- Transcript BART1_0-u07987.026
- Transcript IDBART1_0-u07987.026
- Gene IDBART1_0-u07987
Barley RTD
Exon Structure of BART1_0-u07987.026
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 29123857 | 29123736 | + |
| chr2H | 2 | 29124505 | 29124325 | + |
| chr2H | 3 | 29124781 | 29124617 | + |
| chr2H | 4 | 29124992 | 29124859 | + |
| chr2H | 5 | 29125344 | 29125189 | + |
| chr2H | 6 | 29125924 | 29125780 | + |
| chr2H | 7 | 29126174 | 29126067 | + |
| chr2H | 8 | 29127234 | 29126291 | + |
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 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0.669123 |
| morex | EPI | 0 | 0 | 0.465791 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0.496342 | 0 |
| morex | RAC | 0 | 0.412257 | 0.248489 |
| morex | INF1 | 0.25626 | 1.89711 | 0.977784 |
| morex | INF2 | 0.769704 | 0.868558 | 0.400769 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0.399538 | 0 | 0.382173 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0.528875 | 0 | 0 |
| morex | SEN | 0 | 0.999988 | 0.00131758 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os07g49460.2 | +3 | 2e-122 | 381 | 204/287 (71%) | protein|response regulator receiver domain containing protein, expressed |
| TAIR PP10 | AT5G02810 @ ARAPORT AT5G02810.1 @ TAIR |
+3 | 5e-63 | 222 | 133/251 (53%) | Symbols: PRR7, APRR7 | pseudo-response regulator 7 | chr5:638283-641461 REVERSE LENGTH=727 |
| BRACH PP3 | Bradi1g16490.7.p | +3 | 8e-123 | 379 | 213/295 (72%) | 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 (1955 bp)
>BART1_0-u07987.026 1955 150831_barley_pseudomolecules CCTCCCTCGCCTCCCACACCCACCCACACACACAGCACACCCTCCTCGGCTCGACTCGAC TCGCCGCCGCCGCCGCAGTCCATGGCCTCGTCGTCCTCCTCCTGACCGGCAGCAGACCCA AGCCTCCTCCTAGCGCCATGGACAATCAGCAGCAGCAGCAGCCGCCGCGCGGGGAGCACG CCGCCCAGCCGCGATGCTGGGAGGAGTTCCTACACAGGAAGACCATCCGGGTCCTGCTCG TGGAGACCGACGACTCCACCAGGCAGGTCGTCGCCGCCCTGCTCCGCCACTGCATGTACC AAGTTATCCCCGTCGAGAACGGCCACCAGGCGTGGGCGTATCTTCAGGACATGCAGAGCA ACATCGACCTTGTTCTCACAGAGGTGTTCATGCACGGCGGCCTCTCCGGGATCGACCTGC TCGGCAGGATCATGAACCACGAGGTCTGCAAGGACATCCCCGTCATCATGATGTCGTCGC ACGATTCCATGGGCACCGTCCTCAGCTGCCTCTCAAATGGTGCTGCTGACTTCTTGGCCA AGCCGATACGTAAGAACGAGCTTAAGAACCTTTGGGCGCATGTGTGGCGACGGTCTCACA GCTCCAGTGGCAGTGGTAGTGGAAGTGCCATTCAGACTCAGAAGTGTACCAAATCAAAGA GCGGCGATGATTCCAATAACAACAGCAATGATCGCAACGACGATGCCAGCATGGGGCTCA ATGCAAGGGATGGCAGCGATAATGGCAGTGGCACTCAGGCGCAGAGCTCATGGACAAAGC GTGCCGTTGAGATCGACAGTCCCCAGGACATGTCTCCGGATCAGTCAGCCGATCCCCCTG AAGGCACTTGTGCCCATGTGAACCATCCCAAGTCAGAGATATGCAGCAATAGATGGTTAC CAGGTGATGGATTCAAAGGCAAGGAGTTGGAGATAGGAGCCCCTGGTAATTTGAACACAG ACGATCAATCCTCCCCGAACGAGAGTTCGGTCAAACCAACCGATGGACGGTGCAGCAGCT AGAGCCATAGATGCTCCTAACTGCTCCTTACAGGCGTCGGAAGGGAAAGACACGGACGGC GAGAACGCTATGCCATATCTTGAGCTGAGCCTGAAGAGGTCGAGATCGACCGGGGAAGGT GCAGGCCCGATCCAGGAGGAACAGAGGAACGTCGTGAGACGGTCAGACCTGTCGGCATTC ACGAGGTGCAAAGCATAATATCAGTGTCCTTTGTGAATCCTGAAATCATCCGTATGTTGC ATACTAACCGTTTTCATTCTTTGCAAGGTACAATATGTGTGCGGTCTCCAATCAAGGCGG GGCAGGGTTCGTCGGGAGCTGCTCACCCAACGGCGACAGCTCCGAGGCCGCGAAAACGGT TGCTGCTCAGATGAAGCAGGGCTCTAACGGCAGCAGCAACAACAATGACATGGGCTCCAC CACGAAGAGCGTGGTGACCAAGCCCTGTGGAAATAATAAGGTTTCGCCCATCAACGGCAA CACACACACGTCGGCGTTTCATCGTGTGCAGCCATGGACGCCAGCGACAGCAGCAGGAAA AGACAAGGCTGATGAAGTGAGCAAGAAGAACGTTGCAGCAGCAGCAGCAGCAGCGAAAGA AATGGGTTGTGAAGCACAGAGCAAACACCCCTGTGCAGCGGCCGATGACGTGAATGGTGG ATCGGCAGGAGGCACTGCTCAGTCCAGTGTTGTCAATCCTTCGGGTCCGGTTGAAGGCCA TACTGCCAACTATGGTAGCAACTCATTCAGCAATAACAACACCAATAACGGGAGCACCGC AGCTACCACTGCTGCTGCTGCTGCTGTACATGCTGAGACCGGTGGTGGCGTCGACAAAAG AAGTAACATGATGAACATGAAACGGGAGCGCCGTGTGGCCGCCGTGAACAAGTTCAGAGA GAAGAGAAAAGAGAGGAACTTCGGGAAGAAGGTAC
Protein Sequence (339 aa)
>BART1_0-u07987.026 339 150831_barley_pseudomolecules SLASHTHPHTQHTLLGSTRLAAAAAVHGLVVLLLTGSRPKPPPSAMDNQQQQQPPRGEHA AQPRCWEEFLHRKTIRVLLVETDDSTRQVVAALLRHCMYQVIPVENGHQAWAYLQDMQSN IDLVLTEVFMHGGLSGIDLLGRIMNHEVCKDIPVIMMSSHDSMGTVLSCLSNGAADFLAK PIRKNELKNLWAHVWRRSHSSSGSGSGSAIQTQKCTKSKSGDDSNNNSNDRNDDASMGLN ARDGSDNGSGTQAQSSWTKRAVEIDSPQDMSPDQSADPPEGTCAHVNHPKSEICSNRWLP GDGFKGKELEIGAPGNLNTDDQSSPNESSVKPTDGRCSS