- Transcript BART1_0-u19417.011
- Transcript IDBART1_0-u19417.011
- Gene IDBART1_0-u19417
Barley RTD
Exon Structure of BART1_0-u19417.011
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 156626357 | 156625912 | - |
| chr3H | 2 | 156627286 | 156627225 | - |
| chr3H | 3 | 156628966 | 156627930 | - |
| chr3H | 4 | 156629790 | 156629583 | - |
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 | 0.0233086 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0.00000167686 | 0.0000000870339 | 0.000000168378 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0.183454 | 0 |
| morex | NOD | 0.0000000021105 | 0 | 0 |
| morex | RAC | 0.000000168785 | 0 | 0.00243226 |
| 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 | 2.42458 | 4.97221 | 0.000277337 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0.727897 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g14180.2 | +3 | 2e-41 | 150 | 74/90 (82%) | protein|OsIAA17 - Auxin-responsive Aux/IAA gene family member, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g07770.1.p | +3 | 2e-54 | 152 | 72/79 (91%) | pacid=32771633 transcript=Bradi2g07770.1 locus=Bradi2g07770 ID=Bradi2g07770.1.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 (1753 bp)
>BART1_0-u19417.011 1753 150831_barley_pseudomolecules CGGACTTCCCGGCTGCGAGTCGCCGGACCGCCGCCCGGTCGCCGCCACCACCACACTGGA GCTTCTGCCCGCCAAGGGCGCCAAGCGAGGGTTCTCGGACGAGGTCCTGCCGCCTGCGCC GTCTGCCGCCGGCGGGAAAGGCAAGGAGACGTCCGGGGATGAGAAGGACAAGAAGGTCGC CGCACCGCCGCAGCCTGCTGCCAAGTAGGGCTCAGGTGGTGGGATGGCCACCAATCCGCA GCTACCGCAAGAACACGATGGCAACCACCACCAACCAGCTGAAGAGCAGCAAGGAGGATT CTGACGCGAAGCAGGGGCAAGAGTTTCTGTATGTCAAAGTCAGCATGGATGGCGCGCCTT ACCTGAGGAAGGTTGACCTCAAGACATACAAGAACTATAAGGACCTGTCTCTGGGGCTAG AGAAAATGTTCATTGGCTTCAGCACCGGTGAGGCTGCTCGGATCCTCGGCAAATTGTTGC TGTTTCCATCTGCACCTGAAATTTGATCTGTGGTAGAAGAAATGCATCATTGCACACATC TCGTTTTGTTGAAGAAATAATCAATTACTCTGTTTGGAAATGTTCTAGCAAATTTCAGGT TTATGAAATTGACGAAGAAGACTCTTTTCAGGGCTGGCGAAATTGGTTATTGTGGTGACA ACCAGTTTGCGATGCCTCGCTTCTAAATTTGTCCAAGCTATTTATGTACAAATTTGTTTT GCTAGATGCCTAGTTTCAACATATATTATTACTGGTGGAGCAAATATTCTCTTCTAATTC AAGGAGCTTTTCTTGTGTTTAATACTGATTGAGCGAGCAACTAACAGTGTAGATTAGACT ATGTCATAAACATGCCTAATGTTTAGGCTAGCATTAGCTAAGGGTCTGTAAATATCACTC AATTATTCATAAGCCTTTGATAAACAACAATTTCCCTGAAATGTCTTCATACCTATTTTG TGCTTCAAGGTCAGACACCAAACCTACTAATTTAAAAACGTAAATTGCAGGAAGGTGTAT ATTTAGGGACATAAAATTTGTCAACATACCAGTGCTGTGTTAAGAAGTTTAGTGTCAGGT GGCCCTTTCTCCGGCATTTTGTTTATTTGTCCTTACATGTGGCACTGGTTCTAATTTTGT ACCAGGTAAAGATGGTGTATCTGAGAACAGAAAGGATGGTGAATACGTGCTGACCTACGA AGACAAGGACGGAGACTGGATGCTGGTTGGTGACGTCCCATGGGAGATGTTCACCGAGTC TTGCCGAAGGCTGAGGGTCATGAAAGGTTCAGATGCAGTTGGACTTGCAGTTCCAAGGGC AGGGGATAAGTCCAAGAATAAGAACTAAAGCGGTTGCTGCCCACAGTTTGAAGACGGGGT CGCACATACCGTCTGTACTACCGCATGGTTTTTCTATCCCGCAAGTAAAATCACTCCGTT ACTCTACTGTTGTAAGATTTGTGATGTCTCCTAGAGACTTATGCTTTATATTTTGTCGTG CCGAAGTTGTTGTACGCATGCTATTTCCATCCGTGTAAATGGTTGGTAAGCAGTGCGAGA GCTACTGCTGTGATTTGATGACTTCTATGTATTTTGCCAGTGTTGTCCTGAACCGGCCGT TCGTCGTAAATGTGAGGGTTGCAAGACAATTATTTACCTGATGAACTTTGCTTCCGTACA CCCTCCTAGAAAAGTTTACAGATTTCGATGTAGGTTAGAAGTTACTGCACTTTAATTATT AAATAGAAAAAAG
Protein Sequence ( aa)
>BART1_0-u19417.011 150831_barley_pseudomolecules