- Transcript BART1_0-u19417.016
- Transcript IDBART1_0-u19417.016
- Gene IDBART1_0-u19417
Barley RTD
Exon Structure of BART1_0-u19417.016
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 156627286 | 156626812 | - |
| chr3H | 2 | 156628029 | 156627930 | - |
| chr3H | 3 | 156629026 | 156628728 | - |
| chr3H | 4 | 156629827 | 156629587 | - |
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 | 0.236488 | 1.28963 | 0 |
| morex | ETI | 1.49179 | 3.0184 | 6.09187 |
| morex | LEA | 1.9149 | 0.223574 | 0.342577 |
| morex | EPI | 2.20983 | 1.26647 | 1.32752 |
| morex | ROO | 0 | 0.244422 | 0 |
| morex | ROO2 | 0 | 0.725997 | 1.08023 |
| morex | NOD | 0.270419 | 1.36079 | 0.918455 |
| morex | RAC | 2.2017 | 1.59398 | 1.75474 |
| morex | INF1 | 0.536061 | 0.586237 | 0.832704 |
| morex | INF2 | 1.46264 | 1.35217 | 0 |
| morex | CAR5 | 0.365827 | 0 | 2.55491 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.140617 | 0 | 0 |
| morex | LOD | 0 | 0.11117 | 0 |
| morex | PAL | 0 | 0.26232 | 0 |
| morex | SEN | 0.173719 | 0.11923 | 0.357815 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g14180.1 | +3 | 3e-95 | 285 | 160/233 (69%) | protein|OsIAA17 - Auxin-responsive Aux/IAA gene family member, expressed |
| TAIR PP10 | AT4G29080 @ ARAPORT AT4G29080.1 @ TAIR |
+3 | 9e-64 | 206 | 125/267 (47%) | Symbols: PAP2, IAA27 | phytochrome-associated protein 2 | chr4:14323665-14325213 REVERSE LENGTH=305 |
| BRACH PP3 | Bradi2g07770.1.p | +3 | 6e-122 | 352 | 187/233 (80%) | pacid=32771633 transcript=Bradi2g07770.1 locus=Bradi2g07770 ID=Bradi2g07770.1.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
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grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (1115 bp)
>BART1_0-u19417.016 1115 150831_barley_pseudomolecules gCGCGGACGACGACCTGAAAGGCACCGAGCTCCGCCTCGGACTTCCCGGCTGCGAGTCGC CGGACCGCCGCCCGGTCGCCGCCACCACCACACTGGAGCTTCTGCCCGCCAAGGGCGCCA AGCGAGGGTTCTCGGACGAGGTCCTGCCGCCTGCGCCGTCTGCCGCCGGCGGGAAAGGCA AGGAGACGTCCGGGGATGAGAAGGACAAGAAGGTCGCCGCACCGCCGCAGCCTGCTGCCA ACCGAACGAAATGCTGGGTCGGCTCCATTGCCGGTTCTTACTCTCAATTACCGATGCGCA GGGCTCAGGTGGTGGGATGGCCACCAATCCGCAGCTACCGCAAGAACACGATGGCAACCA CCACCAACCAGCTGAAGAGCAGCAAGGAGGATTCTGACGCGAAGCAGGGGCAAGAGTTTC TGTATGTCAAAGTCAGCATGGATGGCGCGCCTTACCTGAGGAAGGTTGACCTCAAGACAT ACAAGAACTATAAGGACCTGTCTCTGGGGCTAGAGAAAATGTTCATTGGCTTCAGCACCG GTAAAGATGGTGTATCTGAGAACAGAAAGGATGGTGAATACGTGCTGACCTACGAAGACA AGGACGGAGACTGGATGCTGGTTGGTGACGTCCCATGGGAGATGTTCACCGAGTCTTGCC GAAGGCTGAGGGTCATGAAAGGTTCAGATGCAGTTGGACTTGGTATGTCCAAAAGTGTTG CGATTAGTAATGCTTTTTTGTTTTAATTTCACTGATGGCATGCCGTGCTTCCGCAGTTAT TTTATTTTACCAATTGTTTTGCATCGTGTTACTGCTTTACTGTTCAAGCTGTTTCCCAGG CTTGCTTAACTATTTGAACTGCACTTGAGCGGGAAAGCAGTTTATACTCTTGAAAAGACT CGTTGTACTTAGAAGCTTGTTTAATTGGAGCTTAAATATCTTTAAGCACCACAACATTAA ATTGTGAATGTTAATTCACTTTTGTTTCTTTAATTAGAATATAGCCCCCATTCCAACTCC CTGCTGTACTCTAGAGACGGGTAACAAGTCTCTAGAGAATCACAATTGTTTCCGTAATGC CATTTGAAGAGGAAAATGTTGTGCAGGTAGTTATA
Protein Sequence (247 aa)
>BART1_0-u19417.016 247 150831_barley_pseudomolecules ADDDLKGTELRLGLPGCESPDRRPVAATTTLELLPAKGAKRGFSDEVLPPAPSAAGGKGK ETSGDEKDKKVAAPPQPAANRTKCWVGSIAGSYSQLPMRRAQVVGWPPIRSYRKNTMATT TNQLKSSKEDSDAKQGQEFLYVKVSMDGAPYLRKVDLKTYKNYKDLSLGLEKMFIGFSTG KDGVSENRKDGEYVLTYEDKDGDWMLVGDVPWEMFTESCRRLRVMKGSDAVGLGMSKSVA ISNAFLF