- Transcript BART1_0-u53703.123
- Transcript IDBART1_0-u53703.123
- Gene IDBART1_0-u53703
Barley RTD
Exon Structure of BART1_0-u53703.123
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 385865757 | 385865010 | - |
| chr7H | 2 | 385865991 | 385865930 | - |
| chr7H | 3 | 385866338 | 385866227 | - |
| chr7H | 4 | 385866611 | 385866409 | - |
| chr7H | 5 | 385867100 | 385867000 | - |
| chr7H | 6 | 385867226 | 385867200 | - |
| chr7H | 7 | 385867543 | 385867389 | - |
| chr7H | 8 | 385872375 | 385872313 | - |
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 | 0.316519 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0.0373465 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 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_Os08g06110.2 | +1 | 5e-38 | 149 | 68/72 (94%) | protein|MYB family transcription factor, putative, expressed |
| TAIR PP10 | AT1G01060 @ ARAPORT AT1G01060.4 @ TAIR |
+1 | 7e-34 | 135 | 60/72 (83%) | Symbols: LHY, LHY1 | Homeodomain-like superfamily protein | chr1:33992-37061 REVERSE LENGTH=644 |
| BRACH PP3 | Bradi3g16515.1.p | +1 | 3e-39 | 152 | 70/72 (97%) | pacid=32817815 transcript=Bradi3g16515.1 locus=Bradi3g16515 ID=Bradi3g16515.1.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 (1471 bp)
>BART1_0-u53703.123 1471 150831_barley_pseudomolecules GGAAGCATCGGCCGGTGGCGGCAGAGAGAGGAGCTCCTGCGCCCGGCGCGGCGGTCGGTT GAGTAACTTTCAGGTGTAGGAAGTGTTAAGGGGATACATAATCGGTTTTGAGCTGCGAGG CCCTGCATTTCTTCTGCCTGCTGTTTGATTCACGGCCCACTCTTTTCCTTCTATCCATTC AAGCAAAGTACTGGAATTTCTGAGCCCAATTTATTCAGGTCATGGGATTTGTTTGTCCTT AGCAGTTTAATCTGATTCTAGAGTTGAAGATAAAGAGAGGAAGGCTAAACTCTGCTGATC CGGTTCATGCGAGCAATGAGCCAACTGCAGTAGAGGTTTACAGTAGAGAGGTTTAGGGGG AGGTATGAGATACTACTCGCGTCAGGTCCAGCGTTTGGCTGGAGACACAGAAGGAGGAGT GCTGTTGTTTGTAGACGCCCTCAACTCCAAGTAACAAAGCGACCAGTTGTCAGCACTTCC TTTTGTTTTCGCATTTCCCTGGAATTGGAGATGGAGATAAATTCTTCGGGTGAGGAAACG GTGATAAAGGTGCGAAAGCCGTACACAATAACAAAACAGCGGGAGCGGTGGACTGAGGCA GAGCACAAACGGTTCCTTGAAGCCCTCAAACTGTATGGCAGAGCTTGGCAGCGCATAGAA GAGCATGTTGGGACAAAGACGGCCGTGCAAATCAGAAGCCATGCTCAGAAGTTCTTCACA AAGTTTGTTCTGCAGTGCTGAGCATGATGAAAGATTCGTTTCCTTTGAATATCATGAGAA CCATGCTTTATCTAATTGTTGCCCTGCTGATTGATTAAAAGATCAAATTAAAGCATGTTA AAATGGATGAAACATGCTAGAAAGTCTTTGCTGATTGTAAGCAATGAGTAATGTTGCAGA GAAGATGATGTTGAACAACTCTGATTCTCTCATTGATTCATTTTACATATCCATGCTGTT ATTGAACATACATATGACTAAGAAAACATTATGGTACTAGTTAAATTTACATAGAGAGTC AATATAATACATAATGTGAAATAGGATATCTGAATGCACTCAAGTGAACTACAGGAAATT CCTTAGGAATTGTATGGTAAATATGCTAACATTTGTTGCATTTCATTATAGCCCCCATCA ACGTAGGTAAACACTTTATCTAACATGTTTCACTATCAACATTGTGTAAATGAGTCCATT TCATTTTCTAAATCATGATATTTCTTCCGCAGAAGTACACAATGGCATGAACAAAATTTA TCTTCTTTCTCCCCTTTTTGTCCTTGCTCTCTTCTCTGCTTTCTGTTCTTTGCTGCTTGT CCTATTTTTTTAGGGGCTGCATACAGCCACATGGTGGAGGCTACATTGCCAATTTGCCAT CATGTTGTAACATGCAACAGACTGTTGCCTTGTTAGGATTGCAGCCTCATCCTCTCAGAG GTTTCTTTGCCAGACCCATGGAGGAGGGAGG
Protein Sequence (106 aa)
>BART1_0-u53703.123 106 150831_barley_pseudomolecules MASDLHGRLCPNMLFYALPSSAIQFEGFKEPFVLCLSPPLPLFCYCVRLSHLYHRFLTRR IYLHLQFQGNAKTKGSADNWSLCYLELRASTNNSTPPSVSPAKRWT