- Transcript BART1_0-u42531.010
- Transcript IDBART1_0-u42531.010
- Gene IDBART1_0-u42531
Barley RTD
Exon Structure of BART1_0-u42531.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 22237825 | 22237675 | + |
| chr6H | 2 | 22239292 | 22238014 | + |
| chr6H | 3 | 22239749 | 22239402 | + |
| chr6H | 4 | 22240306 | 22239832 | + |
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 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g03040.4 | +1 | 8e-74 | 240 | 144/171 (84%) | protein|RNA recognition motif containing protein, expressed |
| TAIR PP10 | AT5G52040 @ ARAPORT AT5G52040.4 @ TAIR |
+1 | 7e-44 | 161 | 103/194 (53%) | Symbols: RS41, At-RS41 | RNA-binding (RRM/RBD/RNP motifs) family protein | chr5:21131881-21133318 FORWARD LENGTH=324 |
| BRACH PP3 | Bradi3g02226.1.p | +1 | 3e-84 | 269 | 158/168 (94%) | pacid=32814082 transcript=Bradi3g02226.1 locus=Bradi3g02226 ID=Bradi3g02226.1.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 (2253 bp)
>BART1_0-u42531.010 2253 150831_barley_pseudomolecules CTTCGAATAGGTTTGGGGAAGATCTGTTTATACAGCAACACCAACATGAGGCCAATTTTC TGCGGGAACCTTGACTATGATGCCCGCCAATCTGAAGTCGAGCGTCTTTTTGGCAAATAT GGAAGAGTGGAGCGAGTTGACATGAAGACAGCTCCATACAAGTCTTCCAAGGGAATGGAG TGAATGGTGTGCTCAGTTAGCTTTAACAAGATTGGGTGGGTGCCAAGTGGAAACAGCCGT CCTCGTTGCTGCAAAGACTGCCATCGCTTCTTCAACCATCCCTGGTGCAGTATGATGCGG TCTGTTATAAGATATGATTGGACAAAGTGTATCAGGCCAGAGACTGTTCAGCAGAATCAG ATTATGTTTATTGTTATTTTGTCAAAGTCATTGGACAAGTCCAAACCAGGATATAAATTT AGAAAAAGAAGTTATTTCTTAAAGTTTAGGTCCAGTACTCAATTGTTTCTTTGCCGCAGG AATATCATGAAGCATCTGTGCTCTTCCTGGTTGATGGACTGGGCTCTACCTTTCCTGCCT GAGCCCCTGCCTCATGCCCTGTCCATTTCCAGGAGTTCACAGTCCACCATGACATCTGTC ACTTGGAAACGACCACCTTGTGACTGATGTCTTACTTTTACATCAATGTTGCACCCTCCT CCCCCGCCCGGTTACACTCTCCCACGTCGACCAAACCATGCCAATCTCATGGCCGGCTGG AGAAGAGTAGAGGTTCCACCGGCAGCACCACCACCTCTTTTGGTGTACCACGAACGTTTG GATTATCGTACTCTGACATCATTTAGTGCAACATGCAAAAGGTCTGTTCTTATTTGTGCT GACATATCAATTTGTAGCTTCCTGAGGTGATCTTGAAGTTTTTTTTCTCTTGCAAAGATT TTGATCGCCATACAAGCCATTATCTGTTTACCCTAAGGGTTAGTAAAATGTGCGAGCTAC TTTAAATAACTAGTCATCTTTCCATGTTCAACATTGAAGGATTTGCGTTCGTCTACATGG AAGATGAACGTGATGCTGAAGATGCTATCCGTAGACTTGATAGAACTGACTTTGGTAGAA CAGGGAGGAGACTGAGAGTCGAATGGACAAAGGTGCGCAGTTGTAAACTAATAATAAAAG TCATCTCTCAGTAGCCTTATTTTTCTTAATATCCGTCGTCTATTATTTGTGTAGGAGGAT CGCAGTGGTGGTCGGAAAGGAAATGGAAAGAGATCTCCAAGCAGCGTGAAACCAACCAAA ACCTTGTTTGTGATCAACTTTGATCCAATCAACACAAGGACAAGAGATCTGGAGAAGCAC TTTGATCTGTATGGCAAGATTGCAAATATCAGAATCAGAAGGAACTTTGCATTTGTCCAG TATGAAACACAGGAGGATGCTACTAAAGCTCTGGACGGTACTAATGGAAGCACTGTGATG GACAGGGTGATTTCTGTTGAGTATGCGCTTCGTGACGATGATGAAAAAAGGAACGGGTAC AGTCCAGACAGGAGAGGAGGCCGTGATAGGTCTCCTGACAGAAGGGACAATCGTGGTAGG TCGGCAAGTCCTTATGGCAGAGGGCGGGAAAGGGGCAGCCCAGACTATGGCAGGGGCAGG GAGAGGGGCAGCCCGGACTATGGCAAGGGCGGTGCCAGAGATAGTCCTGACTATGTCCGT GGTGGAAGCCCGTACGGCGGCAAAGGGGATGACAGGGCTAGCCCCAAGTATGACCGTGAA CGCCGTGAAGCCAGTCCTGCCTATGACAGGCGCCGCAGCCGCTCGCCTGCAAGGGAAGAT AGGGACTGAAGCTGTACCATGGATGGCTGCGCTCAATCCTGGGTGCTTCGGACCAAATGG ATGCACCGTCCTAGTGCGATGTTCGCTCAAGTTGGTTATGTTAGGCAGCCAGGAACTTCT GTAATATCTCTCTATTAGCTAGCTCTAGCTGAATGCTTTGTCGATTTAGTTTGAACTGTG ATTGTTAGCTTGAACTTTGTGCAAAGGGATTCTTCCGGTGAGACCATTTGCGGAGCGATG AGATGTACCGTGTATCGACCGACAGCAGTATTCTAGCTTTGCACTTTGGTTATTCTTCCA TATGTTCCTATTCTTCACTATTGTTTCTGCTTGTGTGCTGGTCGACATGGTTGAGGATGG TGACCTTTGAGGAAGATAGAGGCTAATGTTGTGGTGGTGACGTCCATGGCTTCGGCAACA TACTTCTTCTGTACCTAAATAACTATAGTTCTT
Protein Sequence (123 aa)
>BART1_0-u42531.010 123 150831_barley_pseudomolecules MDRVISVEYALRDDDEKRNGYSPDRRGGRDRSPDRRDNRGRSASPYGRGRERGSPDYGRG RERGSPDYGKGGARDSPDYVRGGSPYGGKGDDRASPKYDRERREASPAYDRRRSRSPARE DRD