- Transcript BART1_0-u11397.010
- Transcript IDBART1_0-u11397.010
- Gene IDBART1_0-u11397
Barley RTD
Exon Structure of BART1_0-u11397.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 405593990 | 405593836 | + |
| chr2H | 2 | 405594558 | 405594075 | + |
| chr2H | 3 | 405594729 | 405594650 | + |
| chr2H | 4 | 405594910 | 405594845 | + |
| chr2H | 5 | 405595321 | 405595025 | + |
| chr2H | 6 | 405595560 | 405595400 | + |
| chr2H | 7 | 405596685 | 405596579 | + |
| chr2H | 8 | 405597695 | 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 | 0.441752 | 1.49747 | 2.21155 |
| morex | ETI | 8.39242 | 14.5714 | 17.5556 |
| morex | LEA | 2.92746 | 5.55796 | 5.36608 |
| morex | EPI | 17.2736 | 19.0173 | 16.9077 |
| morex | ROO | 1.39614 | 1.86744 | 0.898524 |
| morex | ROO2 | 1.14585 | 1.2529 | 1.06668 |
| morex | NOD | 0 | 1.58841 | 3.40354 |
| morex | RAC | 1.5114 | 0.973536 | 0.928651 |
| morex | INF1 | 0.3217 | 0.446333 | 0.565331 |
| morex | INF2 | 1.25348 | 0 | 0.809079 |
| morex | CAR5 | 0.000000218364 | 0.566657 | 1.55456 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 1.04704 | 0.200282 | 0.635353 |
| morex | LOD | 1.94206 | 0.694277 | 1.92811 |
| morex | PAL | 1.00319 | 0.359687 | 1.7818 |
| morex | SEN | 25.4311 | 33.2616 | 28.6546 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os07g05010.1 | +3 | 8e-44 | 164 | 103/191 (54%) | protein|helix-loop-helix DNA-binding domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g58230.1.p | +3 | 4e-61 | 211 | 128/189 (68%) | 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 (2253 bp)
>BART1_0-u11397.010 2253 150831_barley_pseudomolecules GAGAAAATCGAACCCAGCTAGACAGTCCACAGCTCTGGCACACAGCTTCGCTCTCCGCCG GTTTCTGCTCAAGTGGAGAGGCCCGTCAGCTCGATCGGTTCCAGGATCATGGACGACGGC GCAACACCGCCGCCCAACCACAAGAGGCACCTCCCACTGCGGGAGGCGGGCGGCGACCTC GTGGAGCTGCTGTGGCAGAACGGAGCCATCGTAGCGCAGGCGCAGGCGCAGACGCCGCAC CGCCGGTGTTCCCAGAGCGGCGCGGCGAGCGGCGTCACCGCGGAGGACGCGACCGCGTGG TTGATCCCGGACGGCGGCGGCGGCAGGGACCTGTACTCGCACCTCTGGCACGGCGTCGCC GACGGGGATGCGGGCGCGCTCGTGGCGGGGAGCGGCGGCGCCGGGACGAGCTTCTGCGGG AGCAACGCGGTGACGGCGCCGGCGCTGCTGCCATCGCCGGGCTCGTCCGCAGCGGGAGGC CAAGCGCTACTGTTCAAGAGGGGGAGGGACCAACTGGATAGCCGCCGAGAGGACGAACTG GATACCGACGACTGTGAGGCCGTCAATGAGACCCGGCCGCAGCGGCCGGCAGCGAAGCGC AGGACTCGTGCTGCCGAGGTCCATAACCAATCAGAGCGGAGAAGAAGGGATCGGATCAAC GAAAAGATGAAAGCATTGCAAGAACTCGTACCCCATTGCAACAAGGTACCAAAGAAACTA GCGACAAGGCGTCCATTCTAGACGAAGCAATCGAGTACTTGAAGTCTCTGCAACTGCAAG TTCAGATCATGTGGATGACTACTGGGATGACGCCCATGATGTACCCTGGTGCTCACCAAC TCATGTCGCCGATGGCCGTGGGCTTGAACTCAGCGTGCATTCCCACGGCGCAGAGCCTTA GCCAGCTGCAAAAAAGGGTAGCACCGTTTATGAACAATCATCTCCCCGATCAAATGCCTC AGGTCCAATCTCCAGCTATCGATTCCCTCGATGTGGCAAACCAGATGCAAAACAATGGTG TCTGTGGTGAGCCAAGAAACCCTTTCCTGCATCCAGACGACACGCTAACAGCGGCATCTC AGCTTCCGGGTATGTTGCCCTATGCATCTCAAAAGGCACAACAAAACCAGAATCATCAGT TACTGCCTAGCATAGACATGCCAGCTTCAGGACCCTGCCCGCCATCTTTTGCTGACGGAA CGGGAAAATAAGGCCAGGCAGTTTCAAGCAAGATGATTTACTGATTGGCCATCTATCTAT ATGATAATATAAGATGCCAAGGAAACTCAGACATGTCCTTCACATCCCTAACGAACGGCC AGAATATCACCTGGCATATATAACTCGCAGGGGGGTTGGATACAGGAGGTCAGAGCAAAC TAGTCATAGAAGAGAAGAGATATGGTACCAAGACACTCTGTGCTGTAAGGCCAGGGGCAG ATCATGCAACATTGAGCCTTGGTGGCACCACTAAGCAACCAACACGTATGGGCCCGAGAT CATGCGGAATTGCGGATAGCAGATACTATTCTTATCCGAAGAATAGTCTTGAGCACCACC TTTCTATTTATGGAAGGATTTGGTCCATGGGAGATGAACTTGGGGCTTTGACAGGGACAA CAAAAGATGATTGTGCCGATATGCTGCAGATCTGGAGATGACATTGTTGGAGCCAGGATC TGCACAATGACACAACTTGTGCACTTCTGCTCGTCTTTCCACCGATGTAACTCCACTCCA CTGGTGAGTCCTAATGGGACTGTCCTGTTGACCCGCGGTCGAGCTATCGATATTCGAATG GACGGCTGAAACAAGGGTAGGCAGAAGAAACTTGTGCTTTTCGGACACAATTGTAGATCA GGTTTGCATATGCCTTTCAGAAATTCAGACAAGTGGTACATGAAGATCATTCTCATTCGG CCATCAGGATCGCGAGATTATCGCCTTACCCTTAACCCTGGAAAGATTGTACCGCATGTG GTGATGTCCTGTTACAAGTTAATCAGGACTGTGATGGGCATCATCCGTTTCGTCACAGGG TAATTAGTCTCTGAAAATATCAATGATGCTGCATCTTTTGTTGTGTTATACTCCAATTGT GAGTCAGCTTCAGTCGCCGTCAGGGGAGACTGGGACTTTGCTTCGCATTTACACGTCCAG ATTTGGTTGTCATGCTCGTATCATAGCGATTGATGTAGATGCTTGGCAATTTGGAGGACA GATATTCATACCATGAAAAAAAAGAGGACAGAT
Protein Sequence (210 aa)
>BART1_0-u11397.010 210 150831_barley_pseudomolecules MDDGATPPPNHKRHLPLREAGGDLVELLWQNGAIVAQAQAQTPHRRCSQSGAASGVTAED ATAWLIPDGGGGRDLYSHLWHGVADGDAGALVAGSGGAGTSFCGSNAVTAPALLPSPGSS AAGGQALLFKRGRDQLDSRREDELDTDDCEAVNETRPQRPAAKRRTRAAEVHNQSERRRR DRINEKMKALQELVPHCNKVPKKLATRRPF