- Transcript BART1_0-u18118.012
- Transcript IDBART1_0-u18118.012
- Gene IDBART1_0-u18118
Barley RTD
Exon Structure of BART1_0-u18118.012
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 30560762 | 30560436 | + |
| chr3H | 2 | 30560965 | 30560882 | + |
| chr3H | 3 | 30561371 | 30561078 | + |
| chr3H | 4 | 30561823 | 30561684 | + |
| chr3H | 5 | 30562313 | 30562170 | + |
| chr3H | 6 | 30562615 | 30562415 | + |
| chr3H | 7 | 30562874 | 30562713 | + |
| chr3H | 8 | 30563162 | 30562969 | + |
| chr3H | 9 | 30563897 | 30563747 | + |
| chr3H | 10 | 30564609 | 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 | 3.86408 | 2.82322 | 0.368059 |
| morex | ETI | 0.796004 | 0 | 0 |
| morex | LEA | 6.0068 | 1.95414 | 0 |
| morex | EPI | 0 | 0.426733 | 0.779027 |
| morex | ROO | 2.10993 | 0.706029 | 0.0106933 |
| morex | ROO2 | 0 | 0 | 0.0000274451 |
| morex | NOD | 0.680596 | 0 | 0 |
| morex | RAC | 0.00000000134669 | 0.369498 | 0 |
| morex | INF1 | 0.00045291 | 3.10329 | 4.10968 |
| morex | INF2 | 0.00275035 | 1.56181 | 0 |
| morex | CAR5 | 3.72642 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0.314546 |
| morex | LEM | 0 | 0 | 1.88627 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0.000000000484624 | 0.640032 | 0.941613 |
| morex | SEN | 3.08108 | 0.76237 | 0.427947 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g41910.1 | +3 | 0.0 | 547 | 269/310 (87%) | protein|GTP-binding protein, putative, expressed |
| TAIR PP10 | AT3G12080 @ ARAPORT AT3G12080.1 @ TAIR |
+3 | 0.0 | 470 | 228/310 (74%) | Symbols: emb2738 | GTP-binding family protein | chr3:3847851-3851980 FORWARD LENGTH=663 |
| BRACH PP3 | Bradi4g12180.2.p | +3 | 0.0 | 593 | 308/336 (92%) | 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 (2288 bp)
>BART1_0-u18118.012 2288 150831_barley_pseudomolecules GTCGCCGTTCGTATGCTGCCTCTTGTCAGGCAAATTACCGGAGATCGCTGGTCTCTTCAC TAACTACTCCTAGATGTTGGTAACTAGCAAGAAAATTATAGACAGTTTAGCCTTTAGTTT CAAGTATTGCTACAAGTCACATTGTTGACTATAAATGTTATGTTTTCTAAGTAGAATAAA TAGACTGATGTGCTGGTTCTTTCCCTCTAAAAGCTTACTCCATCCACTTCACTTGGTTCA AATACTATATGTCGACATTTTTCAGATGGTGATGTTCGGGAGAAAAGAAGAACCATGAGG GACAAGACATCAACAACATCTAAACATATCCCAGACAGTAAGCTTCCAAAGGTGGCTATT ATTGGTAGACCTAATGTGGGTAAATCTGCGCTGTTCAATCGGCTTGTCGGGGGTAACAGG GCTATCGTTGTTGATGAACCTGGTGTAACAAGGGATCGTTTGTATGGACGATCTTATTGG GGTGATCAAGAGTTTATGGTTATTGATACTGGGGGTGTCATTACTCTATCGAAGTCTCAA GCAGGTGTAATGGAAGAACTTGCCATCACAACTACTGTTGGTATGGATGGGATTCCAATG GCCTCTCGAGAAGCTGCTATTGCTAGGATGCCATCAATGATTGAGAAGCAAGCTGTTGCC GCCGTTGAAGAAGCAGCTGTCCTTCTTTTCCTTGTGGATGGTCAGGCTGGTCTTGTGGCA GCTGATATAGAAATTGCTGATTGGTTACGTCGCAACTTCTCACACAAGTGCATCATACTT GCTGTAAACAAATGTGAATCGCCACGGAAAGGGCAAATGCAAGCATTAGAATTTTGGTCA TTAGGTTGGCAGGGTTTATATTTATTTGCTGCTCGGCTCATCTTTCCTCTATTCCTGCTA GGTTTTCACCTTTACCAATATCTGCTATTACCGGCACTGGAACTGGAGAGCTCCTGGATA TGGTCTCTTCGGAACTGAAAAAGTTCGAGGCATTACAGGGACTAGAAGGATTGGATGATG TTGAAGAAGACGAAAACCGCGTTCCTGCTATTTCTATTGTTGGAAGACCAAATGTTGGAA AAAGTAGCATTCTAAATGCTTTGGTGGGAGAAGATAGAACTATTGTGAGCCCAGTTAGTG GTACCACCCGTGATGCCATTGATACTGAGTTAACCACAGAGGATGGGCAGAAATACAAAC TCATCGATACGGCTGGCATCCGACGGAGAGCAGCAGTTGCTTCTGCTGGCAGCACAACTG AAACACTTTCAGTAAAGCGTGCATTTAGTGCAATTCGTCGATCTGATGTAGTTGCCCTTG TTATTGAAGCGATGGCCTGCGTCTCTGAGCAGGATTATAAAATTGCAGAAAGGATTGAGA AAGAGGGAAAGGCATGTGTCATTGTTGTGAACAAATGGGATACAATCCCAAACAAGAACA ATGAGAGTACTACACATTATGAACAGGATGTAAGAGAGAAGCTTCGTGTACTTGACTGGG CACCTATTGTTTACTGTTCTGCGATAAATGGGAACAGCGTTGAAAAGATTATTTCTGCTG CTTCTTTGGTTGAAAAGGAAAGGTCTAGAAGACTCGGCACCTCTATTCTTAACCAAGTGA TTAGAGAAGCTGTAGCATTCAAAGCACCACCCCGAACAAGAGGTGGCAAAAGAGGCCGCG TTTATTACACAACACAGGCTGCTGTTCGTCCACCAACGTTTGTTCTCTTCGTCAATGACG CAAAACTCTTCCCTGAGCCGTATCGGCGGTACATGCACAAGCAGCTCCGGTCTGACGCTG GATTCCCGGGCACGCCTATTCGTCTACTGTGGCGTAGCAGGAAGCGGACTGATAGGCAAC AGAGGAGATCAAATACGGAGGCTCGTGGTGCACTTGTAGCGGCGAGTTAGCATGCGAAGC AATGTTGCTACCTTCAAAAACACAAGGAAAATGTGGCGAGCTAGGAGTACCACGGTATCC CTTTTCCTCCTTGTTCACGCGCGTTTCCTGGCTGCGAACGTGTGACTATCAATGTGCCAA GAAGTTAAGGTTCATATTCCTCAACTACTGCCAAAGTTGAAGTGCGGTCACTGTACTCTA ATAGTATAATTTTATGGCCTCTCAACTGCTAGAATGTATGGAATTTTATGGCCCCTCTCT CTCTCTCAGATGAACATCAACTTTTCTGTTTTCATGCGATGTTGCATGCATGTATGATTA TTGATGGTTTCTTTTGTCTTCAATCTCATTTTGATGATGTGCTCATTTGCAACACAGATA GGCCTCGG
Protein Sequence (316 aa)
>BART1_0-u18118.012 316 150831_barley_pseudomolecules MVSSELKKFEALQGLEGLDDVEEDENRVPAISIVGRPNVGKSSILNALVGEDRTIVSPVS GTTRDAIDTELTTEDGQKYKLIDTAGIRRRAAVASAGSTTETLSVKRAFSAIRRSDVVAL VIEAMACVSEQDYKIAERIEKEGKACVIVVNKWDTIPNKNNESTTHYEQDVREKLRVLDW APIVYCSAINGNSVEKIISAASLVEKERSRRLGTSILNQVIREAVAFKAPPRTRGGKRGR VYYTTQAAVRPPTFVLFVNDAKLFPEPYRRYMHKQLRSDAGFPGTPIRLLWRSRKRTDRQ QRRSNTEARGALVAAS