- Transcript BART1_0-u19873.011
- Transcript IDBART1_0-u19873.011
- Gene IDBART1_0-u19873
Barley RTD
Exon Structure of BART1_0-u19873.011
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 216303945 | 216303591 | + |
| chr3H | 2 | 216304786 | 216304559 | + |
| chr3H | 3 | 216306264 | 216306038 | + |
| chr3H | 4 | 216306851 | 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 | 2.40336 | 0.977084 | 1.99779 |
| morex | ETI | 3.93001 | 8.68153 | 6.24017 |
| morex | LEA | 2.4044 | 2.54715 | 1.35533 |
| morex | EPI | 8.918 | 9.14777 | 11.5134 |
| morex | ROO | 0 | 1.678 | 1.46664 |
| morex | ROO2 | 0.713961 | 1.9958 | 1.96974 |
| morex | NOD | 6.23551 | 4.80951 | 7.40103 |
| morex | RAC | 0.321463 | 4.52461 | 3.9276 |
| morex | INF1 | 5.92087 | 6.40947 | 2.52464 |
| morex | INF2 | 7.99349 | 8.60513 | 4.53449 |
| morex | CAR5 | 4.1007 | 3.70004 | 2.51191 |
| morex | CAR15 | 3.55296 | 3.49291 | 3.69002 |
| morex | LEM | 4.07785 | 6.13238 | 3.53708 |
| morex | LOD | 8.21018 | 4.00334 | 7.14804 |
| morex | PAL | 0.458369 | 3.19194 | 7.28267 |
| morex | SEN | 1.6516 | 3.21516 | 2.29225 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g16210.1 | +1 | 5e-79 | 241 | 118/132 (89%) | protein|uncharacterized Cys-rich domain containing protein, putative, expressed |
| TAIR PP10 | AT2G40935 @ ARAPORT AT2G40935.1 @ TAIR |
+1 | 2e-51 | 157 | 70/107 (65%) | Symbols: | PLAC8 family protein | chr2:17083199-17084216 FORWARD LENGTH=190 |
| BRACH PP3 | Bradi2g09980.1.p | +1 | 9e-84 | 216 | 115/124 (93%) | pacid=32778952 transcript=Bradi2g09980.1 locus=Bradi2g09980 ID=Bradi2g09980.1.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 (1215 bp)
>BART1_0-u19873.011 1215 150831_barley_pseudomolecules CCGAGCTAAGCTCGACCTCGCCCTCCCGTCCATTCCTAACACGCACCGGATATCTCCTCC TGCCGAAGCGCATGTACGACGCCGGCAATACAGCCACCGGCTCCCCTCCCCTTCCCTCTT ATCTGCCGCCCGAATATCCGACGGGTGGCATCCGACGCGATTTTCTTTTGTTGGCTTTTG CCCAAATCTCACCTCGTTCCTGGATCGGGTTTCTGCTTTCTTTCTTGATCAATTGAAATC TGGAATCCGCAGCTCGGGCATTCGGCGGACAGAGCGTTCCGGAACTGGTGAGGCGAGGCC GCGGATAAGCACCAATTTGGTCGTCGGCGCTTCAGGGGTCTTTACCGATTTATTGATGGT TGGAAAAGGAAGCTATGTTCCGCCGCAGTATGTTCCGTTATATGGTGTAGATACTGAGGA GGATAGCGTTCCTGAGGTGGAGGAGAACATTGCCACGCGCCAAAGATTAAGCAGGGATCC TACACAATGGTCTTCAGGCATCTGTGCTTGTTTTGATGATCCACAGAGCTGTATGCTACT TTCTGACCCGTGACTCCTTGAATTACAGAAGGAAAGATAAAAGGTTGTATTGGTGCGACT TGCCCCTGCTTTCTTTTTGGAAAAAATGCACAGTTCTTGGGATCTGGAACTCTCGCTGGA TCATGCACCACCCATTGCATGCTTTGGGGCCTTCTGACAAGTTTCTGCTGTCTGTGTACT GGGGGGCTTGTATTAGCAGTTCCAGGGTCTGCTGTTGCTTGTTATGCTTGTGGATACCGC CAAGCACTAAGAACGAAGTACAACCTTCCGGAAGCACCATGCGGCGATTTGACGACGCAC TTATTTTGCCATCTGTGTGCGATATGCCAAGAGTACAGGGAGATCCGCGAGAGATCAGAC AGTAGCGCCTCTTCAGCTCCTGATGTTACTCCACCTCCTGTGCAGACAATGGATGACCTT TGACTGAGTAGATGACGAGAACATATCCTGCCTGGCAAATCTTTGGTTGGCTTGACATGC CCTTGCCTGTAAGTATTTGTGTTACTGTGCACTGCTCCCACAGCTACGATGTCAGATTTT ATGCAGCTGGTGTAAAGATAACCTGTAAACTAATGGACAGCGCGAGAAAATGTAACCCTT TTGTTGCACGATTATAGCATGTAACATTTTTTCTTCATACATGTAGAAATGAAATGGAAA CAAAGAGTGTTCTCC
Protein Sequence (183 aa)
>BART1_0-u19873.011 183 150831_barley_pseudomolecules RAKLDLALPSIPNTHRISPPAEAHVRRRQYSHRLPSPSLLSAARISDGWHPTRFSFVGFC PNLTSFLDRVSAFFLDQLKSGIRSSGIRRTERSGTGEARPRISTNLVVGASGVFTDLLMV GKGSYVPPQYVPLYGVDTEEDSVPEVEENIATRQRLSRDPTQWSSGICACFDDPQSCMLL SDP