- Transcript BART1_0-u19417.002
- Transcript IDBART1_0-u19417.002
- Gene IDBART1_0-u19417
Barley RTD
Exon Structure of BART1_0-u19417.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 156626354 | 156625511 | - |
| chr3H | 2 | 156627286 | 156627225 | - |
| chr3H | 3 | 156628029 | 156627930 | - |
| chr3H | 4 | 156628966 | 156628728 | - |
| chr3H | 5 | 156629831 | 156629228 | - |
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 | 0.221465 | 0 | 0.154209 |
| morex | ETI | 0 | 0.141209 | 0.064484 |
| morex | LEA | 0.325392 | 0 | 0 |
| morex | EPI | 0.171283 | 0.202703 | 0.144644 |
| morex | ROO | 0 | 0.116993 | 0 |
| morex | ROO2 | 0.371934 | 0 | 0.0654476 |
| morex | NOD | 0 | 0.21508 | 0.0992023 |
| morex | RAC | 0.65921 | 0.226147 | 0.0790888 |
| morex | INF1 | 0 | 0.491144 | 0.123167 |
| morex | INF2 | 0.277337 | 0 | 0.152424 |
| morex | CAR5 | 0.573871 | 0.330368 | 0.293237 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0.0678326 |
| morex | LOD | 0 | 0.068799 | 0 |
| morex | PAL | 0 | 0 | 0.0736579 |
| morex | SEN | 0 | 0.16613 | 0.492799 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g14180.1 | +3 | 1e-83 | 263 | 127/144 (88%) | protein|OsIAA17 - Auxin-responsive Aux/IAA gene family member, expressed |
| TAIR PP10 | AT4G29080 @ ARAPORT AT4G29080.1 @ TAIR |
+3 | 1e-54 | 188 | 93/165 (56%) | Symbols: PAP2, IAA27 | phytochrome-associated protein 2 | chr4:14323665-14325213 REVERSE LENGTH=305 |
| BRACH PP3 | Bradi2g07770.1.p | +3 | 3e-91 | 282 | 136/144 (94%) | 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 (1849 bp)
>BART1_0-u19417.002 1849 150831_barley_pseudomolecules NNccgCGCGGACGACGACCTGAAAGGCACCGAGCTCCGCCTCGGACTTCCCGGCTGCGAG TCGCCGGACCGCCGCCCGGTCGCCGCCACCACCACACTGGAGCTTCTGCCCGCCAAGGGC GCCAAGCGAGGGTTCTCGGACGAGGTCCTGCCGCCTGCGCCGTCTGCCGCCGGCGGGAAA GGCAAGGAGACGTCCGGGGATGAGAAGGACAAGAAGGTCGCCGCACCGCCGCAGCCTGCT GCCAAGTAGGTGCCTCTCTCCCCTGCGAATTTTGTGGATTTGGCATTTCCATGTGTACTG CCGAGTTTTGTGGGATGCAGGGGGTTGGAGCTCGATTGGGTGGAGGAAGTGATGCGTAAA AATTTGGAAAAATATGTTGTGGGTTAGTACGAGACGGTGATTTAGTTTGCTTGGAACATC CGAAAAGCTATAATTTGGTAGCTGTTGCATGCATTTGAGGGAATTCCGTCTGTCGAGGCG GAAAAACTCTCTTCTTTGGGTGCGAATTTGGTGCCGAAAGGCCCATTTTGCGGATCTTCC GTTGCTGTTTGCGGGCGCGCGTTTTGCACTCGGCTTGATCTATTAGGTTCAGGAGCTTCG AGAGGGCTCAGGTGGTGGGATGGCCACCAATCCGCAGCTACCGCAAGAACACGATGGCAA CCACCACCAACCAGCTGAAGAGCAGCAAGGAGGATTCTGACGCGAAGCAGGGGCAAGAGT TTCTGTATGTCAAAGTCAGCATGGATGGCGCGCCTTACCTGAGGAAGGTTGACCTCAAGA CATACAAGAACTATAAGGACCTGTCTCTGGGGCTAGAGAAAATGTTCATTGGCTTCAGCA CCGGTAAAGATGGTGTATCTGAGAACAGAAAGGATGGTGAATACGTGCTGACCTACGAAG ACAAGGACGGAGACTGGATGCTGGTTGGTGACGTCCCATGGGAGATGTTCACCGAGTCTT GCCGAAGGCTGAGGGTCATGAAAGGTTCAGATGCAGTTGGACTTGTTCCAAGGGCAGGGG ATAAGTCCAAGAATAAGAACTAAAGCGGTTGCTGCCCACAGTTTGAAGACGGGGTCGCAC ATACCGTCTGTACTACCGCATGGTTTTTCTATCCCGCAAGTAAAATCACTCCGTTACTCT ACTGTTGTAAGATTTGTGATGTCTCCTAGAGACTTATGCTTTATATTTTGTCGTGCCGAA GTTGTTGTACGCATGCTATTTCCATCCGTGTAAATGGTTGGTAAGCAGTGCGAGAGCTAC TGCTGTGATTTGATGACTTCTATGTATTTTGCCAGTGTTGTCCTGAACCGGCCGTTCGTC GTAAATGTGAGGGTTGCAAGACAATTATTTACCTGATGAACTTTGCTTCCGTACACCCTC CTAGAAAAGTTTACAGATTTCGATGTAGGTTAGAAGTTACTGCACTTTAATTATTAAATA GAAAAAAGGGCAACATAGTCTTTCGTATCCAAATCAATCTATTCGGTATGTTTGATCTGC AGGCTAATATGACGACAGTCTTTTTAAGTAAATTTAGGCTGCGTTTGGATTGAGTGTAAA ATAATACAGAGGTATTTTTTTCTACACGTGTAACTTACCGGCCAATGTATAATTTCGGGC AGAAAATGAAACGACCGATCGACGCATGCATCTTTTACGGAGGTATTTCCAGCTGAAACG CTGATCCAAACAGGCCATTAAGATTCATGAAAACTTTTAAGGAGGGTGTACCGAAGCAAA ACTCCTGACTTGTTCAAAAGTTTTTCCCGTTCCATTTATTATACTGTTTGCGGGTGAGTG GGTTGTTGCTTTGTTCTCCATTTCTTCTGAAACATATGCAATTGCATGG
Protein Sequence (150 aa)
>BART1_0-u19417.002 150 150831_barley_pseudomolecules MQQLPNYSFSDVPSKLNHRLVLTHNIFFQIFTHHFLHPIELQPPASHKTRQYTWKCQIHK IRRGERHLLGSRLRRCGDLLVLLIPGRLLAFPAGGRRRRRQDLVREPSLGALGGQKLQCG GGGDRAAVRRLAAGKSEAELGAFQVVVRAX