- Transcript BART1_0-u07987.046
- Transcript IDBART1_0-u07987.046
- Gene IDBART1_0-u07987
Barley RTD
Exon Structure of BART1_0-u07987.046
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 29124781 | 29124613 | + |
| chr2H | 2 | 29124992 | 29124859 | + |
| chr2H | 3 | 29125344 | 29125189 | + |
| chr2H | 4 | 29125974 | 29125780 | + |
| chr2H | 5 | 29126174 | 29126067 | + |
| chr2H | 6 | 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 | 0.126847 | 0.239534 |
| morex | ETI | 0.000000000342819 | 0 | 0 |
| morex | LEA | 1.15715 | 2.2152 | 0.00252671 |
| morex | EPI | 0 | 0.760249 | 0 |
| morex | ROO | 0 | 0.459942 | 0.214962 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.780269 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 2.97371 | 1.64926 | 4.04239 |
| morex | INF2 | 3.19361 | 3.46818 | 4.43123 |
| morex | CAR5 | 0 | 0.408465 | 0.507292 |
| morex | CAR15 | 0.0984191 | 0.00355195 | 0.00537517 |
| morex | LEM | 0.452729 | 0.409128 | 0 |
| morex | LOD | 0 | 0.000000000278342 | 0.605032 |
| morex | PAL | 0 | 0 | 0.0000105453 |
| morex | SEN | 0.916742 | 0.456268 | 1.35963 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os07g49460.2 | +1 | 6e-111 | 348 | 221/369 (60%) | protein|response regulator receiver domain containing protein, expressed |
| TAIR PP10 | AT5G02810 @ ARAPORT AT5G02810.1 @ TAIR |
+1 | 4e-44 | 167 | 144/370 (39%) | Symbols: PRR7, APRR7 | pseudo-response regulator 7 | chr5:638283-641461 REVERSE LENGTH=727 |
| BRACH PP3 | Bradi1g16490.7.p | +1 | 5e-146 | 360 | 224/361 (62%) | 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 (1706 bp)
>BART1_0-u07987.046 1706 150831_barley_pseudomolecules GCAGTTATCCCCGTCGAGAACGGCCACCAGGCGTGGGCGTATCTTCAGGACATGCAGAGC AACATCGACCTTGTTCTCACAGAGGTGTTCATGCACGGCGGCCTCTCCGGGATCGACCTG CTCGGCAGGATCATGAACCACGAGGTCTGCAAGGACATCCCCGTCATCATGATGTCGTCG CACGATTCCATGGGCACCGTCCTCAGCTGCCTCTCAAATGGTGCTGCTGACTTCTTGGCC AAGCCGATACGTAAGAACGAGCTTAAGAACCTTTGGGCGCATGTGTGGCGACGGTCTCAC AGCTCCAGTGGCAGTGGTAGTGGAAGTGCCATTCAGACTCAGAAGTGTACCAAATCAAAG AGCGGCGATGATTCCAATAACAACAGCAATGATCGCAACGACGATGCCAGCATGGGGCTC AATGCAAGGGATGGCAGCGATAATGGCAGTGGCACTCAGGCGCAGAGCTCATGGACAAAG CGTGCCGTTGAGATCGACAGTCCCCAGGACATGTCTCCGGATCAGTCAGCCGATCCCCCT GAAGGCACTTGTGCCCATGTGAACCATCCCAAGTCAGAGATATGCAGCAATAGATGGTTA CCAGGTACAAATAACAAAAAATGCCAGAAACCAAAAGAAACCACTAATGGTATGGTGATG GATTCAAAGGCAAGGAGTTGGAGATAGGAGCCCCTGGTAATTTGAACACAGACGATCAAT CCTCCCCGAACGAGAGTTCGGTCAAACCAACCGATGGACGGTGCAGCAGCTAGAGCCATA GATGCTCCTAACTGCTCCTTACAGGCGTCGGAAGGGAAAGACACGGACGGCGAGAACGCT ATGCCATATCTTGAGCTGAGCCTGAAGAGGTCGAGATCGACCGGGGAAGGTGCAGGCCCG ATCCAGGAGGAACAGAGGAACGTCGTGAGACGGTCAGACCTGTCGGCATTCACGAGGTGC AAAGCATAATATCAGTGTCCTTTGTGAATCCTGAAATCATCCGTATGTTGCATACTAACC GTTTTCATTCTTTGCAAGGTACAATATGTGTGCGGTCTCCAATCAAGGCGGGGCAGGGTT CGTCGGGAGCTGCTCACCCAACGGCGACAGCTCCGAGGCCGCGAAAACGGTTGCTGCTCA GATGAAGCAGGGCTCTAACGGCAGCAGCAACAACAATGACATGGGCTCCACCACGAAGAG CGTGGTGACCAAGCCCTGTGGAAATAATAAGGTTTCGCCCATCAACGGCAACACACACAC GTCGGCGTTTCATCGTGTGCAGCCATGGACGCCAGCGACAGCAGCAGGAAAAGACAAGGC TGATGAAGTGAGCAAGAAGAACGTTGCAGCAGCAGCAGCAGCAGCGAAAGAAATGGGTTG TGAAGCACAGAGCAAACACCCCTGTGCAGCGGCCGATGACGTGAATGGTGGATCGGCAGG AGGCACTGCTCAGTCCAGTGTTGTCAATCCTTCGGGTCCGGTTGAAGGCCATACTGCCAA CTATGGTAGCAACTCATTCAGCAATAACAACACCAATAACGGGAGCACCGCAGCTACCAC TGCTGCTGCTGCTGCTGTACATGCTGAGACCGGTGGTGGCGTCGACAAAAGAAGTAACAT GATGAACATGAAACGGGAGCGCCGTGTGGCCGCCGTGAACAAGTTCAGAGAGAAGAGAAA AGAGAGGAACTTCGGGAAGAAGGTAC
Protein Sequence (228 aa)
>BART1_0-u07987.046 228 150831_barley_pseudomolecules AVIPVENGHQAWAYLQDMQSNIDLVLTEVFMHGGLSGIDLLGRIMNHEVCKDIPVIMMSS HDSMGTVLSCLSNGAADFLAKPIRKNELKNLWAHVWRRSHSSSGSGSGSAIQTQKCTKSK SGDDSNNNSNDRNDDASMGLNARDGSDNGSGTQAQSSWTKRAVEIDSPQDMSPDQSADPP EGTCAHVNHPKSEICSNRWLPGTNNKKCQKPKETTNGMVMDSKARSWR