- Transcript BART1_0-u53703.121
- Transcript IDBART1_0-u53703.121
- Gene IDBART1_0-u53703
Barley RTD
Exon Structure of BART1_0-u53703.121
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 385865757 | 385864870 | - |
| chr7H | 2 | 385865991 | 385865930 | - |
| chr7H | 3 | 385866338 | 385866227 | - |
| chr7H | 4 | 385866611 | 385866409 | - |
| chr7H | 5 | 385867084 | 385867000 | - |
| chr7H | 6 | 385867226 | 385867200 | - |
| chr7H | 7 | 385867543 | 385867389 | - |
| chr7H | 8 | 385872217 | 385872147 | - |
| chr7H | 9 | 385872382 | 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 | 0.114155 | 0.084037 |
| morex | ETI | 0 | 0.176239 | 0.100219 |
| morex | LEA | 1.74774 | 0.8487 | 0.89094 |
| morex | EPI | 0 | 0.0693094 | 0.0593781 |
| morex | ROO | 0.167989 | 1.01729 | 0.344531 |
| morex | ROO2 | 0.232382 | 0 | 0.151831 |
| morex | NOD | 1.95533 | 0.753332 | 1.21338 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0.409186 | 0.567514 | 0.0643487 |
| morex | INF2 | 0.442408 | 0.949957 | 0.769115 |
| morex | CAR5 | 0.0256611 | 0.121801 | 0.100768 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.418104 | 0 | 0.111072 |
| morex | LOD | 0 | 0 | 0.200489 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0.0662788 | 0.315377 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g06110.2 | +3 | 1e-37 | 149 | 68/72 (94%) | protein|MYB family transcription factor, putative, expressed |
| TAIR PP10 | AT1G01060 @ ARAPORT AT1G01060.4 @ TAIR |
+3 | 2e-33 | 135 | 60/72 (83%) | Symbols: LHY, LHY1 | Homeodomain-like superfamily protein | chr1:33992-37061 REVERSE LENGTH=644 |
| BRACH PP3 | Bradi3g16515.1.p | +3 | 8e-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 (1673 bp)
>BART1_0-u53703.121 1673 150831_barley_pseudomolecules TTCGTCCGGAAGCATCGGCCGGTGGCGGCAGAGAGAGGAGCTCCTGCGCCCGGCGCGGCG GTCGGTTGAGGCCGCCGCGCGGAGGGCGGGCTGGGCGGGCGACGTGGCCACCGGGGTCAG CTTGCTTGCTGCTCGCCCGAGTAACTTTCAGGTGTAGGAAGTGTTAAGGGGATACATAAT CGGTTTTGAGCTGCGAGGCCCTGCATTTCTTCTGCCTGCTGTTTGATTCACGGCCCACTC TTTTCCTTCTATCCATTCAAGCAAAGTACTGGAATTTCTGAGCCCAATTTATTCAGGTCA TGGGATTTGTTTGTCCTTAGCAGAGTTGAAGATAAAGAGAGGAAGGCTAAACTCTGCTGA TCCGGTTCATGCGAGCAATGAGCCAACTGCAGTAGAGGTTTACAGTAGAGAGGTTTAGGG GGAGGTATGAGATACTACTCGCGTCAGGTCCAGCGTTTGGCTGGAGACACAGAAGGAGGA GTGCTGTTGTTTGTAGACGCCCTCAACTCCAAGTAACAAAGCGACCAGTTGTCAGCACTT CCTTTTGTTTTCGCATTTCCCTGGAATTGGAGATGGAGATAAATTCTTCGGGTGAGGAAA CGGTGATAAAGGTGCGAAAGCCGTACACAATAACAAAACAGCGGGAGCGGTGGACTGAGG CAGAGCACAAACGGTTCCTTGAAGCCCTCAAACTGTATGGCAGAGCTTGGCAGCGCATAG AAGAGCATGTTGGGACAAAGACGGCCGTGCAAATCAGAAGCCATGCTCAGAAGTTCTTCA CAAAGTTTGTTCTGCAGTGCTGAGCATGATGAAAGATTCGTTTCCTTTGAATATCATGAG AACCATGCTTTATCTAATTGTTGCCCTGCTGATTGATTAAAAGATCAAATTAAAGCATGT TAAAATGGATGAAACATGCTAGAAAGTCTTTGCTGATTGTAAGCAATGAGTAATGTTGCA GAGAAGATGATGTTGAACAACTCTGATTCTCTCATTGATTCATTTTACATATCCATGCTG TTATTGAACATACATATGACTAAGAAAACATTATGGTACTAGTTAAATTTACATAGAGAG TCAATATAATACATAATGTGAAATAGGATATCTGAATGCACTCAAGTGAACTACAGGAAA TTCCTTAGGAATTGTATGGTAAATATGCTAACATTTGTTGCATTTCATTATAGCCCCCAT CAACGTAGGTAAACACTTTATCTAACATGTTTCACTATCAACATTGTGTAAATGAGTCCA TTTCATTTTCTAAATCATGATATTTCTTCCGCAGAAGTACACAATGGCATGAACAAAATT TATCTTCTTTCTCCCCTTTTTGTCCTTGCTCTCTTCTCTGCTTTCTGTTCTTTGCTGCTT GTCCTATTTTTTTAGGGGCTGCATACAGCCACATGGTGGAGGCTACATTGCCAATTTGCC ATCATGTTGTAACATGCAACAGACTGTTGCCTTGTTAGGATTGCAGCCTCATCCTCTCAG AGGTTTCTTTGCCAGACCCATGGAGGAGGGAGGAGGCTAAGGCTAGTCTTTTCTTCCCTT GTTTTGACCACGATGGTTTCTGGGTCCTCAAATTTCATACTTTGCTCACCAGCCATTACC AATCTGACCTTGCTCAATATAGCAGGTTGGTTGTTGGGATGGACAGCTCTACC
Protein Sequence (106 aa)
>BART1_0-u53703.121 106 150831_barley_pseudomolecules MASDLHGRLCPNMLFYALPSSAIQFEGFKEPFVLCLSPPLPLFCYCVRLSHLYHRFLTRR IYLHLQFQGNAKTKGSADNWSLCYLELRASTNNSTPPSVSPAKRWT