- Transcript BART1_0-u37558.009
- Transcript IDBART1_0-u37558.009
- Gene IDBART1_0-u37558
Barley RTD
Exon Structure of BART1_0-u37558.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 550826692 | 550826523 | - |
| chr5H | 2 | 550827463 | 550826843 | - |
| chr5H | 3 | 550827855 | 550827744 | - |
| chr5H | 4 | 550828824 | 550828472 | - |
| chr5H | 5 | 550829010 | 550828974 | - |
| chr5H | 6 | 550829877 | 550829819 | - |
| chr5H | 7 | 550830171 | 550829993 | - |
| chr5H | 8 | 550830365 | 550830281 | - |
| chr5H | 9 | 550830694 | 550830568 | - |
| chr5H | 10 | 550831196 | 550830928 | - |
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 | 3.82944 | 0 | 0.438174 |
| morex | ETI | 1.83803 | 3.47946 | 3.63321 |
| morex | LEA | 0.0000000205865 | 0.445228 | 2.14755 |
| morex | EPI | 2.6796 | 0.000000000367007 | 3.70638 |
| morex | ROO | 2.15947 | 0.905142 | 0.490693 |
| morex | ROO2 | 1.8142 | 0.875077 | 1.17735 |
| morex | NOD | 1.20892 | 2.99854 | 3.83894 |
| morex | RAC | 3.39254 | 4.06253 | 2.76199 |
| morex | INF1 | 1.01791 | 1.94067 | 4.55596 |
| morex | INF2 | 7.28923 | 5.8894 | 2.25789 |
| morex | CAR5 | 1.90814 | 1.62029 | 1.79453 |
| morex | CAR15 | 0.376385 | 0 | 0 |
| morex | LEM | 1.56352 | 1.54412 | 1.35998 |
| morex | LOD | 1.2905 | 2.21891 | 1.71039 |
| morex | PAL | 1.08479 | 0.57296 | 2.15626 |
| morex | SEN | 1.53154 | 0.619634 | 2.33116 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g32940.1 | +1 | 3e-133 | 251 | 128/157 (82%) | protein|expressed protein |
| TAIR PP10 | AT4G24900 @ ARAPORT AT4G24900.1 @ TAIR |
+1 | 1e-35 | 139 | 66/128 (52%) | Symbols: | unknown protein; Has 119 Blast hits to 96 proteins in 40 species: Archae - 0; Bacteria - 0; Metazoa - 81; Fungi - 0; Plants - 34; Viruses - 0; Other Eukaryotes - 4 (source: NCBI BLink). | chr4:12814867-12817388 FORWARD LENGTH=421 |
| BRACH PP3 | Bradi4g34656.1.p | +3 | 3e-140 | 267 | 169/233 (73%) | pacid=32784850 transcript=Bradi4g34656.1 locus=Bradi4g34656 ID=Bradi4g34656.1.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 (2012 bp)
>BART1_0-u37558.009 2012 150831_barley_pseudomolecules CGCCCCGCGATGCCGCCGAAGCCGCACGCCGCCGGCGGCGGCAGCTTCGAGTACTGCGAG CTGTGCCGCCGCAACCACGACCAGGGCCGGCGCCACCGCTACTTCCCCGCTCACCGCGCC GCTCTCGCGGCCGCGCTCTCCGGCTTCCACGCCAAGCTCGCCGACCTCCGCCGCGCGCTC CTCCACCCCTCCACGCCTGGCCCCCGCTCCCGCCTCTGGTGCCCCTTCTGCTCCGCCGAC CTCGTCGACCTCGACAGCCGCTTCGCCTGTAGCAATGCGATTTACCATCTCGCGAGCGAG GAGCACCTCAAGGGCGTCAAGGATTTCCTGCGGAAGCATGGGGGCGGGATGGATCACGTT GATTCATTTAGGATTTCAGAGGATGAGCTTGCGAAGTGGGAGAAGGGCTGTGAGTCATCG ATTACAGACGAACAGACATTGACCAAGGGCCTGGTTGGACCATCTCTGGGGCCGTTGAAA GCAATGGGGCCTATTACCCCACTAGTACAGCGTGTTACGGATCTTCCAACTCCGGAAGTG TTGCTTATTCTGCTCCTTTTGGTACTTCCGGACTGCCCGTCAAACCTTGGGTCACAACAC ATGAGCATCAGGGTATGCCGAGTACAAACATGTTTCATAGTGCTGATGCACAAATGAAAG GTGCTCAACCTACTTCCCTCGGAAATGGACCAAATTCACCGGCTTCTTCTTTTGTACATG TCCAACAGGGCCACTCCGGAGGAAAATTCAATCAGGGACTGAAAGCAAATGTGCATACTG GTGCTCCTCCTCCTTGGTTAGAAGCTAGTGAGCATGATCCAAAGAATGTGTCACTTCTAT CTTCTCTGAAAGGAAAATCGAGAAAACTCAACCCAAAGCGTGTTGGAGCTGCATGGGCAG AGAGGAGAAGAGCTGAAATGGAAATGGAAAAGCGAGGTGAAGTTGTTCCAGAAATGCCTG ATGCTAGTTGGCTCCCTAATTTTGGTGGTGTCTGGCAATCTGGTTCGCGAAAGGAATCTA GGAAAGAGTTTGAGAAAAATCATAAGCTTCAAGAGAAGAACAATCCTGAGTTACTCCCTG AGATAAAACCATATATCAGCAAAAGGATGCGTGTAAGCTCTAATAAAGATGGACAACCCG ACAGCACTGTAGAATAGTGAGGAGATGTACATCGTCCTGCCAGATGCTTTATGGTACAAA TCTAACTAAATATCGGAAATGGAACAGAAATCAGAGGTGCTGCAAGGAAGTCTGCACATG TGCAATTAAATGTGACATTAGGGTACTCGTAGGCGGTCCTGCTTTTGTGTTTTCCAAATG CAACGGAACCAACTGTTTCTGGCCTTTCCGTCGCTGTGCTGTTTGTTGTGTGTCAATTGT GGTCATGGTTTCCTGTAGGAGTTGTGCAAAACGGTGCAGTGGGCAGCTCTGGATCGTGTC GCGGTTGATGGAAAGTCCAGATCTCTTGGGTGCATGATTGAAGAGATCATCATCTGTAGT ATGACAGCATGTGCAATGCCAATCAACCCCAGTGAACAAAAGGCGGGAACCCTTTCCAGG AAGAGTTAGCTGGCTTGTAGTGGTAAAAAAAACTTTTCATTATGTTGGTTGGTGCCTTGT TGGTCGTTTGATCGAGCGTGGATTTATTTGCTCCTGATGAGGTGATGACAGGGAGGGTCT GGAACATGGATGATTGATGGTTGCAGCTGAAGGGGTCGCAGTTGGAGCAAACTGAGAGCC TAGCCCCTGAGCTTGAGCTTGTTTGTCTGATGACATGTGAAGAGACCACGCCATTTTACT ATCCTACCTGAGCTTTGGCATCTACTCCTTCCGTACCAAAATATAACCCAAACGTGAGAG AATCAAGAGCATTTAGGACGGGAAGATTACATTACAAAGAGCATTCGTGTGTTGTTACCC AGTGCATCGGTCAGGTCGCTTTGCGTTTAAAGTCGGATCATCAGTGTGAATGTAATCTCG AGGAAGAGTGGTGGTGGTTGTGGGCACGGCCA
Protein Sequence (218 aa)
>BART1_0-u37558.009 218 150831_barley_pseudomolecules RPAMPPKPHAAGGGSFEYCELCRRNHDQGRRHRYFPAHRAALAAALSGFHAKLADLRRAL LHPSTPGPRSRLWCPFCSADLVDLDSRFACSNAIYHLASEEHLKGVKDFLRKHGGGMDHV DSFRISEDELAKWEKGCESSITDEQTLTKGLVGPSLGPLKAMGPITPLVQRVTDLPTPEV LLILLLLVLPDCPSNLGSQHMSIRVCRVQTCFIVLMHK