- Transcript BART1_0-u20608.001
- Transcript IDBART1_0-u20608.001
- Gene IDBART1_0-u20608
Barley RTD
Exon Structure of BART1_0-u20608.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 358149252 | 358148864 | + |
| chr3H | 2 | 358149679 | 358149564 | + |
| chr3H | 3 | 358149891 | 358149809 | + |
| chr3H | 4 | 358150386 | 358150265 | + |
| chr3H | 5 | 358152519 | 358152442 | + |
| chr3H | 6 | 358152688 | 358152595 | + |
| chr3H | 7 | 358153398 | 358153224 | + |
| chr3H | 8 | 358154280 | 358153493 | + |
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 | 0.294861 | 0 |
| morex | ETI | 0.440069 | 0.192144 | 0.399229 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0.17847 | 0 | 0.585776 |
| morex | ROO | 0.923574 | 0 | 0 |
| morex | ROO2 | 0.2974 | 0.603412 | 0.595654 |
| morex | NOD | 0.348852 | 0.580719 | 0.303534 |
| morex | RAC | 0.458348 | 0.368945 | 0.551233 |
| morex | INF1 | 0.341013 | 0 | 1.1639 |
| morex | INF2 | 0 | 0.23909 | 0 |
| morex | CAR5 | 1.01701 | 1.31314 | 1.14709 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0.170009 | 0.330857 |
| morex | LOD | 0 | 0 | 0.19905 |
| morex | PAL | 0.262991 | 0.215226 | 0 |
| morex | SEN | 0 | 0 | 0.421568 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g39790.1 | +2 | 1e-114 | 344 | 178/273 (65%) | protein|esterase/lipase/thioesterase, putative, expressed |
| TAIR PP10 | AT1G29840 @ ARAPORT AT1G29840.1 @ TAIR |
+2 | 1e-77 | 247 | 126/247 (51%) | Symbols: | alpha/beta-Hydrolases superfamily protein | chr1:10445735-10447422 REVERSE LENGTH=263 |
| BRACH PP3 | Bradi2g41780.1.p | +2 | 2e-131 | 387 | 195/267 (73%) | pacid=32782108 transcript=Bradi2g41780.1 locus=Bradi2g41780 ID=Bradi2g41780.1.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 (1845 bp)
>BART1_0-u20608.001 1845 150831_barley_pseudomolecules ATACGGCTTCTGTTCAAACACGCTAGTTTTCGATCCGCAAACGCGATCTTTGTAAAACCG CAAACGCGTTTTGCGGGTAAGTTTGGGCCAACCCACGAGAGCGCGAGCAAGAAATCCTAA TCCAACGGCTTCCAGCCCTTCGCGTTATCATTGGGTCCATCCAATGTAGCGCCTTCCTAG TGCGTTCTTTTCTTTGTACACCTTAAATTCCACGCCCTCCTCTGGCGTCCTCCACTTGCC CGGCGAATCTAACCTTCATCCTGCTGCTGCCACCGCCGGCGGGTCGACTAGACTCGGGTT CCTCCCACCCCAAACAGCACGAGGCTGCCGCCGCCATCTGTCTTCCATGTCACAGCCGCT CAATTCCTCCCGGCATGCTTCCAATCCCCATGCTACACAGAGGGTATTGATAACGAACAA GCGTGGAGAGAAACTTGTGGGGCTACTGCATCCCACGGGTTTGAACAAGATTGTAGTCTT GTGCCATGGCTTTACGGCCTCCAAGAGTTCTGGCATTATTGTTGATCTGGCAGATGCAAT AATAAAAAAAGGGATTAGTGTCTTTCACTTTGATTTCAGTGGAAACGGAGAGAGCGAAGG CGAATTCCAGTATGGCAACTACAGGAAAGAGGCTGAAGACTTGCATTCTGTTGTCTCATA TCTGTATCAGGAGAAGTATGATGTAGCAGCTGTTGTTGGTCACAGCAAAGGCATTGAGGA ACGCCTAGGGAAGGAATTTCTTGACAGAATAAATAAGGAAGGTTACATTGATGTCACAAA CAAGTCAGGAAATATGTTATACAGGGTAACAAAAGAGAGCTTGATGGAACGACTCAACAC TGACATGCGTGCAACGAGCCTCTCCATTAGCAAGGAATGCAGCTTCTTCACAGTTCATGG TTCTGCTGATGACATCATTCCGGTGGAAGATGCATATGAGTTTGCAAAGCATATACCAAC CCACAAACTCTGTGTCGTCGAGGGAGCAGATCACTGCTACACCAGACATCGTAAAGAACT TTCAGATGCTGTAGTGGGTTTCATTACATCCAACAAGGCCAGGGATACCACGCTAGAAGA TCAATGAATTCTGATGGATTTATGCTGTAGGATTTTGTACAGCAGTTCTCTTTACAGAAG CTCCCCTCAGAACAAGGCAATTCTAGATCATGGTCATTCTACTTCTTAGTTCCGGGATGT AATAAGCAATAAAGCATTGCAAGGCTTTAGGTTTGCGTTATTTTATGGGGACTGCTATGC GTCGGTCCCTTCCAGTGGGATGCACATTTTTCTATTTTGCAACAAAGACCTTGTTGCAGA AACATTTATAACGGAGATTGTGTTGGAGAATTTTTATGTAACAGAGGTTGTGTTGCGATT TTTTTTTGCAAGAGAGACCGTGTTATAATTTTTTTGCAACATGAGTGTTGTTTTGGAAAA AAACACAAACGATGTTGCAGAAAATATTTGCAGTTTTTTTTTGKCAACGTAGGTGTTGTT GCGAAGAGCAAATTTGCAACACACGTGATGTTGGAGGAAGAGAGGTGCAAAGGTACGTGT GTACACGCATTGCACAGATGAGATGGCGGATTGCTCGCGTGCGATCTGCCGGCTGAAGTT AAGTATTTTCCTTATTTTATTAGCTAAATAGTTGGAAAAGTATGCTGTAAAATATGTGAA ACTATTATAGAGGTGTTTTGGAGCTCGGGGTGCGTGGACTCTGAAATTTTCATTTAGAAA AACTCACATCCAAAGTGTAATAATTTCTGAAAACAATTACATGTGCATATGAATGTACTG ATATGAGATAACATGTGAGCTATACAAATAAAAGACAAAATCATG
Protein Sequence (246 aa)
>BART1_0-u20608.001 246 150831_barley_pseudomolecules MSQPLNSSRHASNPHATQRVLITNKRGEKLVGLLHPTGLNKIVVLCHGFTASKSSGIIVD LADAIIKKGISVFHFDFSGNGESEGEFQYGNYRKEAEDLHSVVSYLYQEKYDVAAVVGHS KGIEERLGKEFLDRINKEGYIDVTNKSGNMLYRVTKESLMERLNTDMRATSLSISKECSF FTVHGSADDIIPVEDAYEFAKHIPTHKLCVVEGADHCYTRHRKELSDAVVGFITSNKARD TTLEDQ