- Transcript BART1_0-u19417.009
- Transcript IDBART1_0-u19417.009
- Gene IDBART1_0-u19417
Barley RTD
Exon Structure of BART1_0-u19417.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 156626357 | 156625889 | - |
| chr3H | 2 | 156627286 | 156627201 | - |
| chr3H | 3 | 156628029 | 156627930 | - |
| chr3H | 4 | 156628966 | 156628728 | - |
| chr3H | 5 | 156629829 | 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 | 0 | 0 |
| morex | ETI | 0 | 0.666228 | 0 |
| morex | LEA | 0 | 0 | 0.333808 |
| morex | EPI | 0 | 0 | 0.627327 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0.481747 |
| morex | RAC | 0 | 0.704583 | 0 |
| morex | INF1 | 0 | 0 | 0.242638 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 1.12403 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 1.86862 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g14180.1 | +2 | 5e-98 | 293 | 168/246 (68%) | protein|OsIAA17 - Auxin-responsive Aux/IAA gene family member, expressed |
| TAIR PP10 | AT4G29080 @ ARAPORT AT4G29080.1 @ TAIR |
+2 | 3e-58 | 191 | 129/278 (46%) | Symbols: PAP2, IAA27 | phytochrome-associated protein 2 | chr4:14323665-14325213 REVERSE LENGTH=305 |
| BRACH PP3 | Bradi2g07770.1.p | +2 | 1e-129 | 372 | 206/236 (87%) | 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 (1137 bp)
>BART1_0-u19417.009 1137 150831_barley_pseudomolecules ccgCGCGGACGACGACCTGAAAGGCACCGAGCTCCGCCTCGGACTTCCCGGCTGCGAGTC GCCGGACCGCCGCCCGGTCGCCGCCACCACCACACTGGAGCTTCTGCCCGCCAAGGGCGC CAAGCGAGGGTTCTCGGACGAGGTCCTGCCGCCTGCGCCGTCTGCCGCCGGCGGGAAAGG CAAGGAGACGTCCGGGGATGAGAAGGACAAGAAGGTCGCCGCACCGCCGCAGCCTGCTGC CAAGGCTCAGGTGGTGGGATGGCCACCAATCCGCAGCTACCGCAAGAACACGATGGCAAC CACCACCAACCAGCTGAAGAGCAGCAAGGAGGATTCTGACGCGAAGCAGGGGCAAGAGTT TCTGTATGTCAAAGTCAGCATGGATGGCGCGCCTTACCTGAGGAAGGTTGACCTCAAGAC ATACAAGAACTATAAGGACCTGTCTCTGGGGCTAGAGAAAATGTTCATTGGCTTCAGCAC CGGTAAAGATGGTGTATCTGAGAACAGAAAGGATGGTGAATACGTGCTGACCTACGAAGA CAAGGACGGAGACTGGATGCTGGTTGGTGACGTCCCATGGGAGATGTTCACCGAGTCTTG CCGAAGGCTGAGGGTCATGAAAGGTTCAGATGCAGTTGGACTTGGTATGTCCAAAAGTGT TGCGATTACAGTTCCAAGGGCAGGGGATAAGTCCAAGAATAAGAACTAAAGCGGTTGCTG CCCACAGTTTGAAGACGGGGTCGCACATACCGTCTGTACTACCGCATGGTTTTTCTATCC CGCAAGTAAAATCACTCCGTTACTCTACTGTTGTAAGATTTGTGATGTCTCCTAGAGACT TATGCTTTATATTTTGTCGTGCCGAAGTTGTTGTACGCATGCTATTTCCATCCGTGTAAA TGGTTGGTAAGCAGTGCGAGAGCTACTGCTGTGATTTGATGACTTCTATGTATTTTGCCA GTGTTGTCCTGAACCGGCCGTTCGTCGTAAATGTGAGGGTTGCAAGACAATTATTTACCT GATGAACTTTGCTTCCGTACACCCTCCTAGAAAAGTTTACAGATTTCGATGTAGGTTAGA AGTTACTGCACTTTAATTATTAAATAGAAAAAAGGGCAACATAGTCTTTCGTATCCA
Protein Sequence (235 aa)
>BART1_0-u19417.009 235 150831_barley_pseudomolecules RADDDLKGTELRLGLPGCESPDRRPVAATTTLELLPAKGAKRGFSDEVLPPAPSAAGGKG KETSGDEKDKKVAAPPQPAAKAQVVGWPPIRSYRKNTMATTTNQLKSSKEDSDAKQGQEF LYVKVSMDGAPYLRKVDLKTYKNYKDLSLGLEKMFIGFSTGKDGVSENRKDGEYVLTYED KDGDWMLVGDVPWEMFTESCRRLRVMKGSDAVGLGMSKSVAITVPRAGDKSKNKN