- Transcript BART1_0-u34851.005
- Transcript IDBART1_0-u34851.005
- Gene IDBART1_0-u34851
Barley RTD
Exon Structure of BART1_0-u34851.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 280032882 | 280031613 | + |
| chr5H | 2 | 280033853 | 280033289 | + |
| chr5H | 3 | 280034038 | 280033955 | + |
| chr5H | 4 | 280034604 | 280034140 | + |
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 | 0.0332367 | 0.031563 | 0.0460546 |
| morex | ETI | 0.367111 | 0.973081 | 0.658514 |
| morex | LEA | 0 | 0.662179 | 0 |
| morex | EPI | 7.6451 | 2.32737 | 4.2124 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0.173159 | 0.122006 | 0.275608 |
| morex | INF1 | 0.00057483 | 0 | 0 |
| morex | INF2 | 0.0574835 | 0.119183 | 0 |
| morex | CAR5 | 0 | 0 | 0.137961 |
| morex | CAR15 | 0.302106 | 0.3555 | 0.18259 |
| morex | LEM | 0 | 0 | 0.568094 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0.386642 | 0.0773324 | 0.331542 |
| morex | SEN | 0.279173 | 0.534501 | 0.286909 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os12g31000.1 | +1 | 5e-67 | 232 | 155/292 (53%) | protein|pumilio-family RNA binding repeat domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi4g07100.1.p | +1 | 8e-107 | 337 | 190/276 (69%) | pacid=32788499 transcript=Bradi4g07100.1 locus=Bradi4g07100 ID=Bradi4g07100.1.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 (2384 bp)
>BART1_0-u34851.005 2384 150831_barley_pseudomolecules CTACTTTCGCGCTATCCTTATATAAAAGCACCCCCTCTGCTCTCTCCTCCTCCCACTCCT GCATGCCTCAACGAACCATCTCCAGGAAAACACCTCACCCCAATCCAACCCCAAACCAAT CCTCTCCACAAACAAATCTAACAGAATTCCCCCACTGATTTTCTCATCGAGATTCGATCA AGATAGTAGTTGGAGATGAAGCTGGACAGGGAGATGGAGATGCTCCTCAACGAGATCCCT CTCCTCCTCCACGGCGACGTCCTCGGCTGCAGCGAGCCAGCCGCCGCCGAGACCGACGCC GGCGCCGTCGACTTCGCTTATCTCATCCAAGAACTCGGCGAGATGGGGTTCGTCGAGGAC GACGACGACGACGACAGTTTCCTTTACCCAAGGAAGGCCAGCTCATCTCCGACGAGCAAC CTCCATTTCATGGACGCTGAGAATTTCGTGGCGTCGCATCCCTTCTCCATGGACAAAGAC CGCGAGAGGGCTCTTTTCGATCCGTTTCCCTTCTCCAGCACCTGCTTCGACGCCGCCGTG GGCGACGACTGGGACCTCCTGTGTCGGCCGGTGAGGTCCCGGCTGTGCAAGACGGCGAGG CCGAAGAAGGGTACCTGCAGCAACGGCTGCCAGGCGACGAGCCCCAAGAAGTGCGCGGCG GCGAAGCCGTCCAAGTACGAGAGCCTTGTCGGGCTGCGCGGGTACATGTACCACGTGGCC AGGGACCAGCACGGCTGCCGGTTCCTCCAGCAGCGGCTCGACGACGGCAAGCGCGAGGTC GATTTCATCTTCACCGGCGTCGCCCGTCACGCCGTCGACCTCATGGTGAACCCATTCGGT AACTACCTCATGCAGAAGCTGCTAGCCGTCTGCAGCGAGGAGCAGAGGATGGGCATCGTG CTGACCCTCACAAAGGAACCCTTCGTGCTCGTCAGGATCTCTCTCAATGTACATGGGTAA GCGTGCTTAACTCACTCCTGATTGGTTGGTGATAATTTAACTCTGTTGCTGCTGATTTAT TTATTTTTTGTTGCCCTTTTCGGAAGAAGAAAAAAAATTGTCTTTTGTTGCTAAGTGTTG CGTTGTCATGTTGTTTCTCGTTTTCAGGACAAGGGCGGTTCAGAAGCTGATTGAAAGCTT GAAGGCAAGGGAGGAGATTCAGCTCGTCGTCGCAGCTCTGCGCCCCGGGTTCCTGGAGCT CATAAAGGATCCTAATGGTAATCATGTCGTGCAGAAGTGCTTGCAATCGTTCGGGGCCGA TGATAACAAGACATAATTAACTCACGATCTACAACTTTCAGCCGATCTTCGATGCTGCTG CTATTTACTGCCTTGATATTGGGATGCAATGCCATGGCTGCTGCGTCCTACAGCGGTGTA TCGCGCGTTCGACTGGTGAGCACAAGGAGAAGCTGGTTGCCGCGATCGCTCGCAATGGGT TCGAACTTGCACAGGATGCCTATGGGTAAAAATCCTACCTTGTGCTCCACCTGTAATTTT TCATGTAACCACGTGGCCGGTAAAACAAGCATGGTTAATCAATTATAGTTCTGTCTAGCT TATTATTAATAGTCCAGCATGCCTTGTGAAGTGGAAAAACCTTTGCTTGTAGAGACCTCT GTAGGCATTCCAATCTTTAGTGCTATGAGAGTATCTAGTTAAACATTTATACAACATTAA AGAATGTATGTTCATATATATTTCTTCTATTTTGGTGTATTTTAACTCGTCAACTCATGG GCTTATCTGCCAATGTTGCAGAAACTATGTTGTTCAGTATGTGATAGAACTAAAGGTCGC TGCTGCAAATGCAAGTCTGGCACAACAGTTTGAAGCTCCTTGCTGCGCCGCAGTTCGAGC GGTTGCTTCTGCACCCTTACGCAAACTATGTAGTCTACGCAGCACTTCAGAATTCCAAGG GCTCTCTACACTCTGCACTGACCAACGCGATCCGGCCTCACGTGGAGCTACTCAGGACCA GCCCATACTGCAAGAGGATCTACTCTCGAGCTTTGCTGAAAAAGTGATGGTCTGATGAGA CCATCTCACCATGTGTAACAATAAAGATAGTTTGTCTTGTGCTATTTTTTCGGATTCAAA AGGGATAAAAGTGATCTCACCATGTAGATCTTGTATAGATCAAAATTTATTTGGTCATGT ACTTCTATGTGCACCTTTATTTGATGCACTCTTCCGTTGCCATAATCCATCTGGAATGGT AAGTTCCGATCTAACAAATCGTCATATAGATGTTGATGCACGTACACAATATTGGTGATG TTTCTTGTAACTTAATGTTTGCATTTTTTTTTGCCCTGCAATTGCTCAACCGAATGCCAA AACATGAAGGCAAATAACTGATTTGCAGTCTAAGGAAAGTTACG
Protein Sequence (254 aa)
>BART1_0-u34851.005 254 150831_barley_pseudomolecules MKLDREMEMLLNEIPLLLHGDVLGCSEPAAAETDAGAVDFAYLIQELGEMGFVEDDDDDD SFLYPRKASSSPTSNLHFMDAENFVASHPFSMDKDRERALFDPFPFSSTCFDAAVGDDWD LLCRPVRSRLCKTARPKKGTCSNGCQATSPKKCAAAKPSKYESLVGLRGYMYHVARDQHG CRFLQQRLDDGKREVDFIFTGVARHAVDLMVNPFGNYLMQKLLAVCSEEQRMGIVLTLTK EPFVLVRISLNVHG