- Transcript BART1_0-u25435.010
- Transcript IDBART1_0-u25435.010
- Gene IDBART1_0-u25435
Barley RTD
Exon Structure of BART1_0-u25435.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 681728097 | 681727642 | - |
| chr3H | 2 | 681728628 | 681728591 | - |
| chr3H | 3 | 681728830 | 681728758 | - |
| chr3H | 4 | 681729057 | 681728926 | - |
| chr3H | 5 | 681729385 | 681729308 | - |
| chr3H | 6 | 681729697 | 681729472 | - |
| chr3H | 7 | 681730030 | 681729865 | - |
| chr3H | 8 | 681730185 | 681730105 | - |
| chr3H | 9 | 681730317 | 681730271 | - |
| chr3H | 10 | 681730783 | 681730695 | - |
| chr3H | 11 | 681731206 | 681731096 | - |
| chr3H | 12 | 681732595 | 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 | 1.33148 |
| morex | ETI | 0.395666 | 0.128035 | 0.000134979 |
| morex | LEA | 0.00000508634 | 0.595695 | 0 |
| morex | EPI | 1.62436 | 10.3137 | 0.452941 |
| morex | ROO | 4.88466 | 2.15494 | 0.843652 |
| morex | ROO2 | 6.73396 | 3.55722 | 2.76922 |
| morex | NOD | 0.000000000405821 | 0.000420058 | 0 |
| morex | RAC | 0.0000348893 | 1.74146 | 0.000679241 |
| morex | INF1 | 1.19973 | 0 | 0.000001611 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 1.24488 | 0 |
| morex | LEM | 0.0141078 | 0.0190489 | 5.0584 |
| morex | LOD | 11.9194 | 0.0594279 | 3.68251 |
| morex | PAL | 2.76307 | 0.0000000912402 | 0.000000188178 |
| morex | SEN | 0 | 0.777107 | 3.61239 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g72890.2 | +2 | 5e-52 | 184 | 99/118 (84%) | protein|transposon protein, putative, CACTA, En/Spm sub-class, expressed |
| TAIR PP10 | AT1G16610 @ ARAPORT AT1G16610.1 @ TAIR |
+2 | 1e-40 | 152 | 82/118 (69%) | Symbols: SR45, RNPS1 | arginine/serine-rich 45 | chr1:5675925-5678686 REVERSE LENGTH=414 |
| BRACH PP3 | Bradi2g61380.4.p | +2 | 8e-53 | 186 | 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 (1698 bp)
>BART1_0-u25435.010 1698 150831_barley_pseudomolecules CGCCGCCGCGGGGAGACGGACGACGATGGCGAAGCCCCGCCGCGGCCGCTCAGGCTCGCG GTCCTCGTCGGGCTCCTCCTCCCGCTCCGCCTCCTCGGGCTCCTCCCGCTCGCGCTCGCG CTCCCGCTCCCGCTCCCTCTCCTCCTCCTCGTCCTCGCCCGCCCGCACCCGGGGCCGCTC CCCTCCCGCCGCCAAGCGCAGTTCACCTGGAGCAAAGAAAGGGCGATCACCTTCACCCCC TCTCAAAAAAGGGTCACCATCAAGGAAAGGCCGCTCAGCATCTCCCCCACCGAAGAAAGC TTCACCTCCTAGGAAAGCATCTCCCCCTCCTCAGTCGGTTGTTCTACACGTTGATCATCT ATCCAGAAATGTGAATGAGGCTCATTTGAAGGAGATATTTGGAAGTTATGGCGAAGTGGT GAATGTGGAGCTATCAATGGACAAATTTGTTAATCTCCCTCGTGGGTATGGATACATCGA GTTCAAGAAGAGGACTGATGCTGAGAAGGCTCTTCTTTACATGGATGGTGGGCAAATTGA TGGAAATGTTGTCAAGCTGAAGTTCACACTGCCACCACGCCAAAAGGCTTCTTCACCTTT AAAGCCACCTCCTCCTCCCCCCAGAAGAGATGCTCCTCAGAATGATAAAGTTGCTATTGG TGCTGAAAAGGATGCGCAGCAGCGCCCTGGGGGATCAGCATCTCCACGAAAGAAGCCACC TTCTCCTCCGCGAAAGAGGTCTCCTCCAAATAGAAGGGCTGAGTCACCCCGGCGTCCACC CAATCCATCTCCAAGGCGTCGTGCTGATTCTCCTATTCGTCGTCGACCAGATCTTTCCCC TGTTAGGCGTGGTGACAGAAGACCAGGATCTCCAATTAGAAGACGTTCCCCTTCACCTAG AAGGCATAGGTCACCAATGCGGAGGGGTCGTGGCAGCTTATCACCTCGCAGACGCTCCCC GGGGCCTCCTAGGCGCTCACCTGGGCCTCCCAGACGGCGCAGGTCACCACCACCAAGGAG ATTGAGGAGTCCTCCAAGAAGGCCACCACCACCACCTCCCCGTCGTCACAGTCGCTCCCC TCCTCCTCGCCGCCCTCTTCACTCCCGCTCTAGATCGATTTCTCCTCGCAGGGGGCGAGG ACCACCATTGAGGCGTGGAAGGTCGGATTCATCATATTCTGCATCACCCAGTCCTCCAAG AAAGGGACCAAGAAGGGTGTCAAGGAGCCGCAGCCCTAGAAGGCCTCCCAGAGGAAGGAG CGGATCTAGCGACAGCGGGAGCAGCAGCTCTTCCCCAACCCCAAGGCGCAGGTAGAAAGA AAGAAACTCGTAACGTGTGTTGTTCCTGGCAGGTAAAAAAACTTTCTCTTCTCTCTCGAC TGTCACCATGGATTGCGTCTGCATGCATGTATCTTGCTGTGAGCTCAAGTCAAGAGGCGA TCGATGTGAGGGGCGGGACGATGCGATGAGGTGCTCGGCATGCCTCCCTGGCATTTGTAC TCACAAGACAGACTGTATGATGACGACTTGTGTTGATGATTTGCCTGTACTGGAACTATT TTTTTATAATTCTGCGGTTGTTTGTCAACTACAAATCTGGCTAGTATTATTATCCTGTTG CCACTCTTGAGAATTAATGAGTTGTTTACTAGTTGATTGATGGATTGGCTCGTGGAGTTG ATTTTTCTTTAACTGTAG
Protein Sequence (429 aa)
>BART1_0-u25435.010 429 150831_barley_pseudomolecules MAKPRRGRSGSRSSSGSSSRSASSGSSRSRSRSRSRSLSSSSSSPARTRGRSPPAAKRSS PGAKKGRSPSPPLKKGSPSRKGRSASPPPKKASPPRKASPPPQSVVLHVDHLSRNVNEAH LKEIFGSYGEVVNVELSMDKFVNLPRGYGYIEFKKRTDAEKALLYMDGGQIDGNVVKLKF TLPPRQKASSPLKPPPPPPRRDAPQNDKVAIGAEKDAQQRPGGSASPRKKPPSPPRKRSP PNRRAESPRRPPNPSPRRRADSPIRRRPDLSPVRRGDRRPGSPIRRRSPSPRRHRSPMRR GRGSLSPRRRSPGPPRRSPGPPRRRRSPPPRRLRSPPRRPPPPPPRRHSRSPPPRRPLHS RSRSISPRRGRGPPLRRGRSDSSYSASPSPPRKGPRRVSRSRSPRRPPRGRSGSSDSGSS SSSPTPRRR