- Transcript BART1_0-u18118.007
- Transcript IDBART1_0-u18118.007
- Gene IDBART1_0-u18118
Barley RTD
Exon Structure of BART1_0-u18118.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 30560371 | 30559964 | + |
| chr3H | 2 | 30560762 | 30560701 | + |
| chr3H | 3 | 30560965 | 30560882 | + |
| chr3H | 4 | 30561366 | 30561078 | + |
| chr3H | 5 | 30561823 | 30561684 | + |
| chr3H | 6 | 30562313 | 30562226 | + |
| chr3H | 7 | 30562615 | 30562415 | + |
| chr3H | 8 | 30562874 | 30562713 | + |
| chr3H | 9 | 30563162 | 30562969 | + |
| chr3H | 10 | 30563897 | 30563747 | + |
| chr3H | 11 | 30564775 | 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 | 4.4522 | 4.40998 | 3.08504 |
| morex | ETI | 11.4544 | 14.1895 | 38.2536 |
| morex | LEA | 7.57288 | 9.0892 | 6.36489 |
| morex | EPI | 5.29631 | 7.57444 | 8.44264 |
| morex | ROO | 0 | 1.19018 | 0.605296 |
| morex | ROO2 | 1.94555 | 2.40467 | 0.521867 |
| morex | NOD | 1.53218 | 4.02694 | 9.9978 |
| morex | RAC | 1.92519 | 4.04149 | 3.12164 |
| morex | INF1 | 8.74064 | 6.85358 | 4.77168 |
| morex | INF2 | 1.22675 | 2.3792 | 1.59369 |
| morex | CAR5 | 6.71398 | 0.0246614 | 5.33116 |
| morex | CAR15 | 0 | 0 | 1.00266 |
| morex | LEM | 7.94053 | 10.152 | 13.523 |
| morex | LOD | 2.28444 | 0.130135 | 1.72657 |
| morex | PAL | 5.35637 | 9.93192 | 9.29766 |
| morex | SEN | 30.9789 | 14.3318 | 17.2344 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g41910.1 | +1 | 0.0 | 567 | 278/320 (87%) | protein|GTP-binding protein, putative, expressed |
| TAIR PP10 | AT3G12080 @ ARAPORT AT3G12080.1 @ TAIR |
+1 | 0.0 | 548 | 265/357 (74%) | Symbols: emb2738 | GTP-binding family protein | chr3:3847851-3851980 FORWARD LENGTH=663 |
| BRACH PP3 | Bradi4g12180.2.p | +1 | 0.0 | 694 | 355/389 (91%) | pacid=32786406 transcript=Bradi4g12180.2 locus=Bradi4g12180 ID=Bradi4g12180.2.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 (2536 bp)
>BART1_0-u18118.007 2536 150831_barley_pseudomolecules TATCCCCTTCCGTCCCCCGCTGCCCCAGGCCTCGCGCTCTACGGCGCGCCATGGCCATGC CTTCCACTCCTTCCTCCTCGCGGCCGCCCATGCTGCACCCCGCCTCCAAAACTCCGAACC CGCCCCGCCTGCTGCCGCTCGTCACCAGAGGCGCTGCTGCCCCTCGCCCTCCTCTGCTCA TCTCCTTCGCTCCGCCCGCGCCTGGTCGTCGCGGGCTCCGCGCCGCTGCCGCCCAACAAC CCGCCTACGAAGATGGGGAGGAGGAAGAAGATGGGGAGGAGGATGGGGAGTGTTACAGCG AGGAGGAGGAGGAGGATGAGGAGGAGTTGGACGTGGAGGCGATGGAGGAAGAGGCGCGGC GCGCCGCCGCCGACCTCGCCGCGCGCCTCGACCGCGAGCTCCGCGTCGATGGTGATGTTC GGGAGAAAAGAAGAACCATGAGGGACAAGACATCAACAACATCTAAACATATCCCAGACA GTAAGCTTCCAAAGGTGGCTATTATTGGTAGACCTAATGTGGGTAAATCTGCGCTGTTCA ATCGGCTTGTCGGGGGTAACAGGGCTATCGTTGTTGATGAACCTGGTGTAACAAGGGATC GTTTGTATGGACGATCTTATTGGGGTGATCAAGAGTTTATGGTTATTGATACTGGGGGTG TCATTACTCTATCGAAGTCTCAAGCAGGTGTAATGGAAGAACTTGCCATCACAACTACTG TTGGTATGGATGGGATTCCAATGGCCTCTCGAGAAGCTGCTATTGCTAGGATGCCATCAA TGATTGAGAAGCAAGCTGTTGCCGCCGTTGAAGAAGCAGCTGTCCTTCTTTTCCTTGTGG ATGGCTGGTCTTGTGGCAGCTGATATAGAAATTGCTGATTGGTTACGTCGCAACTTCTCA CACAAGTGCATCATACTTGCTGTAAACAAATGTGAATCGCCACGGAAAGGGCAAATGCAA GCATTAGAATTTTGGTCATTAGGGTTTTCACCTTTACCAATATCTGCTATTACCGGCACT GGAACTGGAGAGCTCCTGGATATGGTCTCTTCGGAACTGAAAAAGTTCGAGGCATTACAG GGACTAGAAGGATTGGATGATGTTGAAGAAGACGAAAACCGCGTTCCTGCTATTTCTATT GTTGGAAGACCAAATGTTGGAAAAAGTAGCATTCTAAATGCTTTGGTGGGAGAAGATAGA ACTATTGTGAGCCCAGTTAGTGGTACCACCCGTGATGCCATTGATACTGAGTTAACCACA GAGGATGGGCAGAAATACAAACTCATCGATACGGCTGGCATCCGACGGAGAGCAGCAGTT GCTTCTGCTGGCAGCACAACTGAAACACTTTCAGTAAAGCGTGCATTTAGTGCAATTCGT CGATCTGATGTAGTTGCCCTTGTTATTGAAGCGATGGCCTGCGTCTCTGAGCAGGATTAT AAAATTGCAGAAAGGATTGAGAAAGAGGGAAAGGCATGTGTCATTGTTGTGAACAAATGG GATACAATCCCAAACAAGAACAATGAGAGTACTACACATTATGAACAGGATGTAAGAGAG AAGCTTCGTGTACTTGACTGGGCACCTATTGTTTACTGTTCTGCGATAAATGGGAACAGC GTTGAAAAGATTATTTCTGCTGCTTCTTTGGTTGAAAAGGAAAGGTCTAGAAGACTCGGC ACCTCTATTCTTAACCAAGTGATTAGAGAAGCTGTAGCATTCAAAGCACCACCCCGAACA AGAGGTGGCAAAAGAGGCCGCGTTTATTACACAACACAGGCTGCTGTTCGTCCACCAACG TTTGTTCTCTTCGTCAATGACGCAAAACTCTTCCCTGAGCCGTATCGGCGGTACATGCAC AAGCAGCTCCGGTCTGACGCTGGATTCCCGGGCACGCCTATTCGTCTACTGTGGCGTAGC AGGAAGCGGACTGATAGGCAACAGAGGAGATCAAATACGGAGGCTCGTGGTGCACTTGTA GCGGCGAGTTAGCATGCGAAGCAATGTTGCTACCTTCAAAAACACAAGGAAAATGTGGCG AGCTAGGAGTACCACGGTATCCCTTTTCCTCCTTGTTCACGCGCGTTTCCTGGCTGCGAA CGTGTGACTATCAATGTGCCAAGAAGTTAAGGTTCATATTCCTCAACTACTGCCAAAGTT GAAGTGCGGTCACTGTACTCTAATAGTATAATTTTATGGCCTCTCAACTGCTAGAATGTA TGGAATTTTATGGCCCCTCTCTCTCTCTCAGATGAACATCAACTTTTCTGTTTTCATGCG ATGTTGCATGCATGTATGATTATTGATGGTTTCTTTTGTCTTCAATCTCATTTTGATGAT GTGCTCATTTGCAACACAGATAGGCCTCGGTACGAAAAAAATGGATTGTGCGTTATTGAT TAAAATGACAGCATAAATAGAATTTTAAAGTTGTTAAATAGGTAAAATAACATAATATTT AGATTTCATGCATCACTGTAGATTCAAATTACATTATAAATAAACTTTTAATAAATTAAA TAGGTAAACTAACATT
Protein Sequence (383 aa)
>BART1_0-u18118.007 383 150831_barley_pseudomolecules MAGLVAADIEIADWLRRNFSHKCIILAVNKCESPRKGQMQALEFWSLGFSPLPISAITGT GTGELLDMVSSELKKFEALQGLEGLDDVEEDENRVPAISIVGRPNVGKSSILNALVGEDR TIVSPVSGTTRDAIDTELTTEDGQKYKLIDTAGIRRRAAVASAGSTTETLSVKRAFSAIR RSDVVALVIEAMACVSEQDYKIAERIEKEGKACVIVVNKWDTIPNKNNESTTHYEQDVRE KLRVLDWAPIVYCSAINGNSVEKIISAASLVEKERSRRLGTSILNQVIREAVAFKAPPRT RGGKRGRVYYTTQAAVRPPTFVLFVNDAKLFPEPYRRYMHKQLRSDAGFPGTPIRLLWRS RKRTDRQQRRSNTEARGALVAAS