- Transcript BART1_0-u19417.010
- Transcript IDBART1_0-u19417.010
- Gene IDBART1_0-u19417
Barley RTD
Exon Structure of BART1_0-u19417.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 156626357 | 156625899 | - |
| chr3H | 2 | 156627286 | 156627225 | - |
| chr3H | 3 | 156628029 | 156627930 | - |
| chr3H | 4 | 156628966 | 156628470 | - |
| chr3H | 5 | 156629751 | 156629587 | - |
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 | 1.17933 | 0.846432 |
| morex | ETI | 0 | 0.000000256994 | 0 |
| morex | LEA | 0.82917 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0.614315 | 3.47144 |
| morex | ROO2 | 0 | 0 | 0.614526 |
| morex | NOD | 0 | 0.6451 | 0 |
| morex | RAC | 0 | 0.00087008 | 1.09849 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 1.45908 | 2.00368 | 1.90537 |
| morex | CAR5 | 0.125024 | 0.473919 | 0.871005 |
| morex | CAR15 | 0 | 0 | 1.01513 |
| morex | LEM | 0 | 0 | 0.431753 |
| morex | LOD | 1.80927 | 0 | 0 |
| morex | PAL | 0.00962238 | 0 | 0 |
| morex | SEN | 0 | 0.304702 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g14180.2 | +2 | 1e-43 | 154 | 105/156 (67%) | protein|OsIAA17 - Auxin-responsive Aux/IAA gene family member, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g07770.1.p | +2 | 2e-61 | 199 | 118/136 (87%) | 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 (1283 bp)
>BART1_0-u19417.010 1283 150831_barley_pseudomolecules CGCCGCCACCACCACACTGGAGCTTCTGCCCGCCAAGGGCGCCAAGCGAGGGTTCTCGGA CGAGGTCCTGCCGCCTGCGCCGTCTGCCGCCGGCGGGAAAGGCAAGGAGACGTCCGGGGA TGAGAAGGACAAGAAGGTCGCCGCACCGCCGCAGCCTGCTGCCAAGGCTCAGGTGGTGGG ATGGCCACCAATCCGCAGCTACCGCAAGAACACGATGGCAACCACCACCAACCAGCTGAA GAGCAGCAAGGAGGATTCTGACGCGAAGCAGGGGCAAGAGTTTCTGTATGTCAAAGTCAG CATGGATGGCGCGCCTTACCTGAGGAAGGTTGACCTCAAGACATACAAGAACTATAAGGA CCTGTCTCTGGGGCTAGAGAAAATGTTCATTGGCTTCAGCACCGGTGAGGCTGCTCGGAT CCTCGGCAAATTGTTGCTGTTTCCATCTGCACCTGAAATTTGATCTGTGGTAGAAGAAAT GCATCATTGCACACATCTCGTTTTGTTGAAGAAATAATCAATTACTCTGTTTGGAAATGT TCTAGCAAATTTCAGGTTTATGAAATTGACGAAGAAGACTCTTTTCAGGGCTGGCGAAAT TGGTTATTGTGGTGACAACCAGTTTGCGATGCCTCGCTTCTAAATTTGTCCAAGCTATTT ATGTAAAGATGGTGTATCTGAGAACAGAAAGGATGGTGAATACGTGCTGACCTACGAAGA CAAGGACGGAGACTGGATGCTGGTTGGTGACGTCCCATGGGAGATGTTCACCGAGTCTTG CCGAAGGCTGAGGGTCATGAAAGGTTCAGATGCAGTTGGACTTGCAGTTCCAAGGGCAGG GGATAAGTCCAAGAATAAGAACTAAAGCGGTTGCTGCCCACAGTTTGAAGACGGGGTCGC ACATACCGTCTGTACTACCGCATGGTTTTTCTATCCCGCAAGTAAAATCACTCCGTTACT CTACTGTTGTAAGATTTGTGATGTCTCCTAGAGACTTATGCTTTATATTTTGTCGTGCCG AAGTTGTTGTACGCATGCTATTTCCATCCGTGTAAATGGTTGGTAAGCAGTGCGAGAGCT ACTGCTGTGATTTGATGACTTCTATGTATTTTGCCAGTGTTGTCCTGAACCGGCCGTTCG TCGTAAATGTGAGGGTTGCAAGACAATTATTTACCTGATGAACTTTGCTTCCGTACACCC TCCTAGAAAAGTTTACAGATTTCGATGTAGGTTAGAAGTTACTGCACTTTAATTATTAAA TAGAAAAAAGGGCAACATAGTCT
Protein Sequence (153 aa)
>BART1_0-u19417.010 153 150831_barley_pseudomolecules AATTTLELLPAKGAKRGFSDEVLPPAPSAAGGKGKETSGDEKDKKVAAPPQPAAKAQVVG WPPIRSYRKNTMATTTNQLKSSKEDSDAKQGQEFLYVKVSMDGAPYLRKVDLKTYKNYKD LSLGLEKMFIGFSTGEAARILGKLLLFPSAPEI