- Transcript BART1_0-u25435.019
- Transcript IDBART1_0-u25435.019
- Gene IDBART1_0-u25435
Barley RTD
Exon Structure of BART1_0-u25435.019
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 681728097 | 681727716 | - |
| chr3H | 2 | 681728628 | 681728591 | - |
| chr3H | 3 | 681728833 | 681728758 | - |
| chr3H | 4 | 681729057 | 681728926 | - |
| chr3H | 5 | 681729385 | 681729308 | - |
| chr3H | 6 | 681729697 | 681729472 | - |
| chr3H | 7 | 681730030 | 681729865 | - |
| chr3H | 8 | 681730185 | 681730105 | - |
| chr3H | 9 | 681730321 | 681730271 | - |
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 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g72890.2 | +1 | 4e-35 | 135 | 78/95 (82%) | protein|transposon protein, putative, CACTA, En/Spm sub-class, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g61380.4.p | +1 | 5e-36 | 137 | 83/96 (86%) | pacid=32777636 transcript=Bradi2g61380.4 locus=Bradi2g61380 ID=Bradi2g61380.4.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
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grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (1230 bp)
>BART1_0-u25435.019 1230 150831_barley_pseudomolecules GCAGGAAGTTATGGCGAAGTGGTGAATGTGGAGCTATCAATGGACAAATTTGTTAATCTC CCTCGTGGGTATGGATACATCGAGTTCAAGAAGAGGACTGATGCTGAGAAGGCTCTTCTT TACATGGATGGTGGGCAAATTGATGGAAATGTTGTCAAGCTGAAGTTCACACTGCCACCA CGCCAAAAGGCTTCTTCACCTTTAAAGCCACCTCCTCCTCCCCCCAGAAGAGATGCTCCT CAGAATGATAAAGTTGCTATTGGTGCTGAAAAGGATGCGCAGCAGCGCCCTGGGGGATCA GCATCTCCACGAAAGAAGCCACCTTCTCCTCCGCGAAAGAGGTCTCCTCCAAATAGAAGG GCTGAGTCACCCCGGCGTCCACCCAATCCATCTCCAAGGCGTCGTGCTGATTCTCCTATT CGTCGTCGACCAGATCTTTCCCCTGTTAGGCGTGGTGACAGAAGACCAGGATCTCCAATT AGAAGACGTTCCCCTTCACCTAGAAGGCATAGGTCACCAATGCGGAGGGGTCGTGGCAGC TTATCACCTCGCAGACGCTCCCCGGGGCCTCCTAGGCGCTCACCTGGGCCTCCCAGACGG CGCAGGTCACCACCACCAAGGAGATTGAGGAGTCCTCCAAGAAGGCCACCACCACCACCT CCCCGTCGTCACAGTCGCTCCCCTCCTCCTCGCCGCCCTCTTCACTCCCGCTCTAGATCG ATTTCTCCTCGCAGCAGGGGGCGAGGACCACCATTGAGGCGTGGAAGGTCGGATTCATCA TATTCTGCATCACCCAGTCCTCCAAGAAAGGGACCAAGAAGGGTGTCAAGGAGCCGCAGC CCTAGAAGGCCTCCCAGAGGAAGGAGCGGATCTAGCGACAGCGGGAGCAGCAGCTCTTCC CCAACCCCAAGGCGCAGGTAGAAAGAAAGAAACTCGTAACGTGTGTTGTTCCTGGCAGGT AAAAAAACTTTCTCTTCTCTCTCGACTGTCACCATGGATTGCGTCTGCATGCATGTATCT TGCTGTGAGCTCAAGTCAAGAGGCGATCGATGTGAGGGGCGGGACGATGCGATGAGGTGC TCGGCATGCCTCCCTGGCATTTGTACTCACAAGACAGACTGTATGATGACGACTTGTGTT GATGATTTGCCTGTACTGGAACTATTTTTTTATAATTCTGCGGTTGTTTGTCAACTACAA ATCTGGCTAGTATTATTATCCTGTTGCCAC
Protein Sequence (306 aa)
>BART1_0-u25435.019 306 150831_barley_pseudomolecules AGSYGEVVNVELSMDKFVNLPRGYGYIEFKKRTDAEKALLYMDGGQIDGNVVKLKFTLPP RQKASSPLKPPPPPPRRDAPQNDKVAIGAEKDAQQRPGGSASPRKKPPSPPRKRSPPNRR AESPRRPPNPSPRRRADSPIRRRPDLSPVRRGDRRPGSPIRRRSPSPRRHRSPMRRGRGS LSPRRRSPGPPRRSPGPPRRRRSPPPRRLRSPPRRPPPPPPRRHSRSPPPRRPLHSRSRS ISPRSRGRGPPLRRGRSDSSYSASPSPPRKGPRRVSRSRSPRRPPRGRSGSSDSGSSSSS PTPRRR