- Transcript BART1_0-u20322.086
- Transcript IDBART1_0-u20322.086
- Gene IDBART1_0-u20322
Barley RTD
Exon Structure of BART1_0-u20322.086
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 230454148 | 230453800 | + |
| chr3H | 2 | 230454815 | 230454273 | + |
| chr3H | 3 | 230455710 | 230455544 | + |
| chr3H | 4 | 230456521 | 230456416 | + |
| chr3H | 5 | 230456754 | 230456620 | + |
| chr3H | 6 | 230457777 | 230457660 | + |
| chr3H | 7 | 230458200 | 230458030 | + |
| chr3H | 8 | 230459481 | 230458788 | + |
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 | 0.00470901 |
| morex | ETI | 1.13095 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0.114168 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0.0571421 |
| morex | RAC | 0 | 0.802966 | 0 |
| morex | INF1 | 0 | 0.000939846 | 0.0867628 |
| morex | INF2 | 0.331077 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0.369986 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 1.13021 | 0 |
| morex | LOD | 0.276952 | 0.061858 | 0.0800072 |
| morex | PAL | 0.0303836 | 0.000176289 | 0.0889828 |
| morex | SEN | 0 | 0.488237 | 0.00000744548 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g19480.1 | +3 | 5e-54 | 125 | 66/114 (58%) | protein|SET domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g64460.4.p | +3 | 5e-58 | 147 | 76/113 (67%) | pacid=32796250 transcript=Bradi1g64460.4 locus=Bradi1g64460 ID=Bradi1g64460.4.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 (2283 bp)
>BART1_0-u20322.086 2283 150831_barley_pseudomolecules AAAAAACCCTATCGTCATCCTACCCCCCGCACATCGCTACCCTATGCCGCCGTCATCATC GCCGAGGGGATCCCCAGTCCCCGACCGCGGCCACCCGATCCCATGCCTGACCTTGGCGGC GCCGACACGTCCCCGATCGCGGTCGCCCCGCTCCCTCCAGATTGCGGCAGGACCGCCTCG TCCCCGACCGCGGCCGCGTCACCCTGTCAAAGAACGGTGACGCCTCACCCCGTCCCCGAC CACGGCCGCCTCGCGTCGAGGAGAAGTAGGTGGTCGGCCTACGGCGGCTCGAACCATCGC CATGGCGTCGTCCTCCTCCAAAGCCTCCTCCCACCGGGATGGCCCCATGATCAGTGGCTC GACGTGGGCACCTCCGCGCTCATGGCGCTCCACGGGAAGCTGACGCAGATGAAGCGCCAA ATCCAGCAGGCCCGCCTCACCTCCATGAGGATAAAGCATCGGCATCATCTACGGAATTCC TTGTGAATTGTGAGTTTCGGGTCACTCAATGTGATCCTCCTGTTTTGAGCTTGTGTGCCT ATGTTGTGTTTTGACAGGAGAAGCTGGAGGCAAACAGGAGGGCGTTGCAGAAGCACACCG GCGGCCTGTTCGATGTGGCTGCCAAGGCGGAGGCGGCGTTGAGGGGCTCGGAGAGCAGCA ATGTGCTGTCGCAGCTCGCCTCGGACGGCCAGTCCAGGATCGTTGGGTGGAACCTGGCGA GAGGGTCGGGGGAGAGGAAGGTTGTGCATGTGCAGGAGGAGAACCTGTCGGCCGACGGGA TGCTCGTGCTCTGCAGCTCCGGCAACGGCGCACAAACCATCGTTTTGTAGATTATGAAGC TGTCGTCGGTTGATAAGATTCCTCCCTACACCACGTGGATCTTCCTGGACAATGCAGAAA CCAAAGAATGGCCGATGATCAATCAATTGCTGGTAGGAGGAGAATTTACTATGATTCAGC TCGCAACGAGGCTCTAATCTGGAGTGAAAGTGATGAACAAATTGCACAACCTGAGGAAGA GAAGCATGTTTTCACTGAAGCAGAAGATCAGCTAATATGGAAGTAAAATATGCGTCGGAG ACGGCTATGAAGGCATCAACATGAACCGGAGGGCCGTGAGGGACATCAAGAATATGATCA GCATGTTTGTGAGATGTTCTTCCATATTTTCACATGACTGATGCCCAGAGCTAGCAGGTC TCAGGACTGAGCTCGTGCCCATGCGGCAGAGCAAGGGATACTTATGGAACATATACGTTG TGCCAATGCATCGTTAGGCGAACATCTTTCTATTTTGCAGCAAGTGCAGATGGTTATACG TTTGAAACATCAACTGGCCTGTCAAGAATGTGAGAGGCCCTCGGGAGTGAAAAAACTATC ATTTGAGATAGTTGTTGGATTGAACAGCCGGAGCGTGGTGGCAAGGCAGCTAGAGACAAA AAGGGAATTGGTGAAAGAGCAACTCGCACATCTATAGGTCTCTTGGAATCTCACATTTAT CAATTTATGGAAAAGGGCATCCATTGGCATTCTAATAATTTTGTTAGAGAACGGCATGGA CTGAGGCAGCCGATGTGAACGAACACCGGGTACCCATAAACAAGAGGAAAAAACAACACA TGTACAACGACAACAAGGTTAGCTAAGAAAAAATCAGGCTGCCGGTGTCTATTAACCTAG GGCATGATCTTGGGACGTCCGGCTTCTTTCCAAAGTGAGATCTCATCCAACATCAGGTTG AAGACACTCAAAATGGTGGAACTTAAGTTGCGGACAATTCTGGTGTTTCGCTCCTTCCAC GTGAACCACCAGATAGCCTGCACTAAGTAGTTCCATCCCTTCTTCTTCGGGGCAGCAAGA CTGGCAGCGGAACTTTCCACTCAATCTGAGAGGCGGCTGGTGTCGCTGGAGGGGCCTAAA GTAGCCGAGGTTGCAGGTAGCAGCATGAGCCGCCAAATAGCCTGAAAAATAGGCATTGAG TGAGCAAAAGAATGTTGTCTTCATCCGTTGAGCGACTCATGTAGTACACCGGATCAGGGG AGCAGCCCCTTTTCTGCACATTGTCCCCGGTATATGTTGGCTTGGCCTTCTACTGCCCTT TAGTTATGTTACTGTCTAGAAATATTTGTAGTAGTTTTAAGATTTGAAAGCTCATTTTTA TTAACTTGCTGTGTGTATGTGATTGTGAACTACTTCCATATTTTAGAAATATTATAAGGG AAAAGTTTTTGGTCAGCCGGCGGATCTGTCTGTGTGCACATCAATCGCCTTTCTGACCAT CGG
Protein Sequence (161 aa)
>BART1_0-u20322.086 161 150831_barley_pseudomolecules KKPYRHPTPRTSLPYAAVIIAEGIPSPRPRPPDPMPDLGGADTSPIAVAPLPPDCGRTAS SPTAAASPCQRTVTPHPVPDHGRLASRRSRWSAYGGSNHRHGVVLLQSLLPPGWPHDQWL DVGTSALMALHGKLTQMKRQIQQARLTSMRIKHRHHLRNSL