- Transcript BART1_0-u25435.006
- Transcript IDBART1_0-u25435.006
- Gene IDBART1_0-u25435
Barley RTD
Exon Structure of BART1_0-u25435.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 681728097 | 681727573 | - |
| chr3H | 2 | 681728628 | 681728591 | - |
| chr3H | 3 | 681728833 | 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 | 681732671 | 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 | 23.4093 | 12.9645 | 27.7826 |
| morex | ETI | 11.4792 | 19.5518 | 19.4938 |
| morex | LEA | 8.79191 | 4.29113 | 7.20081 |
| morex | EPI | 5.86638 | 16.3983 | 15.6755 |
| morex | ROO | 21.6966 | 8.9949 | 4.59849 |
| morex | ROO2 | 36.1878 | 33.9948 | 32.8981 |
| morex | NOD | 6.36997 | 25.3898 | 42.7442 |
| morex | RAC | 35.3209 | 31.0828 | 31.206 |
| morex | INF1 | 41.7008 | 48.3027 | 54.1845 |
| morex | INF2 | 73.5929 | 71.0019 | 54.8162 |
| morex | CAR5 | 35.7867 | 31.1818 | 37.5025 |
| morex | CAR15 | 13.3223 | 15.7806 | 13.3485 |
| morex | LEM | 26.0163 | 22.5198 | 18.7162 |
| morex | LOD | 24.5872 | 34.9789 | 19.9963 |
| morex | PAL | 21.0083 | 18.7488 | 18.3312 |
| morex | SEN | 19.3063 | 14.0124 | 12.0334 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g72890.1 | +3 | 3e-50 | 181 | 99/118 (84%) | protein|transposon protein, putative, CACTA, En/Spm sub-class, expressed |
| TAIR PP10 | AT1G16610 @ ARAPORT AT1G16610.1 @ TAIR |
+3 | 2e-39 | 149 | 82/118 (69%) | Symbols: SR45, RNPS1 | arginine/serine-rich 45 | chr1:5675925-5678686 REVERSE LENGTH=414 |
| BRACH PP3 | Bradi2g61380.4.p | +3 | 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 (1843 bp)
>BART1_0-u25435.006 1843 150831_barley_pseudomolecules CCCCCGTCCTCCTTCACCCCATCCATATCCCCCCCGACCAAAACCCTAGCTCGCGCTCCA GACCCCGCACGCCCGCCGCCGCCGCGGGGAGACGGACGACGATGGCGAAGCCCCGCCGCG GCCGCTCAGGCTCGCGGTCCTCGTCGGGCTCCTCCTCCCGCTCCGCCTCCTCGGGCTCCT CCCGCTCGCGCTCGCGCTCCCGCTCCCGCTCCCTCTCCTCCTCCTCGTCCTCGCCCGCCC GCACCCGGGGCCGCTCCCCTCCCGCCGCCAAGCGCAGTTCACCTGGAGCAAAGAAAGGGC GATCACCTTCACCCCCTCTCAAAAAAGGGTCACCATCAAGGAAAGGCCGCTCAGCATCTC CCCCACCGAAGAAAGCTTCACCTCCTAGGAAAGCATCTCCCCCTCCTCAGTCGGTTGTTC TACACGTTGATCATCTATCCAGAAATGTGAATGAGGCTCATTTGAAGGAGATATTTGGAA GTTATGGCGAAGTGGTGAATGTGGAGCTATCAATGGACAAATTTGTTAATCTCCCTCGTG GGTATGGATACATCGAGTTCAAGAAGAGGACTGATGCTGAGAAGGCTCTTCTTTACATGG ATGGTGGGCAAATTGATGGAAATGTTGTCAAGCTGAAGTTCACACTGCCACCACGCCAAA AGGCTTCTTCACCTTTAAAGCCACCTCCTCCTCCCCCCAGAAGAGATGCTCCTCAGAATG ATAAAGTTGCTATTGGTGCTGAAAAGGATGCGCAGCAGCGCCCTGGGGGATCAGCATCTC CACGAAAGAAGCCACCTTCTCCTCCGCGAAAGAGGTCTCCTCCAAATAGAAGGGCTGAGT CACCCCGGCGTCCACCCAATCCATCTCCAAGGCGTCGTGCTGATTCTCCTATTCGTCGTC GACCAGATCTTTCCCCTGTTAGGCGTGGTGACAGAAGACCAGGATCTCCAATTAGAAGAC GTTCCCCTTCACCTAGAAGGCATAGGTCACCAATGCGGAGGGGTCGTGGCAGCTTATCAC CTCGCAGACGCTCCCCGGGGCCTCCTAGGCGCTCACCTGGGCCTCCCAGACGGCGGTCAC CACCACCAAGGAGATTGAGGAGTCCTCCAAGAAGGCCACCACCACCACCTCCCCGTCGTC ACAGTCGCTCCCCTCCTCCTCGCCGCCCTCTTCACTCCCGCTCTAGATCGATTTCTCCTC GCAGCAGGGGGCGAGGACCACCATTGAGGCGTGGAAGGTCGGATTCATCATATTCTGCAT CACCCAGTCCTCCAAGAAAGGGACCAAGAAGGGTGTCAAGGAGCCGCAGCCCTAGAAGGC CTCCCAGAGGAAGGAGCGGATCTAGCGACAGCGGGAGCAGCAGCTCTTCCCCAACCCCAA GGCGCAGGTAGAAAGAAAGAAACTCGTAACGTGTGTTGTTCCTGGCAGGTAAAAAAACTT TCTCTTCTCTCTCGACTGTCACCATGGATTGCGTCTGCATGCATGTATCTTGCTGTGAGC TCAAGTCAAGAGGCGATCGATGTGAGGGGCGGGACGATGCGATGAGGTGCTCGGCATGCC TCCCTGGCATTTGTACTCACAAGACAGACTGTATGATGACGACTTGTGTTGATGATTTGC CTGTACTGGAACTATTTTTTTATAATTCTGCGGTTGTTTGTCAACTACAAATCTGGCTAG TATTATTATCCTGTTGCCACTCTTGAGAATTAATGAGTTGTTTACTAGTTGATTGATGGA TTGGCTCGTGGAGTTGATTTTTCTTTAACTGTAGGTTTTGATTGTTTTGCATTTTGAACG TGCTTGGATGAATGTGCGTGAACCTGTTGCTCTGGCATGTCCG
Protein Sequence (429 aa)
>BART1_0-u25435.006 429 150831_barley_pseudomolecules MAKPRRGRSGSRSSSGSSSRSASSGSSRSRSRSRSRSLSSSSSSPARTRGRSPPAAKRSS PGAKKGRSPSPPLKKGSPSRKGRSASPPPKKASPPRKASPPPQSVVLHVDHLSRNVNEAH LKEIFGSYGEVVNVELSMDKFVNLPRGYGYIEFKKRTDAEKALLYMDGGQIDGNVVKLKF TLPPRQKASSPLKPPPPPPRRDAPQNDKVAIGAEKDAQQRPGGSASPRKKPPSPPRKRSP PNRRAESPRRPPNPSPRRRADSPIRRRPDLSPVRRGDRRPGSPIRRRSPSPRRHRSPMRR GRGSLSPRRRSPGPPRRSPGPPRRRSPPPRRLRSPPRRPPPPPPRRHSRSPPPRRPLHSR SRSISPRSRGRGPPLRRGRSDSSYSASPSPPRKGPRRVSRSRSPRRPPRGRSGSSDSGSS SSSPTPRRR