- Transcript BART1_0-u25435.015
- Transcript IDBART1_0-u25435.015
- Gene IDBART1_0-u25435
Barley RTD
Exon Structure of BART1_0-u25435.015
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 681727910 | 681727670 | - |
| chr3H | 2 | 681728097 | 681728029 | - |
| chr3H | 3 | 681728628 | 681728591 | - |
| chr3H | 4 | 681728830 | 681728758 | - |
| chr3H | 5 | 681729054 | 681728926 | - |
| chr3H | 6 | 681729385 | 681729308 | - |
| chr3H | 7 | 681729697 | 681729472 | - |
| chr3H | 8 | 681730030 | 681729865 | - |
| chr3H | 9 | 681730185 | 681730105 | - |
| chr3H | 10 | 681730317 | 681730271 | - |
| chr3H | 11 | 681730783 | 681730695 | - |
| chr3H | 12 | 681731206 | 681731096 | - |
| chr3H | 13 | 681732702 | 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 | 0.797899 | 0.610915 | 0.238702 |
| morex | ETI | 13.5467 | 6.50657 | 9.32219 |
| morex | LEA | 0 | 0.760323 | 1.21529 |
| morex | EPI | 2.35272 | 0 | 0 |
| morex | ROO | 0 | 0.0765606 | 0.626121 |
| morex | ROO2 | 8.01834 | 9.52489 | 9.80775 |
| morex | NOD | 0 | 7.80719 | 12.2376 |
| morex | RAC | 17.2293 | 15.6532 | 23.9331 |
| morex | INF1 | 4.74364 | 0.854349 | 1.41131 |
| morex | INF2 | 20.3333 | 24.8492 | 26.4965 |
| morex | CAR5 | 13.1476 | 5.92952 | 18.3119 |
| morex | CAR15 | 14.541 | 10.3637 | 9.93926 |
| morex | LEM | 14.5126 | 11.8911 | 8.09832 |
| morex | LOD | 12.4061 | 13.4622 | 12.0453 |
| morex | PAL | 4.59059 | 6.49103 | 8.12828 |
| morex | SEN | 9.6983 | 8.66621 | 6.61349 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g72890.1 | +1 | 6e-51 | 181 | 99/118 (84%) | protein|transposon protein, putative, CACTA, En/Spm sub-class, expressed |
| TAIR PP10 | AT1G16610 @ ARAPORT AT1G16610.1 @ TAIR |
+1 | 9e-40 | 149 | 82/118 (69%) | Symbols: SR45, RNPS1 | arginine/serine-rich 45 | chr1:5675925-5678686 REVERSE LENGTH=414 |
| BRACH PP3 | Bradi2g61380.4.p | +1 | 4e-52 | 184 | 105/119 (88%) | 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 (1656 bp)
>BART1_0-u25435.015 1656 150831_barley_pseudomolecules GAGAAACCCCACGCCAAAGCAAGTTACCACGCCCCCGTCCTCCTTCACCCCATCCATATC CCCCCCGACCAAAACCCTAGCTCGCGCTCCAGACCCCGCACGCCCGCCGCCGCCGCGGGG AGACGGACGACGATGGCGAAGCCCCGCCGCGGCCGCTCAGGCTCGCGGTCCTCGTCGGGC TCCTCCTCCCGCTCCGCCTCCTCGGGCTCCTCCCGCTCGCGCTCGCGCTCCCGCTCCCGC TCCCTCTCCTCCTCCTCGTCCTCGCCCGCCCGCACCCGGGGCCGCTCCCCTCCCGCCGCC AAGCGCAGTTCACCTGGAGCAAAGAAAGGGCGATCACCTTCACCCCCTCTCAAAAAAGGG TCACCATCAAGGAAAGGCCGCTCAGCATCTCCCCCACCGAAGAAAGCTTCACCTCCTAGG AAAGCATCTCCCCCTCCTCAGTCGGTTGTTCTACACGTTGATCATCTATCCAGAAATGTG AATGAGGCTCATTTGAAGGAGATATTTGGAAGTTATGGCGAAGTGGTGAATGTGGAGCTA TCAATGGACAAATTTGTTAATCTCCCTCGTGGGTATGGATACATCGAGTTCAAGAAGAGG ACTGATGCTGAGAAGGCTCTTCTTTACATGGATGGTGGGCAAATTGATGGAAATGTTGTC AAGCTGAAGTTCACACTGCCACCACGCCAAAAGGCTTCTTCACCTTTAAAGCCACCTCCT CCTCCCCCCAGAAGAGATGCTCCTCAGAATGATAAAGTTGCTATTGGTGCTGAAAAGGAT GCGCAGCAGCGCCCTGGGGGATCAGCATCTCCACGAAAGAAGCCACCTTCTCCTCCGCGA AAGAGGTCTCCTCCAAATAGAAGGGCTGAGTCACCCCGGCGTCCACCCAATCCATCTCCA AGGCGTCGTGCTGATTCTCCTATTCGTCGTCGACCAGATCTTTCCCCTGTTAGGCGTGGT GACAGAAGACCAGGATCTCCAATTAGAAGACGTTCCCCTTCACCTAGAAGGCATAGGTCA CCAATGCGGAGGGGTCGTGGCAGCTTATCACCTCGCAGACGCTCCCCGGGGCCTCCTAGG CGCTCACCTGGGCCTCCCAGACGGCGGTCACCACCACCAAGGAGATTGAGGAGTCCTCCA AGAAGGCCACCACCACCACCTCCCCGTCGTCACAGTCGCTCCCCTCCTCCTCGCCGCCCT CTTCACTCCCGCTCTAGATCGATTTCTCCTCGCAGGGGGCGAGGACCACCATTGAGGCGT GGAAGGTCGGATTCATCATATTCTGCATCACCCAGTCCTCCAAGAAAGGGACCAAGAAGG GTGTCAAGGAGCCGCAGCCCTAGAAGGCCTCCCAGAGGAAGGAGCGGATCTAGCGACAGC GGGAGCAGCAGCTCTTCCCCAACCCCAAGGCGCAGTCAAGAGGCGATCGATGTGAGGGGC GGGACGATGCGATGAGGTGCTCGGCATGCCTCCCTGGCATTTGTACTCACAAGACAGACT GTATGATGACGACTTGTGTTGATGATTTGCCTGTACTGGAACTATTTTTTTATAATTCTG CGGTTGTTTGTCAACTACAAATCTGGCTAGTATTATTATCCTGTTGCCACTCTTGAGAAT TAATGAGTTGTTTACTAGTTGATTGATGGATTGGCT
Protein Sequence (440 aa)
>BART1_0-u25435.015 440 150831_barley_pseudomolecules MAKPRRGRSGSRSSSGSSSRSASSGSSRSRSRSRSRSLSSSSSSPARTRGRSPPAAKRSS PGAKKGRSPSPPLKKGSPSRKGRSASPPPKKASPPRKASPPPQSVVLHVDHLSRNVNEAH LKEIFGSYGEVVNVELSMDKFVNLPRGYGYIEFKKRTDAEKALLYMDGGQIDGNVVKLKF TLPPRQKASSPLKPPPPPPRRDAPQNDKVAIGAEKDAQQRPGGSASPRKKPPSPPRKRSP PNRRAESPRRPPNPSPRRRADSPIRRRPDLSPVRRGDRRPGSPIRRRSPSPRRHRSPMRR GRGSLSPRRRSPGPPRRSPGPPRRRSPPPRRLRSPPRRPPPPPPRRHSRSPPPRRPLHSR SRSISPRRGRGPPLRRGRSDSSYSASPSPPRKGPRRVSRSRSPRRPPRGRSGSSDSGSSS SSPTPRRSQEAIDVRGGTMR