- Transcript BART1_0-u18118.016
- Transcript IDBART1_0-u18118.016
- Gene IDBART1_0-u18118
Barley RTD
Exon Structure of BART1_0-u18118.016
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 30560762 | 30560579 | + |
| chr3H | 2 | 30560965 | 30560882 | + |
| chr3H | 3 | 30561823 | 30561078 | + |
| chr3H | 4 | 30562313 | 30562170 | + |
| chr3H | 5 | 30562615 | 30562415 | + |
| chr3H | 6 | 30562874 | 30562713 | + |
| chr3H | 7 | 30563162 | 30562969 | + |
| chr3H | 8 | 30563897 | 30563747 | + |
| chr3H | 9 | 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 | 0.731712 | 2.12172 | 0 |
| morex | ETI | 3.04101 | 2.11327 | 1.8561 |
| morex | LEA | 2.20959 | 0 | 0 |
| morex | EPI | 1.96008 | 0.0190172 | 0.703471 |
| morex | ROO | 0 | 0.342966 | 0.000107117 |
| morex | ROO2 | 0 | 0 | 0.259416 |
| morex | NOD | 0 | 0 | 1.12642 |
| morex | RAC | 1.09182 | 0.00000217957 | 0.205591 |
| morex | INF1 | 4.57807 | 0 | 0.115571 |
| morex | INF2 | 2.86113 | 0 | 2.07109 |
| morex | CAR5 | 2.32078 | 3.2837 | 0 |
| morex | CAR15 | 0.138305 | 0 | 0 |
| morex | LEM | 0.00000000401322 | 0 | 0.0000411774 |
| morex | LOD | 0 | 0.0778922 | 0 |
| morex | PAL | 0 | 0 | 0.927147 |
| morex | SEN | 7.18217 | 1.28947 | 1.47983 |
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 | 547 | 269/310 (87%) | protein|GTP-binding protein, putative, expressed |
| TAIR PP10 | AT3G12080 @ ARAPORT AT3G12080.1 @ TAIR |
+1 | 8e-156 | 470 | 228/310 (74%) | Symbols: emb2738 | GTP-binding family protein | chr3:3847851-3851980 FORWARD LENGTH=663 |
| BRACH PP3 | Bradi4g12180.2.p | +1 | 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 (2457 bp)
>BART1_0-u18118.016 2457 150831_barley_pseudomolecules GTTGACTATAAATGTTATGTTTTCTAAGTAGAATAAATAGACTGATGTGCTGGTTCTTTC CCTCTAAAAGCTTACTCCATCCACTTCACTTGGTTCAAATACTATATGTCGACATTTTTC AGATGGTGATGTTCGGGAGAAAAGAAGAACCATGAGGGACAAGACATCAACAACATCTAA ACATATCCCAGACAGTAAGCTTCCAAAGGTGGCTATTATTGGTAGACCTAATGTGGGTAA ATCTGCGCTGTTCAATCGGCTTGTCGGGGGTAACAGGGCTATCGTTGTTGATGAACCTGG TGTAACAAGGGATCGTTTGTATGGACGATCTTATTGGGGTGATCAAGAGTTTATGGTTAT TGATACTGGGGGTGTCATTACTCTATCGAAGTCTCAAGCAGGTGTAATGGAAGAACTTGC CATCACAACTACTGTTGGTATGGATGGGATTCCAATGGCCTCTCGAGAAGCTGCTATTGC TAGGATGCCATCAATGATTGAGAAGCAAGCTGTTGCCGCCGTTGAAGAAGCAGCTGTCCT TCTTTTCCTTGTGGATGGTCAGGCAGGTTTAGGCGATTATAGTTGTATCATATATTTTGA GCAACTATTTTATCTATTACTTTTGTTATTAAATCTTCTAATCGTACTAGCGCGGTTTAT TCTAATATGAACGGCTCAATATTTACCTCCTAACGACTCAAGTCTTGTTTCCCTGATGCC TCTTCTTGGTTCATACTCCTGAGAAAATTCTTCTTGACATAAAAATGCATAACATGCCAG TGATAATATGCTATCATTTTTAGTTACCTGTACATTGTTACTATAAACTTCCAAAGCTTG TTTTCACTAACATGATAGTCTCAAATTCCTCCAGGCTGGTCTTGTGGCAGCTGATATAGA AATTGCTGATTGGTTACGTCGCAACTTCTCACACAAGTGCATCATACTTGCTGTAAACAA ATGTGAATCGCCACGGAAAGGGCAAATGCAAGCATTAGAATTTTGGTCATTAGGTTGGCA GGGTTTATATTTATTTGCTGCTCGGCTCATCTTTCCTCTATTCCTGCTAGGTTTTCACCT TTACCAATATCTGCTATTACCGGCACTGGAACTGGAGAGCTCCTGGATATGGTCTCTTCG GAACTGAAAAAGTTCGAGGCATTACAGGGACTAGAAGGATTGGATGATGTTGAAGAAGAC GAAAACCGCGTTCCTGCTATTTCTATTGTTGGAAGACCAAATGTTGGAAAAAGTAGCATT CTAAATGCTTTGGTGGGAGAAGATAGAACTATTGTGAGCCCAGTTAGTGGTACCACCCGT GATGCCATTGATACTGAGTTAACCACAGAGGATGGGCAGAAATACAAACTCATCGATACG GCTGGCATCCGACGGAGAGCAGCAGTTGCTTCTGCTGGCAGCACAACTGAAACACTTTCA GTAAAGCGTGCATTTAGTGCAATTCGTCGATCTGATGTAGTTGCCCTTGTTATTGAAGCG ATGGCCTGCGTCTCTGAGCAGGATTATAAAATTGCAGAAAGGATTGAGAAAGAGGGAAAG GCATGTGTCATTGTTGTGAACAAATGGGATACAATCCCAAACAAGAACAATGAGAGTACT ACACATTATGAACAGGATGTAAGAGAGAAGCTTCGTGTACTTGACTGGGCACCTATTGTT TACTGTTCTGCGATAAATGGGAACAGCGTTGAAAAGATTATTTCTGCTGCTTCTTTGGTT GAAAAGGAAAGGTCTAGAAGACTCGGCACCTCTATTCTTAACCAAGTGATTAGAGAAGCT GTAGCATTCAAAGCACCACCCCGAACAAGAGGTGGCAAAAGAGGCCGCGTTTATTACACA ACACAGGCTGCTGTTCGTCCACCAACGTTTGTTCTCTTCGTCAATGACGCAAAACTCTTC CCTGAGCCGTATCGGCGGTACATGCACAAGCAGCTCCGGTCTGACGCTGGATTCCCGGGC ACGCCTATTCGTCTACTGTGGCGTAGCAGGAAGCGGACTGATAGGCAACAGAGGAGATCA AATACGGAGGCTCGTGGTGCACTTGTAGCGGCGAGTTAGCATGCGAAGCAATGTTGCTAC CTTCAAAAACACAAGGAAAATGTGGCGAGCTAGGAGTACCACGGTATCCCTTTTCCTCCT TGTTCACGCGCGTTTCCTGGCTGCGAACGTGTGACTATCAATGTGCCAAGAAGTTAAGGT TCATATTCCTCAACTACTGCCAAAGTTGAAGTGCGGTCACTGTACTCTAATAGTATAATT TTATGGCCTCTCAACTGCTAGAATGTATGGAATTTTATGGCCCCTCTCTCTCTCTCAGAT GAACATCAACTTTTCTGTTTTCATGCGATGTTGCATGCATGTATGATTATTGATGGTTTC TTTTGTCTTCAATCTCATTTTGATGATGTGCTCATTTGCAACACAGATAGGCCTCGG
Protein Sequence (316 aa)
>BART1_0-u18118.016 316 150831_barley_pseudomolecules MVSSELKKFEALQGLEGLDDVEEDENRVPAISIVGRPNVGKSSILNALVGEDRTIVSPVS GTTRDAIDTELTTEDGQKYKLIDTAGIRRRAAVASAGSTTETLSVKRAFSAIRRSDVVAL VIEAMACVSEQDYKIAERIEKEGKACVIVVNKWDTIPNKNNESTTHYEQDVREKLRVLDW APIVYCSAINGNSVEKIISAASLVEKERSRRLGTSILNQVIREAVAFKAPPRTRGGKRGR VYYTTQAAVRPPTFVLFVNDAKLFPEPYRRYMHKQLRSDAGFPGTPIRLLWRSRKRTDRQ QRRSNTEARGALVAAS