGTTCAATCTCCGCACAGTCAGGGAGCAAGTATTT TTCTTGGTGGCTGCCCCTGCCGCCGATTCACAGTCACACTCACTCACAGGGCGGACAGCG ATGTCAACGGATCCTCCCCCTCCATACGAATGCCGCACAACTCTTCTCTCCTCTTCTCTT CTCTCGTCCTTTTATTATTCCCGAGAAAATCGAACCCAGCTAGACAGTCCACAGCTCTGG CACACAGCTTCGCTCTCCGCCGGTTTCTGCTCAAGTGGAGAGGCCCGTCAGCTCGATCGG TTCCAGGATCATGGACGACGGCGCAACACCGCCGCCCAACCACAAGAGGCACCTCCCACT GCGGGAGGCGGGCGGCGACCTCGTGGAGCTGCTGTGGCAGAACGGAGCCATCGTAGCGCA GGCGCAGGCGCAGACGCCGCACCGCCGGTGTTCCCAGAGCGGCGCGGCGAGCGGCGTCAC CGCGGAGGACGCGACCGCGTGGTTGATCCCGGACGGCGGCGGCGGCAGGGACCTGTACTC GCACCTCTGGCACGGCGTCGCCGACGGGGATGCGGGCGCGCTCGTGGCGGGGAGCGGCGG CGCCGGGACGAGCTTCTGCGGGAGCAACGCGGTGACGGCGCCGGCGCTGCTGCCATCGCC GGGCTCGTCCGCAGCGGGAGGCCAAGCGCTACTGTTCAAGAGGGGGAGGGACCAACTGGA TAGCCGCCGAGAGGACGAACTGGATACCGACGACTGTGAGGCCGTCAATGAGACCCGGCC GCAGCGGCCGGCAGCGAAGCGCAGGACTCGTGCTGCCGAGGTCCATAACCAATCAGAGCG GAGAAGAAGGGATCGGATCAACGAAAAGATGAAAGCATTGCAAGAACTCGTACCCCATTG CAACAAGAGCGACAAGGCGTCCATTCTAGACGAAGCAATCGAGTACTTGAAGTCTCTGCA ACTGCAAGTTCAGATCATGTGGATGACTACTGGGATGACGCCCATGATGTACCCTGGTGC TCACCAACTCATGTCGCCGATGGCCGTGGGCTTGAACTCAGCGTGCATTCCCACGGCGCA GAGCCTTAGCCAGCTGCAAAAAAGGGTAGCACCGTTTATGAACAATCATCTCCCCGATCA AATGCCTCAGGTCCAATCTCCAGCTATCGATTCCCTCGATGTGGCAAACCAGATGCAAAA CAATGGTGTCTGTGGTGAGCCAAGAAACCCTTTCCTGCATCCAGACGACACGCTAACAGC GGCATCTCAGCTTCCGGGTATGTTGCCCTATGCATCTCAAAAGGCACAACAAAACCAGAA TCATCAGTTACTGCCTAGCATAGACATGCCAGCTTCAGGACCCTGCCCGCCATCTTTTGC TGACGGAACGGGAAAATAAGGCCAGGCAGTTTCAAGCAAGATGATTTACTGATTGGCCAT CTATCTATATGATAATATAAGATGCCAAGGAAACTCAGACATGTCCTTCACATCCCTAAC GAACGGCCAGAATATCACCTGGCATATATAACTCGCAGGGGGGTTGGATACAGGAGGTCA GAGCAAACTAGTCATAGAAGAGAAGAGATATGGTACCAAGACACTCTGTGCTGTAAGGCC AGGGGCAGATCATGCAACATTGAGCCTTGGTGGCACCACTAAGCAACCAACACGTATGGG CCCGAGATCATGCGGAATTGCGGATAGCAGATACTATTCTTATCCGAAGAATAGTCTTGA GCACCACCTTTCTATTTATGGAAGGATTTGGTCCATGGGAGATGAACTTGGGGCTTTGAC AGGGACAACAAAAGATGATTGTGCCGATATGCTGCAGATCTGGAGATGACATTGTTGGAG CCAGGATCTGCACAATGACACAACTTGTGCACTTCTGCTCGTCTTTCCACCGATGTAACT CCACTCCACTGGTGAGTCCTAATGGGACTGTCCTGTTGACCCGCGGTCGAGCTATCGATA TTCGAATGGACGGCTGAAACAAGGGTAGGCAGAAGAAACTTGTGCTTTTCGGACACAATT GTAGATCAGGTTTGCATATGCCTTTCAGAAATTCAGACAAGTGGTACATGAAGATCATTC TCATTCGGCCATCAGGATCGCGAGATTATCGCCTTACCCTTAACCCTGGAAAGATTGTAC CGCATGTGGTGATGTCCTGTTACAAGTTAATCAGGACTGTGATGGGCATCATCCGTTTCG TCACAGGGTAATTAGTCTCTGAAAATATCAATGATGCTGCATCTTTTGTTGTGTTATACT CCAATTGTGAGTCAGCTTCAGTCGCCGTCAGGGGAGACTGGGACTTTGCTTCGCATTTAC ACGTCCAGATTTGGTTGTCATGCTCGTATCATAGCGATTGATGTAGATGCTTGGCAATTT GGAGGACAGATATTCATACCATGAAAAAAAAGAGGACAGATATTCATTCTTTGCGTCTTG CTCTTGCTTCTATATATATCTAGGAAACCAGAACTAGTCAAAATTTCAAACATGTGAAAA GATTATTGGCTTCGCCCGGGTTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATA ACCAACTACACCACGAAACCTTTAGTGCTTTGTCCACATATGGTAAAGTTCTCTTCTAAC TACGCTCAGCTGACGAACCAAACGCAAGAAGAAAGCAAAGATAAAGTGGAAGGAAAAGGA GCAAGGAGGAGAGTAGGCGTTCTGAACACACCGACCTCTGATCCTTGCAATCTCGCTGAT GACTTTTACGCAGGGACGCAAGATTCCTGGCGAACGCAGGCCGCTGATCCTTACAATGTC GTTGATGACTTTTACGCAGAGATCCAAACCCAAAAGTATTCAGAAATACTATCTGGTGAA TGTTCGCTGGGCGGACAACCCCGGCGAACGCTCTCTCCCCCGTTGCATGGACCTTGGCGC AGGTCGCTGGCCACGTAGGATTGCTCGAGTAGTTC
Protein Sequence (362 aa)
>BART1_0-u11397.001 362 150831_barley_pseudomolecules MDDGATPPPNHKRHLPLREAGGDLVELLWQNGAIVAQAQAQTPHRRCSQSGAASGVTAED ATAWLIPDGGGGRDLYSHLWHGVADGDAGALVAGSGGAGTSFCGSNAVTAPALLPSPGSS AAGGQALLFKRGRDQLDSRREDELDTDDCEAVNETRPQRPAAKRRTRAAEVHNQSERRRR DRINEKMKALQELVPHCNKSDKASILDEAIEYLKSLQLQVQIMWMTTGMTPMMYPGAHQL MSPMAVGLNSACIPTAQSLSQLQKRVAPFMNNHLPDQMPQVQSPAIDSLDVANQMQNNGV CGEPRNPFLHPDDTLTAASQLPGMLPYASQKAQQNQNHQLLPSIDMPASGPCPPSFADGT GK