- Transcript BART1_0-u18690.016
- Transcript IDBART1_0-u18690.016
- Gene IDBART1_0-u18690
Barley RTD
Exon Structure of BART1_0-u18690.016
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 67425680 | 67425528 | - |
| chr3H | 2 | 67425883 | 67425751 | - |
| chr3H | 3 | 67425991 | 67425974 | - |
| chr3H | 4 | 67426259 | 67426201 | - |
| chr3H | 5 | 67426950 | 67426694 | - |
| chr3H | 6 | 67427192 | 67427047 | - |
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 | 0.306486 | 0.914616 |
| morex | ETI | 0 | 0.201611 | 0 |
| morex | LEA | 0.552873 | 0.415429 | 0.72007 |
| morex | EPI | 0.227776 | 0.351141 | 0.350424 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0.332322 |
| morex | RAC | 0.27376 | 0 | 0.241302 |
| morex | INF1 | 0.893939 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0.434938 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.282292 | 0 | 0 |
| morex | LOD | 0.306289 | 0.393102 | 0.406303 |
| morex | PAL | 0 | 0.000537954 | 0 |
| morex | SEN | 0 | 0.0000000578918 | 0.207836 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g08700.8 | +3 | 4e-137 | 410 | 229/290 (79%) | protein|GIGANTEA, putative, expressed |
| TAIR PP10 | AT1G22770 @ ARAPORT AT1G22770.1 @ TAIR |
+3 | 3e-106 | 332 | 196/292 (67%) | Symbols: GI, FB | gigantea protein (GI) | chr1:8062398-8067447 FORWARD LENGTH=1173 |
| BRACH PP3 | Bradi2g05226.1.p | +3 | 5e-147 | 440 | 243/284 (86%) | pacid=32776210 transcript=Bradi2g05226.1 locus=Bradi2g05226 ID=Bradi2g05226.1.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 (766 bp)
>BART1_0-u18690.016 766 150831_barley_pseudomolecules CAGCAACTTTTGTTCTCCATCACCCCGAGCATGGTCATGCAGTTGTACATCCAATTCTTT CACGCATCATAGACGGGACACTGAGTTATGATAGTCATGGTTCCCCATTCAATTCCTTCA TCTCCTTATTTACCCAAAGTTCTGAGAAAGAGTACTCAGAGCAGTGGGCCTTGGCCTGTG GAGAGATTCTTAGAGTTCTAACTCACTACAACAGGCCAATCTTTAAAGTTGCAGACTGTA ACAACACCTCTGACCAGGCTACAACAAGTTGTTCTGCACAGGAGAAAGCTAATTACTCTC CAGGAAATGAACCTGAACGGAAGCCATTGAGGCCATTATCTCCTTGGATCACAGATATTT TGCTAACTGCACCTTTAGGCATTAGAAGCGACTATTTTAGATGGTGTGGTGGAGTTATGG GAAAATACGCAGCTGGTGGAGAATTGAAGCCTCCAACAACTGCTTACAGCCGAGGAGCTG CTCGTTATGAGACAGCAAACTTAACCGCGGCAGCTGTTCCCGCCCTTCTGCTACCTCCAC CGACAACACCCTTGGATGAGCATTTGGTGGCAGGGCTACCCCCTCTTGAGCCATACGCTC GCTTGTTTCATAGATACTATGCAATTGCCACACCAAGTGCTACACAAAGATTGCTTTTTG GTCTTCTTGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTTCAGCTTG TTGAACTCCTTCGGGCAGCTGAAGATTATGCTACTGGCATGCGGGT
Protein Sequence (254 aa)
>BART1_0-u18690.016 254 150831_barley_pseudomolecules ATFVLHHPEHGHAVVHPILSRIIDGTLSYDSHGSPFNSFISLFTQSSEKEYSEQWALACG EILRVLTHYNRPIFKVADCNNTSDQATTSCSAQEKANYSPGNEPERKPLRPLSPWITDIL LTAPLGIRSDYFRWCGGVMGKYAAGGELKPPTTAYSRGAARYETANLTAAAVPALLLPPP TTPLDEHLVAGLPPLEPYARLFHRYYAIATPSATQRLLFGLLEAPPSWAPDALDAAVQLV ELLRAAEDYATGMR