- Transcript BART1_0-u20322.007
- Transcript IDBART1_0-u20322.007
- Gene IDBART1_0-u20322
Barley RTD
Exon Structure of BART1_0-u20322.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 230454815 | 230453725 | + |
| chr3H | 2 | 230455710 | 230455549 | + |
| chr3H | 3 | 230456504 | 230456411 | + |
| chr3H | 4 | 230456754 | 230456614 | + |
| chr3H | 5 | 230457777 | 230457660 | + |
| chr3H | 6 | 230458200 | 230458030 | + |
| chr3H | 7 | 230459420 | 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 |
| morex | ETI | 0.484242 | 0 | 0.176 |
| morex | LEA | 0 | 0 | 0.426806 |
| morex | EPI | 0.176617 | 0.198328 | 0 |
| morex | ROO | 0.280016 | 0.230139 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0.265884 | 0 |
| morex | RAC | 0 | 0.21905 | 0 |
| morex | INF1 | 0 | 0 | 0.197656 |
| morex | INF2 | 0.0000000680776 | 0.7266 | 0 |
| morex | CAR5 | 0 | 0.515846 | 0.318087 |
| morex | CAR15 | 0.108507 | 0 | 0 |
| morex | LEM | 0.324612 | 0.670822 | 0.447027 |
| morex | LOD | 0 | 0.278214 | 0 |
| morex | PAL | 0 | 0 | 0.250107 |
| morex | SEN | 0 | 0 | 0.371847 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g19480.1 | +1 | 1e-57 | 209 | 108/168 (64%) | protein|SET domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g64460.4.p | +1 | 9e-66 | 234 | 120/167 (72%) | 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 (2410 bp)
>BART1_0-u20322.007 2410 150831_barley_pseudomolecules ATTTTTCGTCTCCCAACGCTCGCAAGTAAAAAAACGCATAACATCAAAACAGCCCCGTAC GTGAGATTGCGCGTCAAAAAACCCTATCGTCATCCTACCCCCCGCACATCGCTACCCTAT GCCGCCGTCATCATCGCCGAGGGGATCCCCAGTCCCCGACCGCGGCCACCCGATCCCATG CCTGACCTTGGCGGCGCCGACACGTCCCCGATCGCGGTCGCCCCGCTCCCTCCAGATTGC GGCAGGACCGCCTCGTCCCCGACCGCGGCCGCGTCACCCTGTCAAAGAACGGTGACGCCT CACCCCGTCCCCGACCACGGCCGCCTCGCGTCGAGGAGAAGTAGGTGGTCGGCCTACGGC GGCTCGAACCATCGCCATGGCGTCGTCCTCCTCCAAAGCCTCCTCCCACCGGGATGGCCC CATGGTATCGTTAGTCGGCCTTCGATTCCCCTAGCCGCCCGGTTCCCCGCCTCAATCTCC CTCCCGAATCTAATCTGTTTCGATCCTTTTTCGTCCCCTGGTTTTATCTCGTGCTCTGCA CCGGACAGATCAGTGGCTCGACGTGGGCACCTCCGCGCTCATGGCGCTCCACGGGAAGCT GACGCAGATGAAGCGCCAAATCCAGCAGGCCCGCCTCACCTCCATGAGGATAAAGCATCG GCATCATCTACGGAATTCCTTGTGAATTGTGAGTTTCGGGTCACTCAATGTGATCCTCCT GTTTTGAGCTTGTGTGCCTATGTTGTGTTTTGACAGGAGAAGCTGGAGGCAAACAGGAGG GCGTTGCAGAAGCACACCGGCGGCCTGTTCGATGTGGCTGCCAAGGCGGAGGCGGCGTTG AGGGGCTCGGAGAGCAGCAATGTGCTGTCGCAGCTCGCCTCGGACGGCCAGTCCAGGATC GTTGGGTGGAACCTGGCGAGAGGGTCGGGGGAGAGGAAGGTTGTGCATGTGCAGGAGGAG AACCTGTCGGCCGACGGGATGCTCGTGCTCTGCAGCTCCGGCAACGGCGCACAAACCATC GTTTTGTAGATTATGAAGCTGTCGTCGGTTGATAAGATTCCTCCCTACACCACGTGGATC TTCCTGGACAAAAACCAAAGAATGGCCGATGATCAATCAATTGCTGGTAGGAGGAGAATT TACTATGATTCAGCTCGCAACGAGGCTCTAATCTGGAGTGAAAGTGATGAACAAATTGCA CAACCTGAGGAAGAGAAGCATGTTTTCACTGAAGCAGAAGATCAGCTAATATGTGCAGGA AGTAAAATATGCGTCGGAGACGGCTATGAAGGCATCAACATGAACCGGAGGGCCGTGAGG GACATCAAGAATATGATCAGCATGTTTGTTCAGATTTTCACATGACTGATGCCCAGAGCT AGCAGGTCTCAGGACTGAGCTCGTGCCCATGCGGCAGAGCAAGGGATACTTATGGAACAT ATACGTTGTGCCAATGCATCGTTAGGCGAACATCTTTCTATTTTGCAGCAAGTGCAGATG GTTATACGTTTGAAACATCAACTGGCCTGTCAAGAATGTGAGAGGCCCTCGGGAGTGAAA AAACTATCATTTGAGATAGTTGTTGGATTGAACAGCCGGAGCGTGGTGGCAAGGCAGCTA GAGACAAAAAGGGAATTGGTGAAAGAGCAACTCGCACATCTATAGGTCTCTTGGAATCTC ACATTTATCAATTTATGGAAAAGGGCATCCATTGGCATTCTAATAATTTTGTTAGAGAAC GGCATGGACTGAGGCAGCCGATGTGAACGAACACCGGGTACCCATAAACAAGAGGAAAAA ACAACACATGTACAACGACAACAAGGTTAGCTAAGAAAAAATCAGGCTGCCGGTGTCTAT TAACCTAGGGCATGATCTTGGGACGTCCGGCTTCTTTCCAAAGTGAGATCTCATCCAACA TCAGGTTGAAGACACTCAAAATGGTGGAACTTAAGTTGCGGACAATTCTGGTGTTTCGCT CCTTCCACGTGAACCACCAGATAGCCTGCACTAAGTAGTTCCATCCCTTCTTCTTCGGGG CAGCAAGACTGGCAGCGGAACTTTCCACTCAATCTGAGAGGCGGCTGGTGTCGCTGGAGG GGCCTAAAGTAGCCGAGGTTGCAGGTAGCAGCATGAGCCGCCAAATAGCCTGAAAAATAG GCATTGAGTGAGCAAAAGAATGTTGTCTTCATCCGTTGAGCGACTCATGTAGTACACCGG ATCAGGGGAGCAGCCCCTTTTCTGCACATTGTCCCCGGTATATGTTGGCTTGGCCTTCTA CTGCCCTTTAGTTATGTTACTGTCTAGAAATATTTGTAGTAGTTTTAAGATTTGAAAGCT CATTTTTATTAACTTGCTGTGTGTATGTGATTGTGAACTACTTCCATATTTTAGAAATAT TATAAGGGAA
Protein Sequence (250 aa)
>BART1_0-u20322.007 250 150831_barley_pseudomolecules IFRLPTLASKKTHNIKTAPYVRLRVKKPYRHPTPRTSLPYAAVIIAEGIPSPRPRPPDPM PDLGGADTSPIAVAPLPPDCGRTASSPTAAASPCQRTVTPHPVPDHGRLASRRSRWSAYG GSNHRHGVVLLQSLLPPGWPHGIVSRPSIPLAARFPASISLPNLICFDPFSSPGFISCSA PDRSVARRGHLRAHGAPREADADEAPNPAGPPHLHEDKASASSTEFLVNCEFRVTQCDPP VLSLCAYVVF