- Transcript BART1_0-u53703.126
- Transcript IDBART1_0-u53703.126
- Gene IDBART1_0-u53703
Barley RTD
Exon Structure of BART1_0-u53703.126
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 385865757 | 385865060 | - |
| chr7H | 2 | 385865991 | 385865930 | - |
| chr7H | 3 | 385866338 | 385866227 | - |
| chr7H | 4 | 385866611 | 385866409 | - |
| chr7H | 5 | 385867084 | 385867000 | - |
| chr7H | 6 | 385867306 | 385867200 | - |
| chr7H | 7 | 385867533 | 385867389 | - |
| chr7H | 8 | 385872208 | 385872049 | - |
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 | 0.197432 | 0 |
| morex | ETI | 0.18293 | 0 | 0.0671666 |
| morex | LEA | 5.37827 | 4.20833 | 0.364425 |
| morex | EPI | 0 | 0.0570847 | 0 |
| morex | ROO | 0.229313 | 0.841892 | 0.351281 |
| morex | ROO2 | 0.225328 | 0.0507944 | 0 |
| morex | NOD | 0.455688 | 0.0551329 | 2.34759 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 1.73053 | 1.10534 | 0 |
| morex | INF2 | 0.989669 | 1.04427 | 1.0053 |
| morex | CAR5 | 0 | 0 | 0.217616 |
| morex | CAR15 | 0 | 0 | 0.189269 |
| morex | LEM | 1.0023 | 0.62854 | 0.172868 |
| morex | LOD | 0 | 0 | 0.271138 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0.131841 | 0.185142 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g06110.2 | +2 | 8e-38 | 149 | 68/72 (94%) | protein|MYB family transcription factor, putative, expressed |
| TAIR PP10 | AT1G01060 @ ARAPORT AT1G01060.4 @ TAIR |
+2 | 1e-33 | 135 | 60/72 (83%) | Symbols: LHY, LHY1 | Homeodomain-like superfamily protein | chr1:33992-37061 REVERSE LENGTH=644 |
| BRACH PP3 | Bradi3g16515.1.p | +2 | 5e-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 (1572 bp)
>BART1_0-u53703.126 1572 150831_barley_pseudomolecules CGGAGGGCGGGCTGGGCGGGCGACGTGGCCACCGGGGTCAGCTTGCTTGCTGCTCGCCCG AGGTAACCTAGAACTAAGAACCATACAAGTTTCCAGAAATTCGTGCTTCCACTGGACGAC GCGATTGATATATACGCTCCCCTCGCAAGTCCGTTCCTAGGTGTAGGAAGTGTTAAGGGG ATACATAATCGGTTTTGAGCTGCGAGGCCCTGCATTTCTTCTGCCTGCTGTTTGATTCAC GGCCCACTCTTTTCCTTCTATCCATTCAAGCAAAGTACTGGAATTTCTGAGCCCAATTTA TTCAGTTTTCATTATGAGCTGTGATTCAAAGCTGGAGGTTGATAGGACCTCAGCACTAAT AACGTGGATTTTGTTGCTCTGGCAGGTCATGGGATTTGTTTGTCCTTAGCAGAGTTGAAG ATAAAGAGAGGAAGGCTAAACTCTGCTGATCCGGTTCATGCGAGCAATGAGCCAACTGCA GTAGAGGTTTACAGTAGAGAGGTTTAGGGGGAGGTATGAGATACTACTCGCGTCAGGTCC AGCGTTTGGCTGGAGACACAGAAGGAGGAGTGCTGTTGTTTGTAGACGCCCTCAACTCCA AGTAACAAAGCGACCAGTTGTCAGCACTTCCTTTTGTTTTCGCATTTCCCTGGAATTGGA GATGGAGATAAATTCTTCGGGTGAGGAAACGGTGATAAAGGTGCGAAAGCCGTACACAAT AACAAAACAGCGGGAGCGGTGGACTGAGGCAGAGCACAAACGGTTCCTTGAAGCCCTCAA ACTGTATGGCAGAGCTTGGCAGCGCATAGAAGAGCATGTTGGGACAAAGACGGCCGTGCA AATCAGAAGCCATGCTCAGAAGTTCTTCACAAAGTTTGTTCTGCAGTGCTGAGCATGATG AAAGATTCGTTTCCTTTGAATATCATGAGAACCATGCTTTATCTAATTGTTGCCCTGCTG ATTGATTAAAAGATCAAATTAAAGCATGTTAAAATGGATGAAACATGCTAGAAAGTCTTT GCTGATTGTAAGCAATGAGTAATGTTGCAGAGAAGATGATGTTGAACAACTCTGATTCTC TCATTGATTCATTTTACATATCCATGCTGTTATTGAACATACATATGACTAAGAAAACAT TATGGTACTAGTTAAATTTACATAGAGAGTCAATATAATACATAATGTGAAATAGGATAT CTGAATGCACTCAAGTGAACTACAGGAAATTCCTTAGGAATTGTATGGTAAATATGCTAA CATTTGTTGCATTTCATTATAGCCCCCATCAACGTAGGTAAACACTTTATCTAACATGTT TCACTATCAACATTGTGTAAATGAGTCCATTTCATTTTCTAAATCATGATATTTCTTCCG CAGAAGTACACAATGGCATGAACAAAATTTATCTTCTTTCTCCCCTTTTTGTCCTTGCTC TCTTCTCTGCTTTCTGTTCTTTGCTGCTTGTCCTATTTTTTTAGGGGCTGCATACAGCCA CATGGTGGAGGCTACATTGCCAATTTGCCATCATGTTGTAACATGCAACAGACTGTTGCC TTGTTAGGATTG
Protein Sequence (106 aa)
>BART1_0-u53703.126 106 150831_barley_pseudomolecules MASDLHGRLCPNMLFYALPSSAIQFEGFKEPFVLCLSPPLPLFCYCVRLSHLYHRFLTRR IYLHLQFQGNAKTKGSADNWSLCYLELRASTNNSTPPSVSPAKRWT