- Transcript BART1_0-u25435.007
- Transcript IDBART1_0-u25435.007
- Gene IDBART1_0-u25435
Barley RTD
Exon Structure of BART1_0-u25435.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 681728097 | 681727579 | - |
| chr3H | 2 | 681728666 | 681728591 | - |
| chr3H | 3 | 681728830 | 681728758 | - |
| chr3H | 4 | 681729054 | 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 | 681732669 | 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 | 4.09284 | 12.7261 | 0.0371371 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 9.22436 | 7.84512 | 0.00048131 |
| morex | EPI | 0.613952 | 1.01415 | 0 |
| morex | ROO | 0 | 2.15769 | 3.66786 |
| morex | ROO2 | 0.000000401346 | 0.705194 | 0.597312 |
| morex | NOD | 5.37644 | 0 | 0.00000000702424 |
| morex | RAC | 0 | 0.434908 | 0 |
| morex | INF1 | 26.8444 | 39.4109 | 36.3852 |
| morex | INF2 | 20.1686 | 9.95419 | 35.2276 |
| morex | CAR5 | 2.02529 | 5.09167 | 8.81174 |
| morex | CAR15 | 0.00101844 | 0.000000219614 | 6.64483 |
| morex | LEM | 0 | 0.98623 | 0 |
| morex | LOD | 0.526696 | 0.0608276 | 0.263373 |
| morex | PAL | 0.829687 | 0 | 0 |
| morex | SEN | 0 | 0.649897 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g72890.1 | +1 | 3e-50 | 181 | 99/118 (84%) | protein|transposon protein, putative, CACTA, En/Spm sub-class, expressed |
| TAIR PP10 | AT1G16610 @ ARAPORT AT1G16610.1 @ TAIR |
+1 | 2e-39 | 149 | 82/118 (69%) | Symbols: SR45, RNPS1 | arginine/serine-rich 45 | chr1:5675925-5678686 REVERSE LENGTH=414 |
| BRACH PP3 | Bradi2g61380.4.p | +1 | 2e-51 | 183 | 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 (1870 bp)
>BART1_0-u25435.007 1870 150831_barley_pseudomolecules CCCGTCCTCCTTCACCCCATCCATATCCCCCCCGACCAAAACCCTAGCTCGCGCTCCAGA CCCCGCACGCCCGCCGCCGCCGCGGGGAGACGGACGACGATGGCGAAGCCCCGCCGCGGC CGCTCAGGCTCGCGGTCCTCGTCGGGCTCCTCCTCCCGCTCCGCCTCCTCGGGCTCCTCC CGCTCGCGCTCGCGCTCCCGCTCCCGCTCCCTCTCCTCCTCCTCGTCCTCGCCCGCCCGC ACCCGGGGCCGCTCCCCTCCCGCCGCCAAGCGCAGTTCACCTGGAGCAAAGAAAGGGCGA TCACCTTCACCCCCTCTCAAAAAAGGGTCACCATCAAGGAAAGGCCGCTCAGCATCTCCC CCACCGAAGAAAGCTTCACCTCCTAGGAAAGCATCTCCCCCTCCTCAGTCGGTTGTTCTA CACGTTGATCATCTATCCAGAAATGTGAATGAGGCTCATTTGAAGGAGATATTTGGAAGT TATGGCGAAGTGGTGAATGTGGAGCTATCAATGGACAAATTTGTTAATCTCCCTCGTGGG TATGGATACATCGAGTTCAAGAAGAGGACTGATGCTGAGAAGGCTCTTCTTTACATGGAT GGTGGGCAAATTGATGGAAATGTTGTCAAGCTGAAGTTCACACTGCCACCACGCCAAAAG GCTTCTTCACCTTTAAAGCCACCTCCTCCTCCCCCCAGAAGAGATGCTCCTCAGAATGAT AAAGTTGCTATTGGTGCTGAAAAGGATGCGCAGCAGCGCCCTGGGGGATCAGCATCTCCA CGAAAGAAGCCACCTTCTCCTCCGCGAAAGAGGTCTCCTCCAAATAGAAGGGCTGAGTCA CCCCGGCGTCCACCCAATCCATCTCCAAGGCGTCGTGCTGATTCTCCTATTCGTCGTCGA CCAGATCTTTCCCCTGTTAGGCGTGGTGACAGAAGACCAGGATCTCCAATTAGAAGACGT TCCCCTTCACCTAGAAGGCATAGGTCACCAATGCGGAGGGGTCGTGGCAGCTTATCACCT CGCAGACGCTCCCCGGGGCCTCCTAGGCGCTCACCTGGGCCTCCCAGACGGCGGTCACCA CCACCAAGGAGATTGAGGAGTCCTCCAAGAAGGCCACCACCACCACCTCCCCGTCGTCAC AGTCGCTCCCCTCCTCCTCGCCGCCCTCTTCACTCCCGCTCTAGATCGATTTCTCCTCGC AGGGGGCGAGGACCACCATTGAGGCGTGGAAGGTCGGATTCATCATATTCTGCATCACCC AGTCCTCCAAGAAAGTACTAATAAGGGGTTAAATTCTGAAAACTTTCTTTCAGGGACCAA GAAGGGTGTCAAGGAGCCGCAGCCCTAGAAGGCCTCCCAGAGGAAGGAGCGGATCTAGCG ACAGCGGGAGCAGCAGCTCTTCCCCAACCCCAAGGCGCAGGTAGAAAGAAAGAAACTCGT AACGTGTGTTGTTCCTGGCAGGTAAAAAAACTTTCTCTTCTCTCTCGACTGTCACCATGG ATTGCGTCTGCATGCATGTATCTTGCTGTGAGCTCAAGTCAAGAGGCGATCGATGTGAGG GGCGGGACGATGCGATGAGGTGCTCGGCATGCCTCCCTGGCATTTGTACTCACAAGACAG ACTGTATGATGACGACTTGTGTTGATGATTTGCCTGTACTGGAACTATTTTTTTATAATT CTGCGGTTGTTTGTCAACTACAAATCTGGCTAGTATTATTATCCTGTTGCCACTCTTGAG AATTAATGAGTTGTTTACTAGTTGATTGATGGATTGGCTCGTGGAGTTGATTTTTCTTTA ACTGTAGGTTTTGATTGTTTTGCATTTTGAACGTGCTTGGATGAATGTGCGTGAACCTGT TGCTCTGGCA
Protein Sequence (393 aa)
>BART1_0-u25435.007 393 150831_barley_pseudomolecules MAKPRRGRSGSRSSSGSSSRSASSGSSRSRSRSRSRSLSSSSSSPARTRGRSPPAAKRSS PGAKKGRSPSPPLKKGSPSRKGRSASPPPKKASPPRKASPPPQSVVLHVDHLSRNVNEAH LKEIFGSYGEVVNVELSMDKFVNLPRGYGYIEFKKRTDAEKALLYMDGGQIDGNVVKLKF TLPPRQKASSPLKPPPPPPRRDAPQNDKVAIGAEKDAQQRPGGSASPRKKPPSPPRKRSP PNRRAESPRRPPNPSPRRRADSPIRRRPDLSPVRRGDRRPGSPIRRRSPSPRRHRSPMRR GRGSLSPRRRSPGPPRRSPGPPRRRSPPPRRLRSPPRRPPPPPPRRHSRSPPPRRPLHSR SRSISPRRGRGPPLRRGRSDSSYSASPSPPRKY