- Transcript BART1_0-u19873.009
- Transcript IDBART1_0-u19873.009
- Gene IDBART1_0-u19873
Barley RTD
Exon Structure of BART1_0-u19873.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 216303734 | 216303539 | + |
| chr3H | 2 | 216303945 | 216303843 | + |
| chr3H | 3 | 216306264 | 216304538 | + |
| chr3H | 4 | 216306862 | 216306447 | + |
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 | 1.32342 | 2.3378 | 2.00803 |
| morex | ETI | 3.90559 | 2.79576 | 2.98837 |
| morex | LEA | 1.76585 | 1.78346 | 1.59477 |
| morex | EPI | 3.11596 | 3.34742 | 4.17323 |
| morex | ROO | 0.154107 | 1.44669 | 0.901319 |
| morex | ROO2 | 2.10996 | 2.14177 | 2.12371 |
| morex | NOD | 2.13715 | 3.05582 | 2.35523 |
| morex | RAC | 2.96228 | 3.7783 | 3.01056 |
| morex | INF1 | 4.56026 | 4.62562 | 5.86426 |
| morex | INF2 | 6.14788 | 6.04981 | 8.42634 |
| morex | CAR5 | 6.28673 | 5.93128 | 5.80549 |
| morex | CAR15 | 2.17874 | 2.82827 | 1.77916 |
| morex | LEM | 2.16125 | 2.21683 | 1.69001 |
| morex | LOD | 3.6994 | 2.87805 | 4.1303 |
| morex | PAL | 1.93545 | 1.43983 | 2.96978 |
| morex | SEN | 2.46142 | 2.88476 | 2.65997 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g16210.1 | +2 | 4e-70 | 228 | 112/125 (90%) | protein|uncharacterized Cys-rich domain containing protein, putative, expressed |
| TAIR PP10 | AT2G40935 @ ARAPORT AT2G40935.2 @ TAIR |
+2 | 1e-45 | 161 | 75/128 (59%) | Symbols: | PLAC8 family protein | chr2:17083336-17084216 FORWARD LENGTH=166 |
| BRACH PP3 | Bradi2g09980.1.p | +2 | 2e-65 | 216 | 115/124 (93%) | pacid=32778952 transcript=Bradi2g09980.1 locus=Bradi2g09980 ID=Bradi2g09980.1.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 (2442 bp)
>BART1_0-u19873.009 2442 150831_barley_pseudomolecules GTTTCTCAAGGTGAGCTTCCTCGGAACGTGTTACGTGTTCTCCGGTTCTTCCCCGAGCTA AGCTCGACCTCGCCCTCCCGTCCATTCCTAACACGCACCGGATATCTCCTCCTGCCGAAG CGCATGTACGACGCCGGCAATACAGCCACCGGCTCCCCTCCCCTTCCCTCTTATCTGCCG CCCGAATATCCGACGGCTCGGGCATTCGGCGGACAGAGCGTTCCGGAACTGGTGAGGCGA GGCCGCGGATAAGCACCAATTTGGTCGTCGGCGCTTCAGGGGTCTTTACCGATTTATTGA ACTGCCTTTGTGTTACAGAGATGGTTGGAAAAGGAAGCTATGTTCCGCCGCAGTATGTTC CGTTATATGGTGTAGATACTGAGGAGGATAGCGTTCCTGAGGTGGAGGAGAACATTGCCA CGCGCCAAAGATTAAGCAGGGATCCTACACAATGGTCTTCAGGCATCTGTGCTTGTTTTG ATGATCCACAGAGCTGTATGCTACTTTCTGACCCGTGACTCCTTGAATTACAGAAGGAAA GATAAAAGGTGCTATTTGGTTGCATGATAGGATAAAAAGTAAATCTTCAAACGGTACCTA GTAGCCTATTTAATATCTTCGTTTTTCTGTACCTAGTGGTGGTTAGTCTGATGTTCTCTT AGTCTTACTACATAGTGCATAAGGAAGTAGGAGCAAGTGCATAATACAGAGAGAAATTGT TCATAGTTATGACTCATGAGAAAAACTTCTTGCCTTTATTTTTTGAATTTCAGTAGTTGG TGGTGCTCTGAGTTATATGTAGTTCTTGTAGAGACGGGCAGTACCTCTATATTTCTTGGC CGCTGGGGTAACCTGGTCAAATGCTTAGCTACACCTCTAGGTTATAAATAACCATGAAGT AATTGATATTCAAGTATTAAAACAATACGAGAGTAATGTATTAATGTTCCAATACATCTT TCTAGATGAAGATAATATCTTATCTTTGGTAGTAAAATATTAATACAAGAGTAGCAAAAT CAACTGTGCTGTTCAGTGTTCCGAGTGTTAACATTACTCGCGCAATCTCACTGGAGTCAA ACTTGTATAATGATGAGACAAACTGAGATCCTTAAGATAAATAGAGAAATCTGTGATAAT GTGCCAATTTATCGAGAAGTTATCAATAGCTTCCTACTGCCTTCTCATATATGGACTATG GTTACTGGCAGAGGATTGGAAACAAAATCAGAACTACTTCTCGTGGTTACAAATGCAGCT AGCTACCATTTGCATGTTAGTATGAAGCTGAATTGGAGGGAAATATGAATTTAAATTTGA ATAGATAATGTAAGATCAGATCGATGTTATTCTTAACCTATTTCAACAGAACATGTTAAT ATTTAGTCTTATCCTGTTTGTTGCTCTTTCTCTCGGGCTTTTCTGGATGTCGTCTGGTTT CACAGTAACTAGGTGCTTAGTATATGACTGACTTTTTATGGCTTATATAGTAAAACAATA TTGAAACATGATTTCTTGGTACTATTTCAAGGGCATCTTTAAGGAGAATGTTTAAGACAC ATTAAGCCTGCAATGCAGAGTTGGTCCTACATCCATTAACCACCTCTTAATTCTGCTTCC CAATACTTTAATTTTGTGTGGACTATTGCCGCATTGCTTTGTTTGACAAAGTCCTGATAG GCTTAGAAATAACATGAATCCAATTTGGGGGTGTTATCAGGACATGCATAAAAATACCCT TTAATTGCAGGAAAGGAAAACTGTTCTTATGCCCTAAATTGTTCTCGTCTTATTTCTAGG TTGTATTGGTGCGACTTGCCCCTGCTTTCTTTTTGGAAAAAATGCACAGTTCTTGGGATC TGGAACTCTCGCTGGATCATGCACCACCCATTGCATGCTTTGGGGCCTTCTGACAAGTTT CTGCTGTCTGTGTACTGGGGGGCTTGTATTAGCAGTTCCAGGGTCTGCTGTTGCTTGTTA TGCTTGTGGATACCGCCAAGCACTAAGAACGAAGTACAACCTTCCGGAAGCACCATGCGG CGATTTGACGACGCACTTATTTTGCCATCTGTGTGCGATATGCCAAGAGTACAGGGAGAT CCGCGAGAGATCAGACAGTAGCGCCTCTTCAGCTCCTGATGTTACTCCACCTCCTGTGCA GACAATGGATGACCTTTGACTGAGTAGATGACGAGAACATATCCTGCCTGGCAAATCTTT GGTTGGCTTGACATGCCCTTGCCTGTAAGTATTTGTGTTACTGTGCACTGCTCCCACAGC TACGATGTCAGATTTTATGCAGCTGGTGTAAAGATAACCTGTAAACTAATGGACAGCGCG AGAAAATGTAACCCTTTTGTTGCACGATTATAGCATGTAACATTTTTTCTTCATACATGT AGAAATGAAATGGAAACAAAGAGTGTTCTCCTGGACATGAGT
Protein Sequence ( aa)
>BART1_0-u19873.009 150831_barley_pseudomolecules