- Transcript BART1_0-u18088.002
- Transcript IDBART1_0-u18088.002
- Gene IDBART1_0-u18088
Barley RTD
Exon Structure of BART1_0-u18088.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 30433440 | 30432927 | + |
| chr3H | 2 | 30434781 | 30434706 | + |
| chr3H | 3 | 30434918 | 30434860 | + |
| chr3H | 4 | 30435171 | 30435032 | + |
| chr3H | 5 | 30435776 | 30435721 | + |
| chr3H | 6 | 30435931 | 30435855 | + |
| chr3H | 7 | 30436066 | 30436021 | + |
| chr3H | 8 | 30436328 | 30436196 | + |
| chr3H | 9 | 30436515 | 30436448 | + |
| chr3H | 10 | 30436719 | 30436632 | + |
| chr3H | 11 | 30437404 | 30436873 | + |
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 | 0.938623 | 1.9227 | 0.791809 |
| morex | ETI | 1.42159 | 3.08983 | 2.87557 |
| morex | LEA | 1.53674 | 0.45825 | 0.738033 |
| morex | EPI | 3.15771 | 4.92898 | 2.25463 |
| morex | ROO | 1.5134 | 1.16272 | 0.961157 |
| morex | ROO2 | 2.8847 | 5.4194 | 3.42049 |
| morex | NOD | 1.86171 | 2.15263 | 3.85319 |
| morex | RAC | 4.49528 | 3.02843 | 2.93118 |
| morex | INF1 | 2.91501 | 1.24046 | 3.70628 |
| morex | INF2 | 3.27062 | 2.45478 | 3.09028 |
| morex | CAR5 | 1.51877 | 2.19193 | 2.17965 |
| morex | CAR15 | 0.446145 | 1.58237 | 0 |
| morex | LEM | 1.70587 | 2.33247 | 3.71188 |
| morex | LOD | 5.12477 | 7.61921 | 5.54601 |
| morex | PAL | 2.41223 | 3.32066 | 2.45074 |
| morex | SEN | 1.05593 | 4.82195 | 3.28267 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g05680.1 | +2 | 2e-115 | 343 | 158/189 (84%) | protein|geranylgeranyl transferase type-1 subunit beta, putative, expressed |
| TAIR PP10 | AT2G39550 @ ARAPORT AT2G39550.1 @ TAIR |
+2 | 3e-112 | 257 | 123/189 (65%) | Symbols: ATGGT-IB, GGB, PGGT-I | Prenyltransferase family protein | chr2:16501666-16504144 FORWARD LENGTH=375 |
| BRACH PP3 | Bradi2g03310.1.p | +2 | 8e-157 | 350 | 164/189 (87%) | pacid=32775578 transcript=Bradi2g03310.1 locus=Bradi2g03310 ID=Bradi2g03310.1.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 (1789 bp)
>BART1_0-u18088.002 1789 150831_barley_pseudomolecules GGCTTCTCTCATTTCCCCGTGCGAGAGGTTGAAGATAGGAGGGATGAGGACGACGGGATA TGACGTCTCGGAGGGGCTAAATCTGACGGCTGAAACTCGACCGACCCAACGGTTGGACCG GCGCGCGAGCGCAGATTGCTTCGATACCCGCGCTCGAAAAACAAAAACATGGTGTAGTGC GGCACGGTCGGAAACCGGACGCAAGTGGGACCGCCATCTCGTCCCCATCTCCCAAAGTCC CAAGCGCGTCAGGATTCGTGCTCCCGTACCGGCCCCGACGAATCGGCGGCGACGCGGAGG CCGTCACTTCTCCTTCCACGGCGGCGACCGGCCGGAGATGGGGGACCAGGAGGCGGAGGA GGCGGCGGCCGGGTTCGCGCGCGCGCGCCACGCGGCGTTCCTGGAGATGATGTCGTCCGA GCTCCCCGACGGCTACGCCACGCAGGAGGTCAACCACCTCACCCTCGCCTACTTCGCCGT CGCCGGCCTCTCCCTCCTCCGGGAGCTCCACCGGGTTAACAAGGATCAAATTGCCAAATG GGTTTTGTCGTTTCAAGTACACCCTGAGGCAAACGACGACTTACATAATGGGCAATTTTT TGGATTCTGTGGCTCTAGAACAACTAAATTTCCCTCAAATTTGGTGAAGGACCCTTGCCA TAATGGTAGCCATCTAGCAAGCACTTATTCTGCTCTTGCTATATTGAAGATTGTAGGTTA TGATGTACTAAACCTTGATAGCAAGGTTCTTCTAGCGTCGATGAAAAAACTCCAGCAATC AGATGGAAGCTTCATGCCTACTCATATTGGTGCGGAAACAGACCTACGCTTTGTATACTG TGCAGCTGCGATCTGCTCAATGCTGAAAGACTGGTCAGGAATGGACAAGGAAAAGGCCAA GGAATACATCCTTAATTGTCAGTCATATGACGGTGGCTTTGGCATGGTTCCCGGTTCAGA ATCTCATGTGAGCCAGGTGGGGGAACTTTCTGTGCTGTTGCGGCCCTATATCTAATGGGT TTCATTCAAGTCGATTTGGCATCGAACTTACGAGAGTCTGCGCCGATCGACGTACAATTG CTATTGGAGTGGTGTCTTCAGAGGCAAGCAGCAGACGGGGGGTTTCAGGGCAGAAGAAAC AAGCCAAGCGATACATGCTATGCTTTCTGGATCGGAGGCGTGTTGAAGATGATTGGCGCC TACCACTTGATCGACCACGCCGCTCTGCGGGAGTTTCTGCTCACCTGCCAGACACGTTAC GGAGGCTTCTCGAAGTTCCCCGACGACGGGCTCCCGGACATCTACCATTCGTACTACGGG CTCGCTGCCCTCTCGTTGCTGGGTGAGGAGAAGGAGGTCGAGCCGCTCTGCGCCGAGCTG GGGATCATCGCCGCTGCGCTGTAGCTAGCCGAGGCACCGATCCGATCTTCCCCGTTGTAC CCTCCTTGTAACTCACAGTTTCTCTGCGACCAACGGATGCTGTAAGACCGATCCACCATT ACAGCGTGCGGCTGAAAACATGGAAGCGATTTTTTTGCATGAGGTTTCTTGATTGATCCG TGCTTTAGGCGTGTTTTGTTATTTTTCGGTTGCGACGGGCCTGATTTGCCCAGACAGTCG TGCTCTATTCCCAAGTTTGTTGCGTTGGCTGAGCTGTTGGGTCTGCTCGAAAGCTACTGA TCACGGCGCGGGGAACGAAGATCTTGTGCCTGGATTTGAGTTGGTGTTTGAAAATTGCGT GCGCGATGAAGAAATGGCGCGTGTGACGGGGAAGCAAGCTGGATTCGGG
Protein Sequence (337 aa)
>BART1_0-u18088.002 337 150831_barley_pseudomolecules ASLISPCERLKIGGMRTTGYDVSEGLNLTAETRPTQRLDRRASADCFDTRARKTKTWCSA ARSETGRKWDRHLVPISQSPKRVRIRAPVPAPTNRRRRGGRHFSFHGGDRPEMGDQEAEE AAAGFARARHAAFLEMMSSELPDGYATQEVNHLTLAYFAVAGLSLLRELHRVNKDQIAKW VLSFQVHPEANDDLHNGQFFGFCGSRTTKFPSNLVKDPCHNGSHLASTYSALAILKIVGY DVLNLDSKVLLASMKKLQQSDGSFMPTHIGAETDLRFVYCAAAICSMLKDWSGMDKEKAK EYILNCQSYDGGFGMVPGSESHVSQVGELSVLLRPYI