- Transcript BART1_0-u02930.001
- Transcript IDBART1_0-u02930.001
- Gene IDBART1_0-u02930
Barley RTD
Exon Structure of BART1_0-u02930.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 320542554 | 320541066 | + |
| chr1H | 2 | 320542741 | 320542688 | + |
| chr1H | 3 | 320543336 | 320543220 | + |
| chr1H | 4 | 320544649 | 320544030 | + |
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 | 9.18235 | 7.37544 | 7.99583 |
| morex | ETI | 7.45838 | 8.75866 | 7.31916 |
| morex | LEA | 4.38338 | 3.65993 | 6.232 |
| morex | EPI | 5.29031 | 5.76362 | 4.32988 |
| morex | ROO | 7.67259 | 7.62189 | 4.83151 |
| morex | ROO2 | 12.5685 | 12.6282 | 13.05 |
| morex | NOD | 15.6518 | 12.3766 | 16.6344 |
| morex | RAC | 6.97018 | 7.41179 | 7.06185 |
| morex | INF1 | 7.86474 | 5.41104 | 6.70388 |
| morex | INF2 | 3.49176 | 4.25268 | 4.73989 |
| morex | CAR5 | 8.67419 | 2.3154 | 7.82672 |
| morex | CAR15 | 2.96569 | 4.01198 | 3.22684 |
| morex | LEM | 8.85839 | 9.18096 | 7.50744 |
| morex | LOD | 9.66849 | 11.1098 | 10.875 |
| morex | PAL | 8.78819 | 9.45126 | 8.27689 |
| morex | SEN | 8.94342 | 7.49755 | 11.9049 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g06770.1 | -3 | 6e-76 | 243 | 134/153 (88%) | protein|40S ribosomal protein S27a, putative, expressed |
| TAIR PP10 | AT2G47110 @ ARAPORT AT2G47110.2 @ TAIR |
-3 | 2e-72 | 233 | 131/158 (83%) | Symbols: UBQ6 | ubiquitin 6 | chr2:19344701-19345174 FORWARD LENGTH=157 |
| BRACH PP3 | Bradi3g29730.1.p | -3 | 2e-82 | 260 | 139/159 (87%) | pacid=32819956 transcript=Bradi3g29730.1 locus=Bradi3g29730 ID=Bradi3g29730.1.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 (2280 bp)
>BART1_0-u02930.001 2280 150831_barley_pseudomolecules CCTAGCTCTTGAGCCCCAAATCTTGTTGTATTCATCGAAGATTGAGAAATCTTGATGTAT GAGATCCTCTAGGACTATCTGAAGAAGAAATTTGTTGTATCCCACATTTGATAATAATGG AAGAGAATTTGGGTGGCCTTCACACGTGGTTTTTCCCTTAAATTGAATGTTTTTTCACAT AAAAATCTGGTGTCTCTTATTGATGTTTGTTGCTATTCAAAAAGTTACTCCTACCATAAA ACATTTGTGTGAGGAGCGTCTAAGTAACAATTTCTCACTATATATGCTGCTACATATATT TTCTTCCGTGCTACGGAACTATCTTTAATTAGTACACGATGTGATGCTGAGATTACTTTG CTTCTGCTGTGCTTTTCAGTCAACCCCAAATGTATTTGTGTGTTAATTCCGAACACCCTA TTATTATAGGGTTGCTATCACGATGCATACCAAAGCACATTTCAATTTCATCAGACCAAA ATAATTGTTCTAACCACAAATATCCACTGAAAAATTCATTACCAGACGTACTACACGGAA TCCATGGCGCTAATCCAACTCCGTCACTGAATCACACACCCAATCAATCACTGTCGATCT CTGGGCCCTGCGCCTCGGCGTAGGCGTAGGTGAGGCCGCACTTGCCGCATGCGTGGCGGT CGGCGTGCGCCGCCATGAAGGTCCCGGCGCCGCAGTCGGGGTTGGGGCACTCCTTGCGCA GCCTCTCCACCTTGCCCGTGGCGTCGTCCACCCTGTAGTATCCCAGCACGGCGAGCGGGG TCTTCTCGCGCTCGTGCTTGACCTTCTTGGGCGTGGAGTAGGTCTTCTTCTTGCGCTTCT TGGCGCCGCCGCGGAGGCGGAGCACCAGGTGCAGCGTCGACTCCTTCTGGATGTTGTAGT CGGCCAGCGTGCGCCCGTCCTCCAGCTGCTTCCCGGCGAAGATGAGCCGCTGCTGGTCCG GCGGGATCCCCTCCTTGTCCTGGATCTTGGCCTTGACGTTGTCGATCGTGTCCGACGACT CCACCTCCAGCGTGATCGTCTTCCCCGTCAGCGTCTTCACGAAGATCTGCATCGTGCCGC AGTTCGCCGGTCGCCGCAATCCCCCGAGATTTACGACCTGTTGCGGCGGCGGCGGCGGCG CGGATTGGGATTTGAGAGCTTGGTTGGTTGGGTGTCGCGGCCGCTGGGGGGTGGGATTAT ATCTAAGCCTGGCTCGTTTGATAGGCCGTCCGATCCGCGACGGACGGCTTTGATCGATCG GGCCTGAACCGACCCGTGAACGAGCCGGACACGGCGAGGACCCGTGAGACGGAGGACCAG ACCGGCAAGTAAAACCAAAGCGGCGCACCGCGCACGCGACGCCTGAAGCGAGGAGAGGAG AGAGGGAGCCGGTGAAGCGCGCGGCGAGCGGAGGCAGAGGGAGGGGCGCCGCGTTCGCCC GGTGGGAGAAGCGATGTCGTCCATCGGCTCCTCCAACATCGGCTTCCAGCTGCTGAAGAA GTCCGGGTGGAAGGAGGGCACCGGCCTCGGTGCGCAGGAGCAGGGGCGGTTGGAGCCAGT AGAGACTCGTGTCAAGAATAACAAGCGTGGTTTAGGTTCCAAAGAACCAAAGCCCAAGGC TGAGGATGATGTTGAAACGGCTCCTAGTAAAAGGCCCAAGCAGAACCCGCCGTCAACGAA GAAGGCAAAGCTGGCCGCAAAGAGGATACGAAAGATGCAGGAAGAGGAGAAGAGAGCACA AGAGAAGGAATTCGAAATTGCTTTCTTCAGGGAATTTTGGCCTGATAACGTGTAAACCAC AAACCTGGCGGCGTTGCAACTGTTGGCATCGGCTGATAATGCCATTGTATAGCTTATCGA TGCTTCTGCAACTTGCACCTACTGTTCACTGTTTCTATCTTGTTCTGGCCCGAGTGTTAC ATTGATAGAGATATGTTGTAACAAATGTTCTTTGATTGAAGAAAATGCGACTTGGGTTCC ATGCATTGCTGGGGCATATAGTATGCACTAGCACCTTTGAGCAGTACTAATGCATGAGGC AACCGAAAACACATTTAAAAGCTGTGAAAAGTCCGGAAAAAAATTTATGACATAGAGATG AACATTTGTTAAGTGTCAGGTTTGAATTCAAATTCATAACTTTGATACCAAAAAGGCAAA ACGGGGTGTGAATAATATGGGTTGTTGAATCTCACTAACACTTGATAATAGTTATATTTT ACATAAATGTTAAAAATCTGACAATCAGATTCACTATGCAAGAACAGAAATATAATGGTC
Protein Sequence (162 aa)
>BART1_0-u02930.001 162 150831_barley_pseudomolecules MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN IQKESTLHLVLRLRGGAKKRKKKTYSTPKKVKHEREKTPLAVLGYYRVDDATGKVERLRK ECPNPDCGAGTFMAAHADRHACGKCGLTYAYAEAQGPEIDSD