- Transcript BART1_0-u20988.010
- Transcript IDBART1_0-u20988.010
- Gene IDBART1_0-u20988
Barley RTD
Exon Structure of BART1_0-u20988.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 413470167 | 413469436 | - |
| chr3H | 2 | 413471863 | 413470267 | - |
| chr3H | 3 | 413472753 | 413472688 | - |
| chr3H | 4 | 413474574 | 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 | 14.0419 | 45.9046 | 39.1504 |
| morex | ETI | 15.1569 | 19.1283 | 19.675 |
| morex | LEA | 14.3878 | 19.5398 | 30.5678 |
| morex | EPI | 10.2382 | 26.4356 | 10.5284 |
| morex | ROO | 25.6207 | 12.3642 | 9.5024 |
| morex | ROO2 | 30.5782 | 30.5398 | 29.2704 |
| morex | NOD | 19.3322 | 27.7742 | 30.1002 |
| morex | RAC | 58.7568 | 51.7213 | 52.676 |
| morex | INF1 | 27.6392 | 26.372 | 24.6493 |
| morex | INF2 | 23.2772 | 17.0948 | 21.7747 |
| morex | CAR5 | 27.5271 | 31.3975 | 33.1003 |
| morex | CAR15 | 0.621719 | 1.4054 | 4.0593 |
| morex | LEM | 37.9629 | 38.0312 | 21.2101 |
| morex | LOD | 40.5531 | 23.1833 | 40.5635 |
| morex | PAL | 21.4256 | 16.2851 | 15.409 |
| morex | SEN | 25.7022 | 33.8438 | 25.1835 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g43372.1 | +2 | 0.0 | 741 | 457/646 (71%) | protein|expressed protein |
| TAIR PP10 | AT1G64140 @ ARAPORT AT1G64140.1 @ TAIR |
+2 | 3e-143 | 438 | 276/545 (51%) | 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 | +2 | 0.0 | 899 | 511/635 (80%) | 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 (2580 bp)
>BART1_0-u20988.010 2580 150831_barley_pseudomolecules GCTGAGCTTTCCTTCAACCCCGCTCAGCTCCCTCCCTTCCTACAAATCTGGTCTGGTGGG CGCTGTTCGCCGCGGCGGGTCTCTCGCGCCCGCGCTCCCGCAACAACCTCAAAACCCTAG CCATCCTCGCGACCCAGTCGATTGGATCGACCGCTTCCTCCTCCTCCGCCCAGACCCAGA CCCAGGGACCGCTGATTTCACTCCTGTGTGTTTTCAACTCACTTGGGATCCGCGAGAGTG CTGCTATACTGGATCATCGCTTTCTGTTTGGCCTGAGCTGTGGAAGTTTCTAAGTAGAAA CTGAGGGTCAGTTCAAAACTTTATCCCACTCACCCCATACATACTGGCGAGAAATGGATC GTGATGATGTATCTGGCTTTGTTAGCGGGGGTTGCAAGCTGTTCTGAGTTTTCTAACCTA GTAGAAGTTAATAAATAAAGTTATGATACCAGGAAGTCAGTCAACTGGCGGTTCTTTTCA TTTACTAATTGGTTGATGTTTCCGAATTGGAATGGACAAAACTTCTCATGGCCTTGGATT TGGTGATAGCATCAACTCGTTAAACACTTCTCATTACCGGAGTTCAGTCCAACACACTGC TCAGCATAGAGACACTACACTTGATTCCACATCATATTCCAGCTTCTCATCCACCAACAC AAAAGCCCTGAAAAGGAAGTGGGGTACTATGGCTGGAGCAGAAGGTACTGGGGATGCATT ACTCACTCTGGGTTTAGGCCGTTCACCAAGTTCATCTGACAATAGCAAAGTAAGCTCTGC CACAGCCTGTGCAATGTCTCCATGCTCGCTAAAGGAGGCTGATGAGGAGTCATCTGTTGA TCTTAGCTTGAATTTTGAGCTTTCCCTTGGCAATGATGTTGCACGTTTTCAAAGGAAATC CTCTGCTGGTTTAGTAGCCAATTCTCCTAAACTGGATCTTCAGTTGAGTTTATCCACTGG CTCACCTGAATCTGCTGTCACTTGTACAAATATGGTGTCACCAAATATTCATGATGGCTT GGACATACCAGTGACCTATTCATTACCAGCCATTATAGGGAATGGGTCAGCACCGTCTAG TTGGGGTTTTGAGCACTCTGTGGTTTCATCATCATATGCGTCTGAAGCAACATATGCATT TCCATTTTCGAAGATACCCAGACAAGAGAATGGTACTTTGTCTTCACCAGTCATATCGTC AACTATGCCAGCAAGTGTGAAGAGCTCAGTTGCCTGTACTTCGGTGGTAACTAACCCTCA GCAGCGCAATCTTAACACTAAAACCTGCCAGTTCCCTGGATGTGGCAAAGGGGCAAGAGG TGCATCAGGGCATTGTATAGCCCATGGTGGTGGTAGGCGATGCCAGAAAGCTGGTTGCCA GAAGGGTGCTGAAGGAAGGACCATATATTGCAAGGCCCATGGTGGAGGGAGGAGATGTGA GTTTCTTGGATGTACAAAGAGCGCTGAAGGACGCACCGACCACTGCATTGCCCATGGTGG TGGCCGCCGGTGCAGTAATGATGGCTGCTCCCGTGCTGCCCGAGGAAGATCTGGCTTATG CATCAGGCATGGTGGTGGAAAAAGGTGTCAGCAGGAGAAGTGCACCAAGAGCGCAGAAGG TCATTCTGGCCTCTGCATCTCTCATGGGGGTGGGAGGCGCTGCCAGTTTCCAGAATGTGC AAAGGGTGCACAGGGAAGCACAAAGTTCTGCAAGGCACATGGTGGAGGCAAGCGCTGCAC TTTCTTGGGCTGTACCAAAGGAGCTGAAGGCAGCACCCCTTACTGCAAGGGCCATGGAGG AGGCAAGCGCTGCTTATTTGAGGGTGGTGGAGTGTGCCCCAAGAGCGTGCGCCATGGTGG TGGCAAGAGATGCAGGTTCGACGGCTGTGTGAAGAGTGCACAGGGGAGCACTGATTTCTG CAAGGCGCATGGGGGAGGCAAACGCTGCTCATGGGGCCTGCCGGGCTCAAGCTTCGGTAT TGGCACTGAGCAGTGTGATAAGTTTGCTCGCAGCAAGACTGGCCTCTGTTCAGCTCACAC CGCTCTAGTCCAGGACCACTGTGTTCATGGTGGTGGTACATTAGGCCCTGTAATCCACCA CTTCGCCGCAGATGTTAAACCCGGCGAGATGGAAGTTGCTGCAGCAGTGAAGGTTGATCC TGTTTCGATGCAGTCGGGGTCTCCATTGCCGGAGCCGGAGGGCAGGGTGCATGGTGGTGG GCTGCTGGCGCTGCTTTCTCGCGGCGGCAACCACACAGGCCCTGTTGGTAACTCCGATAA CGGCGCTTCTGTCATGATGGCGTGGATGTGAGCGGGCGGGCATTCTCATCAAGAATTGGT TGCTTCAAGTTTTGATCTGTTTCCAGAGCTAATGCTGTGGCGGGATAAAGTTCCACATTT CACCAATTGTTGTCCTAGTCGTTTGGAACTGGTAGGACATATATCCTCCGTGTAGAATAA ATAAGGGAGAGCGTTGTGGGCTTCTCTGTTATTGTAATGTAATTAATTAATTAATGTCGT CAAACTGCCCTTGCTTTGTGTTTATTACAATTTGTGTAATCTGATACTACTTCACAGTTC
Protein Sequence (599 aa)
>BART1_0-u20988.010 599 150831_barley_pseudomolecules MDKTSHGLGFGDSINSLNTSHYRSSVQHTAQHRDTTLDSTSYSSFSSTNTKALKRKWGTM AGAEGTGDALLTLGLGRSPSSSDNSKVSSATACAMSPCSLKEADEESSVDLSLNFELSLG NDVARFQRKSSAGLVANSPKLDLQLSLSTGSPESAVTCTNMVSPNIHDGLDIPVTYSLPA IIGNGSAPSSWGFEHSVVSSSYASEATYAFPFSKIPRQENGTLSSPVISSTMPASVKSSV ACTSVVTNPQQRNLNTKTCQFPGCGKGARGASGHCIAHGGGRRCQKAGCQKGAEGRTIYC KAHGGGRRCEFLGCTKSAEGRTDHCIAHGGGRRCSNDGCSRAARGRSGLCIRHGGGKRCQ QEKCTKSAEGHSGLCISHGGGRRCQFPECAKGAQGSTKFCKAHGGGKRCTFLGCTKGAEG STPYCKGHGGGKRCLFEGGGVCPKSVRHGGGKRCRFDGCVKSAQGSTDFCKAHGGGKRCS WGLPGSSFGIGTEQCDKFARSKTGLCSAHTALVQDHCVHGGGTLGPVIHHFAADVKPGEM EVAAAVKVDPVSMQSGSPLPEPEGRVHGGGLLALLSRGGNHTGPVGNSDNGASVMMAWM