- Transcript BART1_0-u05387.002
- Transcript IDBART1_0-u05387.002
- Gene IDBART1_0-u05387
Barley RTD
Exon Structure of BART1_0-u05387.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 519178691 | 519177996 | - |
| chr1H | 2 | 519179027 | 519178872 | - |
| chr1H | 3 | 519179204 | 519179131 | - |
| chr1H | 4 | 519179728 | 519179536 | - |
| chr1H | 5 | 519179986 | 519179919 | - |
| chr1H | 6 | 519180368 | 519180069 | - |
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 | 2.68619 | 2.30537 | 2.28966 |
| morex | ETI | 5.98166 | 9.55548 | 6.17929 |
| morex | LEA | 2.14756 | 5.43784 | 4.64357 |
| morex | EPI | 8.16167 | 7.29575 | 6.15817 |
| morex | ROO | 1.71531 | 2.82501 | 1.60683 |
| morex | ROO2 | 2.21739 | 1.62268 | 1.61768 |
| morex | NOD | 1.4871 | 3.97609 | 5.9944 |
| morex | RAC | 4.83402 | 3.53207 | 3.94747 |
| morex | INF1 | 3.8471 | 5.1541 | 4.13165 |
| morex | INF2 | 5.83026 | 7.35897 | 7.79315 |
| morex | CAR5 | 4.3716 | 5.36507 | 3.23933 |
| morex | CAR15 | 1.91377 | 0.911781 | 0 |
| morex | LEM | 2.4024 | 1.85539 | 3.15359 |
| morex | LOD | 2.88062 | 3.39478 | 3.02424 |
| morex | PAL | 4.25676 | 5.16084 | 4.24572 |
| morex | SEN | 12.562 | 7.42802 | 8.13837 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g43582.1 | +1 | 4e-105 | 315 | 150/177 (85%) | protein|tRNA methyltran, putative, expressed |
| TAIR PP10 | AT1G16445 @ ARAPORT AT1G16445.1 @ TAIR |
+1 | 2e-74 | 236 | 112/179 (63%) | Symbols: | S-adenosyl-L-methionine-dependent methyltransferases superfamily protein | chr1:5617811-5619303 FORWARD LENGTH=274 |
| BRACH PP3 | Bradi2g20250.1.p | +1 | 4e-116 | 343 | 165/177 (93%) | pacid=32772093 transcript=Bradi2g20250.1 locus=Bradi2g20250 ID=Bradi2g20250.1.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 (1487 bp)
>BART1_0-u05387.002 1487 150831_barley_pseudomolecules CAAATTTTATATCAAGTGAGTGACATTTATTTTGGAAAGGAGGGAATAGGTCTCATGAGG TGAAACGAGCACCTCTGAACCTGTTCTATCTTTTCCCCTTTTGCCGCATTGCCGCCGCCG CGGTAGCAGCCATGCCTCCGCCGTCGCTGCCGCGCCCTCCTCTCTCGCTGCTCCTCCGCC GCCCCCAAAATCTATCCCCTCTCCGACGAGTCCCCAGCTCCATCCCGTCCCCTCTGCTCG TCCTGCCCAATCGGCGGCACCTCTCCGCCGCGCATCTCGCCGACCCACTCGTCGCCGCAG GGGTGGAGGAGGCGGTGGTGGGCTTCGTCACCGGCAAGCGCAAGGCCACCGAGGTAGCCC ACGCGTAGGGTGTGGAGAAGCATTGTTCGGAAAGGAGATACGGTTGTTGATGCCACCTGC GGAAACGGGAATGATACGTTTGCTTTGCTTAAGATGGTGTCCGATGAAACTGGGCGAGGG CGTGTTTATGGGATGGACATCCAAGATTCCGCGATTGATAACACTTCCTCTTTTCTGAAC ATGGCCGTCGACACCCACGAGAAGGAGCTAGTCAAGTTGTTTTCCATATGTCACAGTAGA ATGGAGGATATTGTTCCAAAAGGTTCTCCTGTCAGGCTTGTAGCATTCAATCTCGGCTAC CTTCCAGGAGGAGATAAAACAATAATCACAGTACCTAAGACCACTGAGCTCGCATTGCAA GCTGCCAGCAGAATTGTTAGCTCAGGGGGCCTCATAAGTGTGCTTGTCTACATTGGGCAT CTGGGTGGAAGGGATGAACTTGATATTGTTGAATCATTTGCGTCAAGCTTGCCTGTTGAT ACATGGGTGAGCTGCAAGTTTGAAATGGTTAACAGGCCAGTTGCTCCAGTACTAGTTCTC CTGCACAAGAAATGATCGCAGTCCCACTGAAGCTCCACAAGTTTGGGAGTCCCTGTTGCG GTTGATGAATGAGAATTTCTGATTATGGTTATGAGCTAGAAAAAGGAATTATGTAAAGGC TACAGTCAGCTGTAACTGGATGGTTGACACTGTGGTGACTATCTATAGAGGAGCTTGCAA GGGTCGTGATCTGGTGATTGCTGCCAGGGATTACTCCCTTGATGCAACGTGCAATTTTCT GGCCTACTATGTTCACCGAAATGTCAGTGCTCACGCAAATGACCCTTGATGCAATGTCTG TCAAGCTTAAAAATGCTGTGTAACTATATGCATGTATCTTGAACACTGATATGTCATAAA CCTGTGCTCCTTGGAAGCAGTACCAGCTGCCCATTGGTGTGACTGATAAAAACGATTGTT GGTTTGGATCGTTTCTGAATCGCTGAACCAAGGGCTAGAACGATCAAGTTGGTAGAATGG CACTGCTCTTGTGCTCTTCCCGCATCTACCTATGGAAGCACTGATCTGTGTATTACTATC TTAGATTTGAACAAATTCGAGAAGGTGTTTTGCATGCAGAATTTACA
Protein Sequence (153 aa)
>BART1_0-u05387.002 153 150831_barley_pseudomolecules MVSDETGRGRVYGMDIQDSAIDNTSSFLNMAVDTHEKELVKLFSICHSRMEDIVPKGSPV RLVAFNLGYLPGGDKTIITVPKTTELALQAASRIVSSGGLISVLVYIGHLGGRDELDIVE SFASSLPVDTWVSCKFEMVNRPVAPVLVLLHKK