- Transcript BART1_0-u05387.001
- Transcript IDBART1_0-u05387.001
- Gene IDBART1_0-u05387
Barley RTD
Exon Structure of BART1_0-u05387.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 519178691 | 519177851 | - |
| chr1H | 2 | 519179027 | 519178872 | - |
| chr1H | 3 | 519179204 | 519179131 | - |
| chr1H | 4 | 519179728 | 519179536 | - |
| chr1H | 5 | 519179986 | 519179923 | - |
| chr1H | 6 | 519180460 | 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 | 3.40763 | 4.91398 | 5.2043 |
| morex | ETI | 9.25183 | 6.4153 | 8.1788 |
| morex | LEA | 5.71417 | 4.36579 | 8.64701 |
| morex | EPI | 3.65244 | 2.74169 | 2.97839 |
| morex | ROO | 1.1736 | 1.30918 | 0.757681 |
| morex | ROO2 | 2.19311 | 3.03559 | 2.83607 |
| morex | NOD | 4.38947 | 3.28384 | 2.40802 |
| morex | RAC | 2.29672 | 2.65875 | 1.64129 |
| morex | INF1 | 7.80963 | 7.52903 | 8.15006 |
| morex | INF2 | 4.00873 | 3.85522 | 5.73318 |
| morex | CAR5 | 4.10978 | 3.23489 | 4.62469 |
| morex | CAR15 | 0.282116 | 1.38638 | 3.20601 |
| morex | LEM | 3.92315 | 3.51356 | 4.00859 |
| morex | LOD | 3.06875 | 1.8449 | 2.42774 |
| morex | PAL | 1.18842 | 1.60353 | 2.70713 |
| morex | SEN | 20.5813 | 11.2702 | 9.22832 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g43582.1 | +2 | 2e-118 | 352 | 167/195 (86%) | protein|tRNA methyltran, putative, expressed |
| TAIR PP10 | AT1G16445 @ ARAPORT AT1G16445.1 @ TAIR |
+2 | 3e-83 | 261 | 122/197 (62%) | Symbols: | S-adenosyl-L-methionine-dependent methyltransferases superfamily protein | chr1:5617811-5619303 FORWARD LENGTH=274 |
| BRACH PP3 | Bradi2g20250.1.p | +2 | 3e-135 | 394 | 202/220 (92%) | 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 (1720 bp)
>BART1_0-u05387.001 1720 150831_barley_pseudomolecules TGTCAGACTTATACCCACGACAGGTATAGAAGAACACTTTTTTTATGTGCCCTATTTATT GTTCACCCGAGCTTATTATAACTAAATTAATACAAATTTTATATCAAGTGAGTGACATTT ATTTTGGAAAGGAGGGAATAGGTCTCATGAGGTGAAACGAGCACCTCTGAACCTGTTCTA TCTTTTCCCCTTTTGCCGCATTGCCGCCGCCGCGGTAGCAGCCATGCCTCCGCCGTCGCT GCCGCGCCCTCCTCTCTCGCTGCTCCTCCGCCGCCCCCAAAATCTATCCCCTCTCCGACG AGTCCCCAGCTCCATCCCGTCCCCTCTGCTCGTCCTGCCCAATCGGCGGCACCTCTCCGC CGCGCATCTCGCCGACCCACTCGTCGCCGCAGGGGTGGAGGAGGCGGTGGTGGGCTTCGT CACCGGCAAGCGCAAGGCCACCGAGGTAGCCCACGCGGTGTGGAGAAGCATTGTTCGGAA AGGAGATACGGTTGTTGATGCCACCTGCGGAAACGGGAATGATACGTTTGCTTTGCTTAA GATGGTGTCCGATGAAACTGGGCGAGGGCGTGTTTATGGGATGGACATCCAAGATTCCGC GATTGATAACACTTCCTCTTTTCTGAACATGGCCGTCGACACCCACGAGAAGGAGCTAGT CAAGTTGTTTTCCATATGTCACAGTAGAATGGAGGATATTGTTCCAAAAGGTTCTCCTGT CAGGCTTGTAGCATTCAATCTCGGCTACCTTCCAGGAGGAGATAAAACAATAATCACAGT ACCTAAGACCACTGAGCTCGCATTGCAAGCTGCCAGCAGAATTGTTAGCTCAGGGGGCCT CATAAGTGTGCTTGTCTACATTGGGCATCTGGGTGGAAGGGATGAACTTGATATTGTTGA ATCATTTGCGTCAAGCTTGCCTGTTGATACATGGGTGAGCTGCAAGTTTGAAATGGTTAA CAGGCCAGTTGCTCCAGTACTAGTTCTCCTGCACAAGAAATGATCGCAGTCCCACTGAAG CTCCACAAGTTTGGGAGTCCCTGTTGCGGTTGATGAATGAGAATTTCTGATTATGGTTAT GAGCTAGAAAAAGGAATTATGTAAAGGCTACAGTCAGCTGTAACTGGATGGTTGACACTG TGGTGACTATCTATAGAGGAGCTTGCAAGGGTCGTGATCTGGTGATTGCTGCCAGGGATT ACTCCCTTGATGCAACGTGCAATTTTCTGGCCTACTATGTTCACCGAAATGTCAGTGCTC ACGCAAATGACCCTTGATGCAATGTCTGTCAAGCTTAAAAATGCTGTGTAACTATATGCA TGTATCTTGAACACTGATATGTCATAAACCTGTGCTCCTTGGAAGCAGTACCAGCTGCCC ATTGGTGTGACTGATAAAAACGATTGTTGGTTTGGATCGTTTCTGAATCGCTGAACCAAG GGCTAGAACGATCAAGTTGGTAGAATGGCACTGCTCTTGTGCTCTTCCCGCATCTACCTA TGGAAGCACTGATCTGTGTATTACTATCTTAGATTTGAACAAATTCGAGAAGGTGTTTTG CATGCAGAATTTACAGAACCTGATTGGCATCCATGGTTGAATTGAACTTTTGACTTTAAA TAATAAGGAAACAATAGTCGTAGGGAAATAAATCATCCATGGTTTGTGTTCGTGTCAATA TAAAAATCAAGAAAAAGGAACTATACATCAAGAAACAAAG
Protein Sequence (259 aa)
>BART1_0-u05387.001 259 150831_barley_pseudomolecules MPPPSLPRPPLSLLLRRPQNLSPLRRVPSSIPSPLLVLPNRRHLSAAHLADPLVAAGVEE AVVGFVTGKRKATEVAHAVWRSIVRKGDTVVDATCGNGNDTFALLKMVSDETGRGRVYGM DIQDSAIDNTSSFLNMAVDTHEKELVKLFSICHSRMEDIVPKGSPVRLVAFNLGYLPGGD KTIITVPKTTELALQAASRIVSSGGLISVLVYIGHLGGRDELDIVESFASSLPVDTWVSC KFEMVNRPVAPVLVLLHKK