- Transcript BART1_0-u25435.021
- Transcript IDBART1_0-u25435.021
- Gene IDBART1_0-u25435
Barley RTD
Exon Structure of BART1_0-u25435.021
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 681728097 | 681727717 | - |
| chr3H | 2 | 681728628 | 681728591 | - |
| chr3H | 3 | 681728830 | 681728758 | - |
| chr3H | 4 | 681729057 | 681728926 | - |
| chr3H | 5 | 681729385 | 681729308 | - |
| chr3H | 6 | 681729694 | 681729472 | - |
| chr3H | 7 | 681730185 | 681729865 | - |
| chr3H | 8 | 681730317 | 681730271 | - |
| chr3H | 9 | 681730783 | 681730695 | - |
| chr3H | 10 | 681731206 | 681731096 | - |
| chr3H | 11 | 681732646 | 681732395 | - |
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 | 0.464542 | 0 |
| morex | ETI | 0.772391 | 0.267796 | 0.876612 |
| morex | LEA | 0.345792 | 0 | 0.705625 |
| morex | EPI | 0 | 1.67734 | 0.751704 |
| morex | ROO | 3.21179 | 0.296737 | 0 |
| morex | ROO2 | 1.12183 | 1.22608 | 0.23871 |
| morex | NOD | 0 | 0 | 0.526975 |
| morex | RAC | 0.836734 | 0.242617 | 1.35326 |
| morex | INF1 | 0.208097 | 0.44101 | 0 |
| morex | INF2 | 1.2852 | 1.5395 | 1.03986 |
| morex | CAR5 | 0 | 0.421773 | 0.580316 |
| morex | CAR15 | 0.396016 | 0.292913 | 0.243345 |
| morex | LEM | 0.458896 | 0.259639 | 0.78947 |
| morex | LOD | 0.0180489 | 0.488933 | 0.525482 |
| morex | PAL | 0.595146 | 0.441164 | 0.517293 |
| morex | SEN | 0.582909 | 0.602359 | 0.299022 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g72890.1 | +2 | 8e-36 | 140 | 64/92 (70%) | protein|transposon protein, putative, CACTA, En/Spm sub-class, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g61380.4.p | +2 | 3e-35 | 138 | 66/87 (76%) | pacid=32777636 transcript=Bradi2g61380.4 locus=Bradi2g61380 ID=Bradi2g61380.4.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 (1745 bp)
>BART1_0-u25435.021 1745 150831_barley_pseudomolecules TATCCCCCCCGACCAAAACCCTAGCTCGCGCTCCAGACCCCGCACGCCCGCCGCCGCCGC GGGGAGACGGACGACGATGGCGAAGCCCCGCCGCGGCCGCTCAGGCTCGCGGTCCTCGTC GGGCTCCTCCTCCCGCTCCGCCTCCTCGGGCTCCTCCCGCTCGCGCTCGCGCTCCCGCTC CCGCTCCCTCTCCTCCTCCTCGTCCTCGCCCGCCCGCACCCGGGGCCGCTCCCCTCCCGC CGCCAAGCGCAGTTCACCTGGAGCAAAGAAAGGGCGATCACCTTCACCCCCTCTCAAAAA AGGGTCACCATCAAGGAAAGGCCGCTCAGCATCTCCCCCACCGAAGAAAGCTTCACCTCC TAGGAAAGCATCTCCCCCTCCTCAGTCGGTTGTTCTACACGTTGATCATCTATCCAGAAA TGTGAATGAGGCTCATTTGAAGGAGATATTTGGAAGTTATGGCGAAGTGGTGAATGTGGA GCTATCAATGGACAAATTTGTTAATCTCCCTCGTGGGTATGGATACATCGAGTTCAAGAA GAGGACTGATGCTGAGAAGGCTCTTCTTTACATGGATGGTGTATGCCTTCTGCCCTATGT TTTTTATGTTTATTTTCTTATGCAAATATGACAAAAAAAATCGCATCTTCTCAGGGGCAA ATTGATGGAAATGTTGTCAAGCTGAAGTTCACACTGCCACCACGCCAAAAGGCTTCTTCA CCTTTAAAGCCACCTCCTCCTCCCCCCAGAAGAGATGCTCCTCAGAATGATAAAGTTGCT ATTGGTGCTGAAAAGGATGCGCAGCAGCGCCCTGGGGGATCATCTCCACGAAAGAAGCCA CCTTCTCCTCCGCGAAAGAGGTCTCCTCCAAATAGAAGGGCTGAGTCACCCCGGCGTCCA CCCAATCCATCTCCAAGGCGTCGTGCTGATTCTCCTATTCGTCGTCGACCAGATCTTTCC CCTGTTAGGCGTGGTGACAGAAGACCAGGATCTCCAATTAGAAGACGTTCCCCTTCACCT AGAAGGCATAGGTCACCAATGCGGAGGGGTCGTGGCAGCTTATCACCTCGCAGACGCTCC CCGGGGCCTCCTAGGCGCTCACCTGGGCCTCCCAGACGGCGCAGGTCACCACCACCAAGG AGATTGAGGAGTCCTCCAAGAAGGCCACCACCACCACCTCCCCGTCGTCACAGTCGCTCC CCTCCTCCTCGCCGCCCTCTTCACTCCCGCTCTAGATCGATTTCTCCTCGCAGGGGGCGA GGACCACCATTGAGGCGTGGAAGGTCGGATTCATCATATTCTGCATCACCCAGTCCTCCA AGAAAGGGACCAAGAAGGGTGTCAAGGAGCCGCAGCCCTAGAAGGCCTCCCAGAGGAAGG AGCGGATCTAGCGACAGCGGGAGCAGCAGCTCTTCCCCAACCCCAAGGCGCAGGTAGAAA GAAAGAAACTCGTAACGTGTGTTGTTCCTGGCAGGTAAAAAAACTTTCTCTTCTCTCTCG ACTGTCACCATGGATTGCGTCTGCATGCATGTATCTTGCTGTGAGCTCAAGTCAAGAGGC GATCGATGTGAGGGGCGGGACGATGCGATGAGGTGCTCGGCATGCCTCCCTGGCATTTGT ACTCACAAGACAGACTGTATGATGACGACTTGTGTTGATGATTTGCCTGTACTGGAACTA TTTTTTTATAATTCTGCGGTTGTTTGTCAACTACAAATCTGGCTAGTATTATTATCCTGT TGCCA
Protein Sequence (284 aa)
>BART1_0-u25435.021 284 150831_barley_pseudomolecules MPSALCFLCLFSYANMTKKIASSQGQIDGNVVKLKFTLPPRQKASSPLKPPPPPPRRDAP QNDKVAIGAEKDAQQRPGGSSPRKKPPSPPRKRSPPNRRAESPRRPPNPSPRRRADSPIR RRPDLSPVRRGDRRPGSPIRRRSPSPRRHRSPMRRGRGSLSPRRRSPGPPRRSPGPPRRR RSPPPRRLRSPPRRPPPPPPRRHSRSPPPRRPLHSRSRSISPRRGRGPPLRRGRSDSSYS ASPSPPRKGPRRVSRSRSPRRPPRGRSGSSDSGSSSSSPTPRRR