- Transcript BART1_0-u18118.019
- Transcript IDBART1_0-u18118.019
- Gene IDBART1_0-u18118
Barley RTD
Exon Structure of BART1_0-u18118.019
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 30561366 | 30561071 | + |
| chr3H | 2 | 30561823 | 30561684 | + |
| chr3H | 3 | 30562313 | 30562226 | + |
| chr3H | 4 | 30562615 | 30562424 | + |
| chr3H | 5 | 30562874 | 30562713 | + |
| chr3H | 6 | 30563085 | 30562969 | + |
| chr3H | 7 | 30563897 | 30563747 | + |
| chr3H | 8 | 30564496 | 30564019 | + |
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 | 5.63648 | 0 | 0.845762 |
| morex | ETI | 11.7104 | 12.4013 | 10.2664 |
| morex | LEA | 0 | 9.41131 | 4.70734 |
| morex | EPI | 2.98981 | 8.61119 | 3.03282 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0.000285921 | 0 |
| morex | NOD | 0 | 1.04076 | 0 |
| morex | RAC | 3.75863 | 3.0318 | 1.60503 |
| morex | INF1 | 0.00121751 | 0 | 3.82692 |
| morex | INF2 | 0 | 2.31265 | 2.19259 |
| morex | CAR5 | 3.26198 | 0.983017 | 1.89532 |
| morex | CAR15 | 0 | 0.451642 | 0.225028 |
| morex | LEM | 2.08834 | 1.28791 | 3.85794 |
| morex | LOD | 0 | 0 | 1.05635 |
| morex | PAL | 1.74074 | 3.65687 | 1.41877 |
| morex | SEN | 8.10862 | 2.51911 | 6.92695 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g41910.1 | +3 | 4e-140 | 337 | 171/196 (87%) | protein|GTP-binding protein, putative, expressed |
| TAIR PP10 | AT3G12080 @ ARAPORT AT3G12080.1 @ TAIR |
+3 | 7e-179 | 347 | 171/233 (73%) | Symbols: emb2738 | GTP-binding family protein | chr3:3847851-3851980 FORWARD LENGTH=663 |
| BRACH PP3 | Bradi4g12180.1.p | +3 | 0.0 | 425 | 223/239 (93%) | pacid=32786407 transcript=Bradi4g12180.1 locus=Bradi4g12180 ID=Bradi4g12180.1.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 (1624 bp)
>BART1_0-u18118.019 1624 150831_barley_pseudomolecules ATAACAGGGTAACAGGGCTATCGTTGTTGATGAACCTGGTGTAACAAGGGATCGTTTGTA TGGACGATCTTATTGGGGTGATCAAGAGTTTATGGTTATTGATACTGGGGGTGTCATTAC TCTATCGAAGTCTCAAGCAGGTGTAATGGAAGAACTTGCCATCACAACTACTGTTGGTAT GGATGGGATTCCAATGGCCTCTCGAGAAGCTGCTATTGCTAGGATGCCATCAATGATTGA GAAGCAAGCTGTTGCCGCCGTTGAAGAAGCAGCTGTCCTTCTTTTCCTTGTGGATGGCTG GTCTTGTGGCAGCTGATATAGAAATTGCTGATTGGTTACGTCGCAACTTCTCACACAAGT GCATCATACTTGCTGTAAACAAATGTGAATCGCCACGGAAAGGGCAAATGCAAGCATTAG AATTTTGGTCATTAGGGTTTTCACCTTTACCAATATCTGCTATTACCGGCACTGGAACTG GAGAGCTCCTGGATATGGTCTCTTCGGAACTGAAAAAGTTCGAGGGACTAGAAGGATTGG ATGATGTTGAAGAAGACGAAAACCGCGTTCCTGCTATTTCTATTGTTGGAAGACCAAATG TTGGAAAAAGTAGCATTCTAAATGCTTTGGTGGGAGAAGATAGAACTATTGTGAGCCCAG TTAGTGGTACCACCCGTGATGCCATTGATACTGAGTTAACCACAGAGGATGGGCAGAAAT ACAAACTCATCGATACGGCTGGCATCCGACGGAGAGCAGCAGTTGCTTCTGCTGGCAGCA CAACTGAAACACTTTCAGTAAAGCGTGCATTTAGTGCAATTCGTCGATCTGATGTAGTTG CCCTTGTTATTGAAGCGATGGCCTGCGTCTCTGAGCAGGATTATAAAATTGCAGAAAGGA TTGAGAAAGAGGGAAAGGCATGTGTCATTGTTGTGAACAAATGGGATACAATCCCAAACA AGAACAATGAGAGTACTACACATTATGAACAGGATGATTATTTCTGCTGCTTCTTTGGTT GAAAAGGAAAGGTCTAGAAGACTCGGCACCTCTATTCTTAACCAAGTGATTAGAGAAGCT GTAGCATTCAAAGCACCACCCCGAACAAGAGGTGGCAAAAGAGGCCGCGTTTATTACACA ACACAGGCTGCTGTTCGTCCACCAACGTTTGTTCTCTTCGTCAATGACGCAAAACTCTTC CCTGAGCCGTATCGGCGGTACATGCACAAGCAGCTCCGGTCTGACGCTGGATTCCCGGGC ACGCCTATTCGTCTACTGTGGCGTAGCAGGAAGCGGACTGATAGGCAACAGAGGAGATCA AATACGGAGGCTCGTGGTGCACTTGTAGCGGCGAGTTAGCATGCGAAGCAATGTTGCTAC CTTCAAAAACACAAGGAAAATGTGGCGAGCTAGGAGTACCACGGTATCCCTTTTCCTCCT TGTTCACGCGCGTTTCCTGGCTGCGAACGTGTGACTATCAATGTGCCAAGAAGTTAAGGT TCATATTCCTCAACTACTGCCAAAGTTGAAGTGCGGTCACTGTACTCTAATAGTATAATT TTATGGCCTCTCAACTGCTAGAATGTATGGAATTTTATGGCCCCTCTCTCTCTCTCAGAT GAAC
Protein Sequence (242 aa)
>BART1_0-u18118.019 242 150831_barley_pseudomolecules MAGLVAADIEIADWLRRNFSHKCIILAVNKCESPRKGQMQALEFWSLGFSPLPISAITGT GTGELLDMVSSELKKFEGLEGLDDVEEDENRVPAISIVGRPNVGKSSILNALVGEDRTIV SPVSGTTRDAIDTELTTEDGQKYKLIDTAGIRRRAAVASAGSTTETLSVKRAFSAIRRSD VVALVIEAMACVSEQDYKIAERIEKEGKACVIVVNKWDTIPNKNNESTTHYEQDDYFCCF FG