- Transcript BART1_0-u19873.006
- Transcript IDBART1_0-u19873.006
- Gene IDBART1_0-u19873
Barley RTD
Exon Structure of BART1_0-u19873.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 216303734 | 216303433 | + |
| chr3H | 2 | 216303945 | 216303843 | + |
| chr3H | 3 | 216304733 | 216304557 | + |
| chr3H | 4 | 216306264 | 216306038 | + |
| chr3H | 5 | 216306895 | 216306447 | + |
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 | 0.382827 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0.474235 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0.603572 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0.456211 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0.116514 | 0.574038 |
| morex | SEN | 0 | 0.337478 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g16210.1 | +3 | 5e-74 | 229 | 111/123 (90%) | protein|uncharacterized Cys-rich domain containing protein, putative, expressed |
| TAIR PP10 | AT2G40935 @ ARAPORT AT2G40935.1 @ TAIR |
+3 | 7e-70 | 219 | 102/166 (61%) | Symbols: | PLAC8 family protein | chr2:17083199-17084216 FORWARD LENGTH=190 |
| BRACH PP3 | Bradi2g09980.1.p | +3 | 4e-111 | 324 | 165/183 (90%) | pacid=32778952 transcript=Bradi2g09980.1 locus=Bradi2g09980 ID=Bradi2g09980.1.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 (1258 bp)
>BART1_0-u19873.006 1258 150831_barley_pseudomolecules CTGTGCCAGCCCACTTGGCTAGGTTTGGCTGCATCGCCATGGTGGCTGAGGGAAAAACTT GGGCGAGCACCGACAGTTCCGCCGCGAATCTCAAAGCGCTGCGGCGGTTTCTCAAGGTGA GCTTCCTCGGAACGTGTTACGTGTTCTCCGGTTCTTCCCCGAGCTAAGCTCGACCTCGCC CTCCCGTCCATTCCTAACACGCACCGGATATCTCCTCCTGCCGAAGCGCATGTACGACGC CGGCAATACAGCCACCGGCTCCCCTCCCCTTCCCTCTTATCTGCCGCCCGAATATCCGAC GGCTCGGGCATTCGGCGGACAGAGCGTTCCGGAACTGGTGAGGCGAGGCCGCGGATAAGC ACCAATTTGGTCGTCGGCGCTTCAGGGGTCTTTACCGATTTATTGAGATGGTTGGAAAAG GAAGCTATGTTCCGCCGCAGTATGTTCCGTTATATGGTGTAGATACTGAGGAGGATAGCG TTCCTGAGGTGGAGGAGAACATTGCCACGCGCCAAAGATTAAGCAGGGATCCTACACAAT GGTCTTCAGGCATCTGTGCTTGTTTTGATGATCCACAGAGCTGTTGTATTGGTGCGACTT GCCCCTGCTTTCTTTTTGGAAAAAATGCACAGTTCTTGGGATCTGGAACTCTCGCTGGAT CATGCACCACCCATTGCATGCTTTGGGGCCTTCTGACAAGTTTCTGCTGTCTGTGTACTG GGGGGCTTGTATTAGCAGTTCCAGGGTCTGCTGTTGCTTGTTATGCTTGTGGATACCGCC AAGCACTAAGAACGAAGTACAACCTTCCGGAAGCACCATGCGGCGATTTGACGACGCACT TATTTTGCCATCTGTGTGCGATATGCCAAGAGTACAGGGAGATCCGCGAGAGATCAGACA GTAGCGCCTCTTCAGCTCCTGATGTTACTCCACCTCCTGTGCAGACAATGGATGACCTTT GACTGAGTAGATGACGAGAACATATCCTGCCTGGCAAATCTTTGGTTGGCTTGACATGCC CTTGCCTGTAAGTATTTGTGTTACTGTGCACTGCTCCCACAGCTACGATGTCAGATTTTA TGCAGCTGGTGTAAAGATAACCTGTAAACTAATGGACAGCGCGAGAAAATGTAACCCTTT TGTTGCACGATTATAGCATGTAACATTTTTTCTTCATACATGTAGAAATGAAATGGAAAC AAAGAGTGTTCTCCTGGACATGAGTTTCTACTTTGGGTGCATATGCACCTGGATGAAC
Protein Sequence (184 aa)
>BART1_0-u19873.006 184 150831_barley_pseudomolecules MVGKGSYVPPQYVPLYGVDTEEDSVPEVEENIATRQRLSRDPTQWSSGICACFDDPQSCC IGATCPCFLFGKNAQFLGSGTLAGSCTTHCMLWGLLTSFCCLCTGGLVLAVPGSAVACYA CGYRQALRTKYNLPEAPCGDLTTHLFCHLCAICQEYREIRERSDSSASSAPDVTPPPVQT MDDL