- Transcript BART1_0-u18118.018
- Transcript IDBART1_0-u18118.018
- Gene IDBART1_0-u18118
Barley RTD
Exon Structure of BART1_0-u18118.018
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 30560762 | 30560697 | + |
| chr3H | 2 | 30560965 | 30560882 | + |
| chr3H | 3 | 30561366 | 30561078 | + |
| chr3H | 4 | 30561823 | 30561684 | + |
| chr3H | 5 | 30562313 | 30562226 | + |
| chr3H | 6 | 30562615 | 30562410 | + |
| chr3H | 7 | 30562874 | 30562713 | + |
| chr3H | 8 | 30563162 | 30562969 | + |
| chr3H | 9 | 30563897 | 30563747 | + |
| chr3H | 10 | 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 | 1.8697 | 0.170251 | 6.35598 |
| morex | ETI | 12.0594 | 9.27903 | 2.48656 |
| morex | LEA | 0.467421 | 6.8157 | 5.8436 |
| morex | EPI | 7.90821 | 11.2237 | 4.25412 |
| morex | ROO | 0 | 0.755879 | 1.31514 |
| morex | ROO2 | 0.214334 | 0.758502 | 0.416367 |
| morex | NOD | 0.0000000423253 | 0.00000848288 | 0.0946519 |
| morex | RAC | 6.65497 | 4.06514 | 3.58466 |
| morex | INF1 | 2.30339 | 6.33632 | 4.15365 |
| morex | INF2 | 9.50457 | 4.1986 | 4.35948 |
| morex | CAR5 | 0 | 0 | 1.57237 |
| morex | CAR15 | 0 | 0.611165 | 0 |
| morex | LEM | 4.95001 | 2.28047 | 1.31048 |
| morex | LOD | 0.367292 | 3.06602 | 0.000000000886777 |
| morex | PAL | 2.84287 | 3.36519 | 6.25602 |
| morex | SEN | 12.3831 | 2.38984 | 11.7334 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g41910.1 | +1 | 1e-175 | 503 | 240/266 (90%) | protein|GTP-binding protein, putative, expressed |
| TAIR PP10 | AT3G12080 @ ARAPORT AT3G12080.1 @ TAIR |
+1 | 0.0 | 440 | 207/264 (78%) | Symbols: emb2738 | GTP-binding family protein | chr3:3847851-3851980 FORWARD LENGTH=663 |
| BRACH PP3 | Bradi4g12180.2.p | +1 | 0.0 | 784 | 436/544 (80%) | 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 (1858 bp)
>BART1_0-u18118.018 1858 150831_barley_pseudomolecules TCAGATGGTGATGTTCGGGAGAAAAGAAGAACCATGAGGGACAAGACATCAACAACATCT AAACATATCCCAGACAGTAAGCTTCCAAAGGTGGCTATTATTGGTAGACCTAATGTGGGT AAATCTGCGCTGTTCAATCGGCTTGTCGGGGGTAACAGGGCTATCGTTGTTGATGAACCT GGTGTAACAAGGGATCGTTTGTATGGACGATCTTATTGGGGTGATCAAGAGTTTATGGTT ATTGATACTGGGGGTGTCATTACTCTATCGAAGTCTCAAGCAGGTGTAATGGAAGAACTT GCCATCACAACTACTGTTGGTATGGATGGGATTCCAATGGCCTCTCGAGAAGCTGCTATT GCTAGGATGCCATCAATGATTGAGAAGCAAGCTGTTGCCGCCGTTGAAGAAGCAGCTGTC CTTCTTTTCCTTGTGGATGGCTGGTCTTGTGGCAGCTGATATAGAAATTGCTGATTGGTT ACGTCGCAACTTCTCACACAAGTGCATCATACTTGCTGTAAACAAATGTGAATCGCCACG GAAAGGGCAAATGCAAGCATTAGAATTTTGGTCATTAGGGTTTTCACCTTTACCAATATC TGCTATTACCGGCACTGGAACTGGAGAGCTCCTGGATATGGTCTCTTCGGAACTGAAAAA GTTCGAGTTTAGGCATTACAGGGACTAGAAGGATTGGATGATGTTGAAGAAGACGAAAAC CGCGTTCCTGCTATTTCTATTGTTGGAAGACCAAATGTTGGAAAAAGTAGCATTCTAAAT GCTTTGGTGGGAGAAGATAGAACTATTGTGAGCCCAGTTAGTGGTACCACCCGTGATGCC ATTGATACTGAGTTAACCACAGAGGATGGGCAGAAATACAAACTCATCGATACGGCTGGC ATCCGACGGAGAGCAGCAGTTGCTTCTGCTGGCAGCACAACTGAAACACTTTCAGTAAAG CGTGCATTTAGTGCAATTCGTCGATCTGATGTAGTTGCCCTTGTTATTGAAGCGATGGCC TGCGTCTCTGAGCAGGATTATAAAATTGCAGAAAGGATTGAGAAAGAGGGAAAGGCATGT GTCATTGTTGTGAACAAATGGGATACAATCCCAAACAAGAACAATGAGAGTACTACACAT TATGAACAGGATGTAAGAGAGAAGCTTCGTGTACTTGACTGGGCACCTATTGTTTACTGT TCTGCGATAAATGGGAACAGCGTTGAAAAGATTATTTCTGCTGCTTCTTTGGTTGAAAAG GAAAGGTCTAGAAGACTCGGCACCTCTATTCTTAACCAAGTGATTAGAGAAGCTGTAGCA TTCAAAGCACCACCCCGAACAAGAGGTGGCAAAAGAGGCCGCGTTTATTACACAACACAG GCTGCTGTTCGTCCACCAACGTTTGTTCTCTTCGTCAATGACGCAAAACTCTTCCCTGAG CCGTATCGGCGGTACATGCACAAGCAGCTCCGGTCTGACGCTGGATTCCCGGGCACGCCT ATTCGTCTACTGTGGCGTAGCAGGAAGCGGACTGATAGGCAACAGAGGAGATCAAATACG GAGGCTCGTGGTGCACTTGTAGCGGCGAGTTAGCATGCGAAGCAATGTTGCTACCTTCAA AAACACAAGGAAAATGTGGCGAGCTAGGAGTACCACGGTATCCCTTTTCCTCCTTGTTCA CGCGCGTTTCCTGGCTGCGAACGTGTGACTATCAATGTGCCAAGAAGTTAAGGTTCATAT TCCTCAACTACTGCCAAAGTTGAAGTGCGGTCACTGTACTCTAATAGTATAATTTTATGG CCTCTCAACTGCTAGAATGTATGGAATTTTATGGCCCCTCTCTCTCTCTCAGATGAAC
Protein Sequence (192 aa)
>BART1_0-u18118.018 192 150831_barley_pseudomolecules MACVSEQDYKIAERIEKEGKACVIVVNKWDTIPNKNNESTTHYEQDVREKLRVLDWAPIV YCSAINGNSVEKIISAASLVEKERSRRLGTSILNQVIREAVAFKAPPRTRGGKRGRVYYT TQAAVRPPTFVLFVNDAKLFPEPYRRYMHKQLRSDAGFPGTPIRLLWRSRKRTDRQQRRS NTEARGALVAAS