- Transcript BART1_0-u19873.001
- Transcript IDBART1_0-u19873.001
- Gene IDBART1_0-u19873
Barley RTD
Exon Structure of BART1_0-u19873.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 216303663 | 216303298 | + |
| chr3H | 2 | 216303945 | 216303843 | + |
| chr3H | 3 | 216304733 | 216304557 | + |
| chr3H | 4 | 216306264 | 216306038 | + |
| chr3H | 5 | 216306962 | 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 | 2.57038 | 3.44798 | 0.00162874 |
| morex | ETI | 0.00000146173 | 2.99957 | 6.58665 |
| morex | LEA | 0.000000173281 | 2.29369 | 3.91104 |
| morex | EPI | 0 | 0 | 0.381555 |
| morex | ROO | 1.91441 | 4.5373 | 2.73335 |
| morex | ROO2 | 3.85381 | 3.46306 | 3.9921 |
| morex | NOD | 6.13299 | 0.00469708 | 0.189471 |
| morex | RAC | 0.000120201 | 3.8395 | 4.28505 |
| morex | INF1 | 3.74561 | 0.0000000159816 | 0 |
| morex | INF2 | 4.2365 | 7.05715 | 4.06059 |
| morex | CAR5 | 5.36108 | 6.40361 | 4.14653 |
| morex | CAR15 | 2.76398 | 0 | 0 |
| morex | LEM | 3.65608 | 0.714018 | 4.00336 |
| morex | LOD | 11.1824 | 1.61715 | 6.64384 |
| morex | PAL | 3.1259 | 5.10621 | 5.99121 |
| morex | SEN | 0.000528368 | 1.59621 | 2.53513 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g16210.1 | +1 | 2e-73 | 229 | 111/123 (90%) | protein|uncharacterized Cys-rich domain containing protein, putative, expressed |
| TAIR PP10 | AT2G40935 @ ARAPORT AT2G40935.1 @ TAIR |
+1 | 3e-69 | 219 | 102/166 (61%) | Symbols: | PLAC8 family protein | chr2:17083199-17084216 FORWARD LENGTH=190 |
| BRACH PP3 | Bradi2g09980.1.p | +1 | 2e-110 | 324 | 165/183 (90%) | 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 (1389 bp)
>BART1_0-u19873.001 1389 150831_barley_pseudomolecules TGTCTGTGATGTTAAATGCGGAGTAGGATTCGTCCGCAACGGGTGCCGAGCAAATGCCCG CCGAGACGGCATGGCCCACATATAAACGTGCCTAGGCGTGCTGTGCTGTCATGTTTAAGC GTGGGCTGGGCCGTACTGTGCCAGCCCACTTGGCTAGGTTTGGCTGCATCGCCATGGTGG CTGAGGGAAAAACTTGGGCGAGCACCGACAGTTCCGCCGCGAATCTCAAAGCGCTGCGGC GGTTTCTCAAGGTGAGCTTCCTCGGAACGTGTTACGTGTTCTCCGGTTCTTCCCCGAGCT AAGCTCGACCTCGCCCTCCCGTCCATTCCTAACACGCACCGGATATCTCCTCCTGCCGAA GCGCATCTCGGGCATTCGGCGGACAGAGCGTTCCGGAACTGGTGAGGCGAGGCCGCGGAT AAGCACCAATTTGGTCGTCGGCGCTTCAGGGGTCTTTACCGATTTATTGAGATGGTTGGA AAAGGAAGCTATGTTCCGCCGCAGTATGTTCCGTTATATGGTGTAGATACTGAGGAGGAT AGCGTTCCTGAGGTGGAGGAGAACATTGCCACGCGCCAAAGATTAAGCAGGGATCCTACA CAATGGTCTTCAGGCATCTGTGCTTGTTTTGATGATCCACAGAGCTGTTGTATTGGTGCG ACTTGCCCCTGCTTTCTTTTTGGAAAAAATGCACAGTTCTTGGGATCTGGAACTCTCGCT GGATCATGCACCACCCATTGCATGCTTTGGGGCCTTCTGACAAGTTTCTGCTGTCTGTGT ACTGGGGGGCTTGTATTAGCAGTTCCAGGGTCTGCTGTTGCTTGTTATGCTTGTGGATAC CGCCAAGCACTAAGAACGAAGTACAACCTTCCGGAAGCACCATGCGGCGATTTGACGACG CACTTATTTTGCCATCTGTGTGCGATATGCCAAGAGTACAGGGAGATCCGCGAGAGATCA GACAGTAGCGCCTCTTCAGCTCCTGATGTTACTCCACCTCCTGTGCAGACAATGGATGAC CTTTGACTGAGTAGATGACGAGAACATATCCTGCCTGGCAAATCTTTGGTTGGCTTGACA TGCCCTTGCCTGTAAGTATTTGTGTTACTGTGCACTGCTCCCACAGCTACGATGTCAGAT TTTATGCAGCTGGTGTAAAGATAACCTGTAAACTAATGGACAGCGCGAGAAAATGTAACC CTTTTGTTGCACGATTATAGCATGTAACATTTTTTCTTCATACATGTAGAAATGAAATGG AAACAAAGAGTGTTCTCCTGGACATGAGTTTCTACTTTGGGTGCATATGCACCTGGATGA ACAGTAAAATCGAAAACAATAGAATTTTCTTTGAAGTTATGAATTCTTTTACAATATACA CATCTATGA
Protein Sequence (184 aa)
>BART1_0-u19873.001 184 150831_barley_pseudomolecules MVGKGSYVPPQYVPLYGVDTEEDSVPEVEENIATRQRLSRDPTQWSSGICACFDDPQSCC IGATCPCFLFGKNAQFLGSGTLAGSCTTHCMLWGLLTSFCCLCTGGLVLAVPGSAVACYA CGYRQALRTKYNLPEAPCGDLTTHLFCHLCAICQEYREIRERSDSSASSAPDVTPPPVQT MDDL