- Transcript BART1_0-u07987.019
- Transcript IDBART1_0-u07987.019
- Gene IDBART1_0-u07987
Barley RTD
Exon Structure of BART1_0-u07987.019
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 29123857 | 29123721 | + |
| chr2H | 2 | 29124505 | 29124321 | + |
| chr2H | 3 | 29124781 | 29124617 | + |
| chr2H | 4 | 29124992 | 29124859 | + |
| chr2H | 5 | 29125344 | 29125189 | + |
| chr2H | 6 | 29125969 | 29125780 | + |
| chr2H | 7 | 29127233 | 29126067 | + |
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 | 0.707277 | 0.549172 |
| morex | ETI | 1.08179 | 0.0133104 | 0 |
| morex | LEA | 2.37854 | 1.43593 | 6.70437 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0.212648 | 0 | 0 |
| morex | ROO2 | 0.373069 | 0 | 0 |
| morex | NOD | 0.00152877 | 1.95572 | 0 |
| morex | RAC | 0.00000000171951 | 0.237725 | 0 |
| morex | INF1 | 2.35834 | 0.124258 | 0.353586 |
| morex | INF2 | 0 | 2.01421 | 2.355 |
| morex | CAR5 | 2.53991 | 1.02234 | 1.6945 |
| morex | CAR15 | 0.676245 | 0.807974 | 1.67838 |
| morex | LEM | 0 | 0.0249699 | 0 |
| morex | LOD | 0.000583292 | 0.292932 | 0 |
| morex | PAL | 0.309517 | 0.00576099 | 0.000221763 |
| morex | SEN | 0.000000000457031 | 3.50644 | 0.000000001079 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os07g49460.2 | +1 | 1e-175 | 521 | 289/404 (72%) | protein|response regulator receiver domain containing protein, expressed |
| TAIR PP10 | AT5G02810 @ ARAPORT AT5G02810.1 @ TAIR |
+1 | 6e-68 | 237 | 179/421 (43%) | Symbols: PRR7, APRR7 | pseudo-response regulator 7 | chr5:638283-641461 REVERSE LENGTH=727 |
| BRACH PP3 | Bradi1g16490.7.p | +1 | 0.0 | 527 | 298/407 (73%) | pacid=32803660 transcript=Bradi1g16490.7 locus=Bradi1g16490 ID=Bradi1g16490.7.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 (2134 bp)
>BART1_0-u07987.019 2134 150831_barley_pseudomolecules CTACTCCTCCGCCCCCCTCCCTCGCCTCCCACACCCACCCACACACACAGCACACCCTCC TCGGCTCGACTCGACTCGCCGCCGCCGCCGCAGTCCATGGCCTCGTCGTCCTCCTCCTGA CCGGCAGCAGACCCAAGGCAGCCTCCTCCTAGCGCCATGGACAATCAGCAGCAGCAGCAG CCGCCGCGCGGGGAGCACGCCGCCCAGCCGCGATGCTGGGAGGAGTTCCTACACAGGAAG ACCATCCGGGTCCTGCTCGTGGAGACCGACGACTCCACCAGGCAGGTCGTCGCCGCCCTG CTCCGCCACTGCATGTACCAAGTTATCCCCGTCGAGAACGGCCACCAGGCGTGGGCGTAT CTTCAGGACATGCAGAGCAACATCGACCTTGTTCTCACAGAGGTGTTCATGCACGGCGGC CTCTCCGGGATCGACCTGCTCGGCAGGATCATGAACCACGAGGTCTGCAAGGACATCCCC GTCATCATGATGTCGTCGCACGATTCCATGGGCACCGTCCTCAGCTGCCTCTCAAATGGT GCTGCTGACTTCTTGGCCAAGCCGATACGTAAGAACGAGCTTAAGAACCTTTGGGCGCAT GTGTGGCGACGGTCTCACAGCTCCAGTGGCAGTGGTAGTGGAAGTGCCATTCAGACTCAG AAGTGTACCAAATCAAAGAGCGGCGATGATTCCAATAACAACAGCAATGATCGCAACGAC GATGCCAGCATGGGGCTCAATGCAAGGGATGGCAGCGATAATGGCAGTGGCACTCAGGCG CAGAGCTCATGGACAAAGCGTGCCGTTGAGATCGACAGTCCCCAGGACATGTCTCCGGAT CAGTCAGCCGATCCCCCTGAAGGCACTTGTGCCCATGTGAACCATCCCAAGTCAGAGATA TGCAGCAATAGATGGTTACCAGGTACAAATAACAAAAAATGCCAGAAACCAAAAGAAACC ACTAATGGTGATGGATTCAAAGGCAAGGAGTTGGAGATAGGAGCCCCTGGTAATTTGAAC ACAGACGATCAATCCTCCCCGAACGAGAGTTCGGTCAAACCAACCGATGGACGGTGTGAG TATCTGCCACAGAACAATTCCAGTGATACGGTCATGGAGAATTTGGAGGAGCCAATTGTT CGAGCTGCTGACTTAATCGGTTCGATGGCCAAAAACATGGACGCCCAACAGGCAGCAGCT AGAGCCATAGATGCTCCTAACTGCTCCTTACAGGCGTCGGAAGGGAAAGACACGGACGGC GAGAACGCTATGCCATATCTTGAGCTGAGCCTGAAGAGGTCGAGATCGACCGGGGAAGGT GCAGGCCCGATCCAGGAGGAACAGAGGAACGTCGTGAGACGGTCAGACCTGTCGGCATTC ACGAGGTGCAAAGCATAATATCAGTGTCCTTTGTGAATCCTGAAATCATCCGTATGTTGC ATACTAACCGTTTTCATTCTTTGCAAGGTACAATATGTGTGCGGTCTCCAATCAAGGCGG GGCAGGGTTCGTCGGGAGCTGCTCACCCAACGGCGACAGCTCCGAGGCCGCGAAAACGGT TGCTGCTCAGATGAAGCAGGGCTCTAACGGCAGCAGCAACAACAATGACATGGGCTCCAC CACGAAGAGCGTGGTGACCAAGCCCTGTGGAAATAATAAGGTTTCGCCCATCAACGGCAA CACACACACGTCGGCGTTTCATCGTGTGCAGCCATGGACGCCAGCGACAGCAGCAGGAAA AGACAAGGCTGATGAAGTGAGCAAGAAGAACGTTGCAGCAGCAGCAGCAGCAGCGAAAGA AATGGGTTGTGAAGCACAGAGCAAACACCCCTGTGCAGCGGCCGATGACGTGAATGGTGG ATCGGCAGGAGGCACTGCTCAGTCCAGTGTTGTCAATCCTTCGGGTCCGGTTGAAGGCCA TACTGCCAACTATGGTAGCAACTCATTCAGCAATAACAACACCAATAACGGGAGCACCGC AGCTACCACTGCTGCTGCTGCTGCTGTACATGCTGAGACCGGTGGTGGCGTCGACAAAAG AAGTAACATGATGAACATGAAACGGGAGCGCCGTGTGGCCGCCGTGAACAAGTTCAGAGA GAAGAGAAAAGAGAGGAACTTCGGGAAGAAGGTA
Protein Sequence (413 aa)
>BART1_0-u07987.019 413 150831_barley_pseudomolecules MDNQQQQQPPRGEHAAQPRCWEEFLHRKTIRVLLVETDDSTRQVVAALLRHCMYQVIPVE NGHQAWAYLQDMQSNIDLVLTEVFMHGGLSGIDLLGRIMNHEVCKDIPVIMMSSHDSMGT VLSCLSNGAADFLAKPIRKNELKNLWAHVWRRSHSSSGSGSGSAIQTQKCTKSKSGDDSN NNSNDRNDDASMGLNARDGSDNGSGTQAQSSWTKRAVEIDSPQDMSPDQSADPPEGTCAH VNHPKSEICSNRWLPGTNNKKCQKPKETTNGDGFKGKELEIGAPGNLNTDDQSSPNESSV KPTDGRCEYLPQNNSSDTVMENLEEPIVRAADLIGSMAKNMDAQQAAARAIDAPNCSLQA SEGKDTDGENAMPYLELSLKRSRSTGEGAGPIQEEQRNVVRRSDLSAFTRCKA