- Transcript BART1_0-u19417.013
- Transcript IDBART1_0-u19417.013
- Gene IDBART1_0-u19417
Barley RTD
Exon Structure of BART1_0-u19417.013
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 156626354 | 156625918 | - |
| chr3H | 2 | 156627286 | 156627225 | - |
| chr3H | 3 | 156628029 | 156627930 | - |
| chr3H | 4 | 156628966 | 156628728 | - |
| chr3H | 5 | 156629762 | 156629450 | - |
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 | 0.897807 | 0 | 0 |
| morex | LEA | 0.670099 | 0 | 0.434289 |
| morex | EPI | 0 | 0 | 1.12863 |
| morex | ROO | 0 | 0.0879866 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 9.58333 | 2.14426 | 0.689994 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0.324745 |
| morex | CAR5 | 0 | 0.580602 | 0 |
| morex | CAR15 | 0.144173 | 0 | 0 |
| morex | LEM | 2.28492 | 0 | 0.453669 |
| morex | LOD | 0 | 4.9233 | 2.28015 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g14180.1 | +3 | 2e-86 | 263 | 127/144 (88%) | protein|OsIAA17 - Auxin-responsive Aux/IAA gene family member, expressed |
| TAIR PP10 | AT4G29080 @ ARAPORT AT4G29080.1 @ TAIR |
+3 | 1e-56 | 187 | 93/164 (57%) | Symbols: PAP2, IAA27 | phytochrome-associated protein 2 | chr4:14323665-14325213 REVERSE LENGTH=305 |
| BRACH PP3 | Bradi2g07770.1.p | +3 | 3e-94 | 282 | 136/144 (94%) | pacid=32771633 transcript=Bradi2g07770.1 locus=Bradi2g07770 ID=Bradi2g07770.1.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
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grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (1151 bp)
>BART1_0-u19417.013 1151 150831_barley_pseudomolecules CGCCGCCCGGTCGCCGCCACCACCACACTGGAGCTTCTGCCCGCCAAGGGCGCCAAGCGA GGGTTCTCGGACGAGGTCCTGCCGCCTGCGCCGTCTGCCGCCGGCGGGAAAGGCAAGGAG ACGTCCGGGGATGAGAAGGACAAGAAGGTCGCCGCACCGCCGCAGCCTGCTGCCAAGTAG GTGCCTCTCTCCCCTGCGAATTTTGTGGATTTGGCATTTCCATGTGTACTGCCGAGTTTT GTGGGATGCAGGGGGTTGGAGCTCGATTGGGTGGAGGAAGTGATGCGTAAAAATTTGGAA AAATATGTTGTGGGGCTCAGGTGGTGGGATGGCCACCAATCCGCAGCTACCGCAAGAACA CGATGGCAACCACCACCAACCAGCTGAAGAGCAGCAAGGAGGATTCTGACGCGAAGCAGG GGCAAGAGTTTCTGTATGTCAAAGTCAGCATGGATGGCGCGCCTTACCTGAGGAAGGTTG ACCTCAAGACATACAAGAACTATAAGGACCTGTCTCTGGGGCTAGAGAAAATGTTCATTG GCTTCAGCACCGGTAAAGATGGTGTATCTGAGAACAGAAAGGATGGTGAATACGTGCTGA CCTACGAAGACAAGGACGGAGACTGGATGCTGGTTGGTGACGTCCCATGGGAGATGTTCA CCGAGTCTTGCCGAAGGCTGAGGGTCATGAAAGGTTCAGATGCAGTTGGACTTGTTCCAA GGGCAGGGGATAAGTCCAAGAATAAGAACTAAAGCGGTTGCTGCCCACAGTTTGAAGACG GGGTCGCACATACCGTCTGTACTACCGCATGGTTTTTCTATCCCGCAAGTAAAATCACTC CGTTACTCTACTGTTGTAAGATTTGTGATGTCTCCTAGAGACTTATGCTTTATATTTTGT CGTGCCGAAGTTGTTGTACGCATGCTATTTCCATCCGTGTAAATGGTTGGTAAGCAGTGC GAGAGCTACTGCTGTGATTTGATGACTTCTATGTATTTTGCCAGTGTTGTCCTGAACCGG CCGTTCGTCGTAAATGTGAGGGTTGCAAGACAATTATTTACCTGATGAACTTTGCTTCCG TACACCCTCCTAGAAAAGTTTACAGATTTCGATGTAGGTTAGAAGTTACTGCACTTTAAT TATTAAATAGA
Protein Sequence (129 aa)
>BART1_0-u19417.013 129 150831_barley_pseudomolecules MATTTNQLKSSKEDSDAKQGQEFLYVKVSMDGAPYLRKVDLKTYKNYKDLSLGLEKMFIG FSTGKDGVSENRKDGEYVLTYEDKDGDWMLVGDVPWEMFTESCRRLRVMKGSDAVGLVPR AGDKSKNKN