- Transcript BART1_0-u20988.003
- Transcript IDBART1_0-u20988.003
- Gene IDBART1_0-u20988
Barley RTD
Exon Structure of BART1_0-u20988.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 413470146 | 413469036 | - |
| chr3H | 2 | 413471866 | 413470222 | - |
| chr3H | 3 | 413472753 | 413472688 | - |
| chr3H | 4 | 413474714 | 413474390 | - |
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 | 0.0000000246423 |
| morex | LEA | 0 | 0.00382344 | 0.00000706298 |
| morex | EPI | 0 | 0.239581 | 0 |
| morex | ROO | 0 | 0.204495 | 0 |
| morex | ROO2 | 0.910091 | 0.259198 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0.198837 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0.716475 | 0.311625 | 0 |
| morex | CAR5 | 0 | 0.312172 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0.244937 | 0 |
| morex | LOD | 0.42429 | 0.650813 | 0.355186 |
| 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_Os01g43372.1 | +1 | 0.0 | 761 | 465/646 (72%) | protein|expressed protein |
| TAIR PP10 | AT1G64140 @ ARAPORT AT1G64140.1 @ TAIR |
+1 | 1e-147 | 455 | 282/545 (52%) | Symbols: | BEST Arabidopsis thaliana protein match is: loricrin-related (TAIR:AT5G64550.1); Has 3596 Blast hits to 2004 proteins in 150 species: Archae - 0; Bacteria - 54; Metazoa - 1597; Fungi - 38; Plants - 513; Viruses - 9; Other Eukaryotes - 1385 (source: NCBI BLink). | chr1:23804069-23806009 REVERSE LENGTH=646 |
| BRACH PP3 | Bradi2g43880.2.p | +1 | 0.0 | 921 | 519/635 (82%) | pacid=32778732 transcript=Bradi2g43880.2 locus=Bradi2g43880 ID=Bradi2g43880.2.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 (3147 bp)
>BART1_0-u20988.003 3147 150831_barley_pseudomolecules CCGCTTTCCAATTTCCCCTCGCCCACAACGGGGTGGCCACAGCGATTTACCTGTGGCGCC CCGACCCGCCCCACTCCTTCCTCTCTCTCTCTCTCTTTTATAGCGCTCCCCCTGCGCGCC TGCGTCCTCGGTTTTTCTCCGCTGAGCTTTCCTTCAACCCCGCTCAGCTCCCTCCCTTCC TACAAATCTGGTCTGGTGGGCGCTGTTCGCCGCGGCGGGTCTCTCGCGCCCGCGCTCCCG CAACAACCTCAAAACCCTAGCCATCCTCGCGACCCAGTCGATTGGATCGACCGCTTCCTC CTCCTCCGCCCAGACCCAGACCCAGGGACCGCTGATTTCACTCCTGTGTGTTTTCAACTC ACTTGGGATCCGCGAGAGTGCTGCTATACTGCAGGATCATCGCTTTCTGTTTGGCCTGAG CTGTGGAAGTTTCTAAGTAGAAACTGAGGGTCAGTTCAAAACTTTATCCCACTCACCCCA TACATACTGGCGAGAAATGGATCGTGATGATGTATCTGGCTTTGTTAGCGGGGGTTGCAA GCTGTTCTGAGTTTTCTAACCTAGTAGAAGTTAATAAATAAAGTTATGATACCAGGAAGT CAGTCAACTGGCGGTTCTTTTCATTTACTAATTGGTTGATGTTTCCGAATTGGAATGGAC AAAACTTCTCATGGCCTTGGATTTGGTGATAGCATCAACTCGTTAAACACTTCTCATTAC CGGAGTTCAGTCCAACACACTGCTCAGCATAGAGACACTACACTTGATTCCACATCATAT TCCAGCTTCTCATCCACCAACACAAAAGCCCTGAAAAGGAAGTGGGGTACTATGGCTGGA GCAGAAGGTACTGGGGATGCATTACTCACTCTGGGTTTAGGCCGTTCACCAAGTTCATCT GACAATAGCAAAGTAAGCTCTGCCACAGCCTGTGCAATGTCTCCATGCTCGCTAAAGGAG GCTGATGAGGAGTCATCTGTTGATCTTAGCTTGAATTTTGAGCTTTCCCTTGGCAATGAT GTTGCACGTTTTCAAAGGAAATCCTCTGCTGGTTTAGTAGCCAATTCTCCTAAACTGGAT CTTCAGTTGAGTTTATCCACTGGCTCACCTGAATCTGCTGTCACTTGTACAAATATGGTG TCACCAAATATTCATGATGGCTTGGACATACCAGTGACCTATTCATTACCAGCCATTATA GGGAATGGGTCAGCACCGTCTAGTTGGGGTTTTGAGCACTCTGTGGTTTCATCATCATAT GCGTCTGAAGCAACATATGCATTTCCATTTTCGAAGATACCCAGACAAGAGAATGGTACT TTGTCTTCACCAGTCATATCGTCAACTATGCCAGCAAGTGTGAAGAGCTCAGTTGCCTGT ACTTCGGTGGTAACTAACCCTCAGCAGCGCAATCTTAACACTAAAACCTGCCAGTTCCCT GGATGTGGCAAAGGGGCAAGAGGTGCATCAGGGCATTGTATAGCCCATGGTGGTGGTAGG CGATGCCAGAAAGCTGGTTGCCAGAAGGGTGCTGAAGGAAGGACCATATATTGCAAGGCC CATGGTGGAGGGAGGAGATGTGAGTTTCTTGGATGTACAAAGAGCGCTGAAGGACGCACC GACCACTGCATTGCCCATGGTGGTGGCCGCCGGTGCAGTAATGATGGCTGCTCCCGTGCT GCCCGAGGAAGATCTGGCTTATGCATCAGGCATGGTGGTGGAAAAAGGTGTCAGCAGGAG AAGTGCACCAAGAGCGCAGAAGGTCATTCTGGCCTCTGCATCTCTCATGGGGGTGGGAGG CGCTGCCAGTTTCCAGAATGTGCAAAGGGTGCACAGGGAAGCACAAAGTTCTGCAAGGCA CATGGTGGAGGCAAGCGCTGCACTTTCTTGGGCTGTACCAAAGGAGCTGAAGGCAGCACC CCTTACTGCAAGGGCCATGGAGGAGGCAAGCGCTGCTTATTTGAGGGTGGTGGAGTGTGC CCCAAGAGCGTGCATGGCGGGACGCAGTACTGTGTTGCGCACGGTGGTGGCAAGAGATGC AGGTTCGACGGCTGTGTGAAGAGTGCACAGGGGAGCACTGATTTCTGCAAGGCGCATGGG GGAGGCAAACGCTGCTCATGGGGCCTGCCGGGCTCAAGCTTCGGTATTGGCACTGAGCAG TGTGATAAGTTTGCTCGCAGCAAGACTGGCCTCTGTTCAGCTCACACCGCTCTAGTCCAG GACCACTGTGTTCATGGTGGTGGTACATTAGGCCCTGTAATCCACCACTTCGCCGCAGAT GTTAAACCCGGCGAGATGGAAGTTGCTGCAGCAGTGAAGGTTGATCCTGTTTCGATGCAG TCGGGGTCTCCATTGCCGGAGCCGGAGGGCAGGGTGCATGGTGGTGGGCTGCTGGCGCTG CTTTCTCGCGGCGGCAACCACACAGGCCCTGTTGGTAACTCCGATAACGGCGCTTCTGTC ATGATGGCGTGGATGTGAGCGGGCGGGCATTCTCATCAAGAATTGGTTGCTTCAAGTTTT GATCTGTTTCCAGAGCTAATGCTGTGGCGGGATAAAGTTCCACATTTCACCAATTGTTGT CCTAGTCGTTTGGAACTGGTAGGACATATATCCTCCGTGTAGAATAAATAAGGGAGAGCG TTGTGGGCTTCTCTGTTATTGTAATGTAATTAATTAATTAATGTCGTCAAACTGCCCTTG CTTTGTGTTTATTACAATTTGTGTAATCTGATACTACTTCACAGTTCCTACTTGGATACA ATGTCTTCGCAGTTTGCTTTGCTTTGTGTTTCTGGTAACACTGTAGTATGTGCTTTGTGT TTCTGGTAAAGTGGTAATACTGTAGTCTGTAGTACAACTTTTTTGGCGGGTGAGGGTTAT CTGGTCATGTCATCAGATAATTCTCTTCCGCCATCAACATCAAGAGATGAATGTTGATGT CCATATCATTGCTAGAAACTGTAAATTTAGTACCATGAGATGAATGTTGATAACTCTGCC TATGTTGTCTCAACATAGCCGGTCCAAGCCTGGGTAAAGAAGGAGGATTGTGATAGACTT GACGAGCCAACGTCATAACTCAGTCACTCTTATGAAGATGAAATCCAAAAGATTTTCGTT GGGGTGTAACCCTTTCATCAACGCGCC
Protein Sequence (607 aa)
>BART1_0-u20988.003 607 150831_barley_pseudomolecules MDKTSHGLGFGDSINSLNTSHYRSSVQHTAQHRDTTLDSTSYSSFSSTNTKALKRKWGTM AGAEGTGDALLTLGLGRSPSSSDNSKVSSATACAMSPCSLKEADEESSVDLSLNFELSLG NDVARFQRKSSAGLVANSPKLDLQLSLSTGSPESAVTCTNMVSPNIHDGLDIPVTYSLPA IIGNGSAPSSWGFEHSVVSSSYASEATYAFPFSKIPRQENGTLSSPVISSTMPASVKSSV ACTSVVTNPQQRNLNTKTCQFPGCGKGARGASGHCIAHGGGRRCQKAGCQKGAEGRTIYC KAHGGGRRCEFLGCTKSAEGRTDHCIAHGGGRRCSNDGCSRAARGRSGLCIRHGGGKRCQ QEKCTKSAEGHSGLCISHGGGRRCQFPECAKGAQGSTKFCKAHGGGKRCTFLGCTKGAEG STPYCKGHGGGKRCLFEGGGVCPKSVHGGTQYCVAHGGGKRCRFDGCVKSAQGSTDFCKA HGGGKRCSWGLPGSSFGIGTEQCDKFARSKTGLCSAHTALVQDHCVHGGGTLGPVIHHFA ADVKPGEMEVAAAVKVDPVSMQSGSPLPEPEGRVHGGGLLALLSRGGNHTGPVGNSDNGA SVMMAWM