- Transcript BART1_0-u25435.009
- Transcript IDBART1_0-u25435.009
- Gene IDBART1_0-u25435
Barley RTD
Exon Structure of BART1_0-u25435.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 681728097 | 681727610 | - |
| chr3H | 2 | 681728666 | 681728591 | - |
| chr3H | 3 | 681728833 | 681728758 | - |
| chr3H | 4 | 681729054 | 681728926 | - |
| chr3H | 5 | 681729385 | 681729308 | - |
| chr3H | 6 | 681729694 | 681729472 | - |
| chr3H | 7 | 681730030 | 681729865 | - |
| chr3H | 8 | 681730185 | 681730105 | - |
| chr3H | 9 | 681730317 | 681730271 | - |
| chr3H | 10 | 681730783 | 681730695 | - |
| chr3H | 11 | 681731206 | 681731096 | - |
| chr3H | 12 | 681732812 | 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 | 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 | +3 | 1e-49 | 180 | 98/117 (84%) | protein|transposon protein, putative, CACTA, En/Spm sub-class, expressed |
| TAIR PP10 | AT1G16610 @ ARAPORT AT1G16610.1 @ TAIR |
+3 | 3e-39 | 149 | 81/115 (70%) | Symbols: SR45, RNPS1 | arginine/serine-rich 45 | chr1:5675925-5678686 REVERSE LENGTH=414 |
| BRACH PP3 | Bradi2g61380.4.p | +3 | 2e-50 | 181 | 103/116 (89%) | 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 (1982 bp)
>BART1_0-u25435.009 1982 150831_barley_pseudomolecules CTAAAATTCTGCCTCCCTCGTCACTTCAAAAAAAATAAAAAAAATTCTGCCTCCCTTGTT GCACACGAGAGAAGACTGGACCGACACGTGTCCCTGCGGGTGGGCCCGCAGAGAAACCCC ACGCCAAAGCAAGTTACCACGCCCCCGTCCTCCTTCACCCCATCCATATCCCCCCCGACC AAAACCCTAGCTCGCGCTCCAGACCCCGCACGCCCGCCGCCGCCGCGGGGAGACGGACGA CGATGGCGAAGCCCCGCCGCGGCCGCTCAGGCTCGCGGTCCTCGTCGGGCTCCTCCTCCC GCTCCGCCTCCTCGGGCTCCTCCCGCTCGCGCTCGCGCTCCCGCTCCCGCTCCCTCTCCT CCTCCTCGTCCTCGCCCGCCCGCACCCGGGGCCGCTCCCCTCCCGCCGCCAAGCGCAGTT CACCTGGAGCAAAGAAAGGGCGATCACCTTCACCCCCTCTCAAAAAAGGGTCACCATCAA GGAAAGGCCGCTCAGCATCTCCCCCACCGAAGAAAGCTTCACCTCCTAGGAAAGCATCTC CCCCTCCTCAGTCGGTTGTTCTACACGTTGATCATCTATCCAGAAATGTGAATGAGGCTC ATTTGAAGGAGATATTTGGAAGTTATGGCGAAGTGGTGAATGTGGAGCTATCAATGGACA AATTTGTTAATCTCCCTCGTGGGTATGGATACATCGAGTTCAAGAAGAGGACTGATGCTG AGAAGGCTCTTCTTTACATGGATGGTGGGCAAATTGATGGAAATGTTGTCAAGCTGAAGT TCACACTGCCACCACGCCAAAAGGCTTCTTCACCTTTAAAGCCACCTCCTCCTCCCCCCA GAAGAGATGCTCCTCAGAATGATAAAGTTGCTATTGGTGCTGAAAAGGATGCGCAGCAGC GCCCTGGGGGATCATCTCCACGAAAGAAGCCACCTTCTCCTCCGCGAAAGAGGTCTCCTC CAAATAGAAGGGCTGAGTCACCCCGGCGTCCACCCAATCCATCTCCAAGGCGTCGTGCTG ATTCTCCTATTCGTCGTCGACCAGATCTTTCCCCTGTTAGGCGTGGTGACAGAAGACCAG GATCTCCAATTAGAAGACGTTCCCCTTCACCTAGAAGGCATAGGTCACCAATGCGGAGGG GTCGTGGCAGCTTATCACCTCGCAGACGCTCCCCGGGGCCTCCTAGGCGCTCACCTGGGC CTCCCAGACGGCGGTCACCACCACCAAGGAGATTGAGGAGTCCTCCAAGAAGGCCACCAC CACCACCTCCCCGTCGTCACAGTCGCTCCCCTCCTCCTCGCCGCCCTCTTCACTCCCGCT CTAGATCGATTTCTCCTCGCAGCAGGGGGCGAGGACCACCATTGAGGCGTGGAAGGTCGG ATTCATCATATTCTGCATCACCCAGTCCTCCAAGAAAGTACTAATAAGGGGTTAAATTCT GAAAACTTTCTTTCAGGGACCAAGAAGGGTGTCAAGGAGCCGCAGCCCTAGAAGGCCTCC CAGAGGAAGGAGCGGATCTAGCGACAGCGGGAGCAGCAGCTCTTCCCCAACCCCAAGGCG CAGGTAGAAAGAAAGAAACTCGTAACGTGTGTTGTTCCTGGCAGGTAAAAAAACTTTCTC TTCTCTCTCGACTGTCACCATGGATTGCGTCTGCATGCATGTATCTTGCTGTGAGCTCAA GTCAAGAGGCGATCGATGTGAGGGGCGGGACGATGCGATGAGGTGCTCGGCATGCCTCCC TGGCATTTGTACTCACAAGACAGACTGTATGATGACGACTTGTGTTGATGATTTGCCTGT ACTGGAACTATTTTTTTATAATTCTGCGGTTGTTTGTCAACTACAAATCTGGCTAGTATT ATTATCCTGTTGCCACTCTTGAGAATTAATGAGTTGTTTACTAGTTGATTGATGGATTGG CTCGTGGAGTTGATTTTTCTTTAACTGTAGGTTTTGATTGTTTTGCATTTTGAACGTGCT TG
Protein Sequence (393 aa)
>BART1_0-u25435.009 393 150831_barley_pseudomolecules MAKPRRGRSGSRSSSGSSSRSASSGSSRSRSRSRSRSLSSSSSSPARTRGRSPPAAKRSS PGAKKGRSPSPPLKKGSPSRKGRSASPPPKKASPPRKASPPPQSVVLHVDHLSRNVNEAH LKEIFGSYGEVVNVELSMDKFVNLPRGYGYIEFKKRTDAEKALLYMDGGQIDGNVVKLKF TLPPRQKASSPLKPPPPPPRRDAPQNDKVAIGAEKDAQQRPGGSSPRKKPPSPPRKRSPP NRRAESPRRPPNPSPRRRADSPIRRRPDLSPVRRGDRRPGSPIRRRSPSPRRHRSPMRRG RGSLSPRRRSPGPPRRSPGPPRRRSPPPRRLRSPPRRPPPPPPRRHSRSPPPRRPLHSRS RSISPRSRGRGPPLRRGRSDSSYSASPSPPRKY