- Transcript BART1_0-u18118.011
- Transcript IDBART1_0-u18118.011
- Gene IDBART1_0-u18118
Barley RTD
Exon Structure of BART1_0-u18118.011
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 30560371 | 30560330 | + |
| chr3H | 2 | 30560762 | 30560701 | + |
| chr3H | 3 | 30560965 | 30560882 | + |
| chr3H | 4 | 30561371 | 30561078 | + |
| chr3H | 5 | 30561823 | 30561684 | + |
| chr3H | 6 | 30562313 | 30562170 | + |
| chr3H | 7 | 30562615 | 30562424 | + |
| chr3H | 8 | 30562874 | 30562713 | + |
| chr3H | 9 | 30563162 | 30562969 | + |
| chr3H | 10 | 30563897 | 30563747 | + |
| chr3H | 11 | 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 | 10.2129 | 14.0876 | 21.1461 |
| morex | ETI | 47.2302 | 54.6383 | 54.1502 |
| morex | LEA | 22.679 | 20.6369 | 23.4481 |
| morex | EPI | 20.1487 | 12.387 | 15.039 |
| morex | ROO | 0.383967 | 1.50746 | 0 |
| morex | ROO2 | 2.50503 | 1.88691 | 2.32678 |
| morex | NOD | 4.85674 | 4.90033 | 10.1501 |
| morex | RAC | 4.7345 | 6.53105 | 4.62669 |
| morex | INF1 | 16.6549 | 11.9136 | 11.0287 |
| morex | INF2 | 5.15085 | 6.01722 | 7.97441 |
| morex | CAR5 | 2.58496 | 3.83319 | 5.81871 |
| morex | CAR15 | 0.371096 | 0 | 0 |
| morex | LEM | 14.636 | 14.2308 | 14.5353 |
| morex | LOD | 2.26445 | 3.55175 | 2.3806 |
| morex | PAL | 13.2393 | 11.715 | 8.89584 |
| morex | SEN | 55.0846 | 39.3267 | 33.0988 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g41910.1 | +2 | 0.0 | 543 | 268/307 (87%) | protein|GTP-binding protein, putative, expressed |
| TAIR PP10 | AT3G12080 @ ARAPORT AT3G12080.1 @ TAIR |
+2 | 0.0 | 470 | 230/307 (75%) | Symbols: emb2738 | GTP-binding family protein | chr3:3847851-3851980 FORWARD LENGTH=663 |
| BRACH PP3 | Bradi4g12180.1.p | +2 | 0.0 | 586 | 306/333 (92%) | 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 (2056 bp)
>BART1_0-u18118.011 2056 150831_barley_pseudomolecules CCGCCGACCTCGCCGCGCGCCTCGACCGCGAGCTCCGCGTCGATGGTGATGTTCGGGAGA AAAGAAGAACCATGAGGGACAAGACATCAACAACATCTAAACATATCCCAGACAGTAAGC TTCCAAAGGTGGCTATTATTGGTAGACCTAATGTGGGTAAATCTGCGCTGTTCAATCGGC TTGTCGGGGGTAACAGGGCTATCGTTGTTGATGAACCTGGTGTAACAAGGGATCGTTTGT ATGGACGATCTTATTGGGGTGATCAAGAGTTTATGGTTATTGATACTGGGGGTGTCATTA CTCTATCGAAGTCTCAAGCAGGTGTAATGGAAGAACTTGCCATCACAACTACTGTTGGTA TGGATGGGATTCCAATGGCCTCTCGAGAAGCTGCTATTGCTAGGATGCCATCAATGATTG AGAAGCAAGCTGTTGCCGCCGTTGAAGAAGCAGCTGTCCTTCTTTTCCTTGTGGATGGTC AGGCTGGTCTTGTGGCAGCTGATATAGAAATTGCTGATTGGTTACGTCGCAACTTCTCAC ACAAGTGCATCATACTTGCTGTAAACAAATGTGAATCGCCACGGAAAGGGCAAATGCAAG CATTAGAATTTTGGTCATTAGGTTGGCAGGGTTTATATTTATTTGCTGCTCGGCTCATCT TTCCTCTATTCCTGCTAGGTTTTCACCTTTACCAATATCTGCTATTACCGGCACTGGAAC TGGAGAGCTCCTGGATATGGTCTCTTCGGAACTGAAAAAGTTCGAGGGACTAGAAGGATT GGATGATGTTGAAGAAGACGAAAACCGCGTTCCTGCTATTTCTATTGTTGGAAGACCAAA TGTTGGAAAAAGTAGCATTCTAAATGCTTTGGTGGGAGAAGATAGAACTATTGTGAGCCC AGTTAGTGGTACCACCCGTGATGCCATTGATACTGAGTTAACCACAGAGGATGGGCAGAA ATACAAACTCATCGATACGGCTGGCATCCGACGGAGAGCAGCAGTTGCTTCTGCTGGCAG CACAACTGAAACACTTTCAGTAAAGCGTGCATTTAGTGCAATTCGTCGATCTGATGTAGT TGCCCTTGTTATTGAAGCGATGGCCTGCGTCTCTGAGCAGGATTATAAAATTGCAGAAAG GATTGAGAAAGAGGGAAAGGCATGTGTCATTGTTGTGAACAAATGGGATACAATCCCAAA CAAGAACAATGAGAGTACTACACATTATGAACAGGATGTAAGAGAGAAGCTTCGTGTACT TGACTGGGCACCTATTGTTTACTGTTCTGCGATAAATGGGAACAGCGTTGAAAAGATTAT TTCTGCTGCTTCTTTGGTTGAAAAGGAAAGGTCTAGAAGACTCGGCACCTCTATTCTTAA CCAAGTGATTAGAGAAGCTGTAGCATTCAAAGCACCACCCCGAACAAGAGGTGGCAAAAG AGGCCGCGTTTATTACACAACACAGGCTGCTGTTCGTCCACCAACGTTTGTTCTCTTCGT CAATGACGCAAAACTCTTCCCTGAGCCGTATCGGCGGTACATGCACAAGCAGCTCCGGTC TGACGCTGGATTCCCGGGCACGCCTATTCGTCTACTGTGGCGTAGCAGGAAGCGGACTGA TAGGCAACAGAGGAGATCAAATACGGAGGCTCGTGGTGCACTTGTAGCGGCGAGTTAGCA TGCGAAGCAATGTTGCTACCTTCAAAAACACAAGGAAAATGTGGCGAGCTAGGAGTACCA CGGTATCCCTTTTCCTCCTTGTTCACGCGCGTTTCCTGGCTGCGAACGTGTGACTATCAA TGTGCCAAGAAGTTAAGGTTCATATTCCTCAACTACTGCCAAAGTTGAAGTGCGGTCACT GTACTCTAATAGTATAATTTTATGGCCTCTCAACTGCTAGAATGTATGGAATTTTATGGC CCCTCTCTCTCTCTCAGATGAACATCAACTTTTCTGTTTTCATGCGATGTTGCATGCATG TATGATTATTGATGGTTTCTTTTGTCTTCAATCTCATTTTGATGATGTGCTCATTTGCAA CACAGATAGGCCTCGG
Protein Sequence (313 aa)
>BART1_0-u18118.011 313 150831_barley_pseudomolecules MVSSELKKFEGLEGLDDVEEDENRVPAISIVGRPNVGKSSILNALVGEDRTIVSPVSGTT RDAIDTELTTEDGQKYKLIDTAGIRRRAAVASAGSTTETLSVKRAFSAIRRSDVVALVIE AMACVSEQDYKIAERIEKEGKACVIVVNKWDTIPNKNNESTTHYEQDVREKLRVLDWAPI VYCSAINGNSVEKIISAASLVEKERSRRLGTSILNQVIREAVAFKAPPRTRGGKRGRVYY TTQAAVRPPTFVLFVNDAKLFPEPYRRYMHKQLRSDAGFPGTPIRLLWRSRKRTDRQQRR SNTEARGALVAAS