- Transcript BART1_0-u53703.124
- Transcript IDBART1_0-u53703.124
- Gene IDBART1_0-u53703
Barley RTD
Exon Structure of BART1_0-u53703.124
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 385865757 | 385865016 | - |
| chr7H | 2 | 385865991 | 385865930 | - |
| chr7H | 3 | 385866338 | 385866227 | - |
| chr7H | 4 | 385866611 | 385866409 | - |
| chr7H | 5 | 385867084 | 385867000 | - |
| chr7H | 6 | 385867226 | 385867200 | - |
| chr7H | 7 | 385867533 | 385867389 | - |
| chr7H | 8 | 385872193 | 385871179 | - |
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 | 1.01602 | 20.1502 | 13.1591 |
| morex | ETI | 147.031 | 133.386 | 55.3203 |
| morex | LEA | 133.544 | 155.617 | 130.544 |
| morex | EPI | 2.22674 | 3.94396 | 1.71873 |
| morex | ROO | 9.16697 | 26.0588 | 8.7084 |
| morex | ROO2 | 11.8761 | 15.6208 | 11.2423 |
| morex | NOD | 58.7242 | 90.6135 | 94.2785 |
| morex | RAC | 2.34572 | 1.55416 | 1.5251 |
| morex | INF1 | 56.0172 | 44.6914 | 41.8092 |
| morex | INF2 | 123.172 | 85.22 | 85.2379 |
| morex | CAR5 | 60.4963 | 23.4081 | 15.2532 |
| morex | CAR15 | 2.63793 | 2.26418 | 2.95181 |
| morex | LEM | 213.198 | 158.485 | 23.3935 |
| morex | LOD | 1.67915 | 1.34533 | 37.4223 |
| morex | PAL | 1.37565 | 1.72464 | 2.12147 |
| morex | SEN | 33.9211 | 26.4536 | 18.3973 |
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-36 | 149 | 68/72 (94%) | protein|MYB family transcription factor, putative, expressed |
| TAIR PP10 | AT1G01060 @ ARAPORT AT1G01060.4 @ TAIR |
+3 | 9e-33 | 135 | 60/72 (83%) | Symbols: LHY, LHY1 | Homeodomain-like superfamily protein | chr1:33992-37061 REVERSE LENGTH=644 |
| BRACH PP3 | Bradi3g16515.1.p | +3 | 7e-38 | 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 (2391 bp)
>BART1_0-u53703.124 2391 150831_barley_pseudomolecules GCGGGCGACGTGGCCACCGGGGTCAGCTTGCTTGCTGCTCGCCCGAGGTAACCTAGAACT AAGAACCATACAAGTTTCCAGAAATTCGTGCTTCCACTGGACGACGCGATTGATATATAC GCTCCCCTCGCAAGTCCGTTCCTAGGTGTGCTAGTTTGTCGACTGAAAACTGTGCAGCAA ATGAGCCCACGCTTTTTTTTTTCTGTGCCTGGTCGGTCTCTGTGGTTGCAGTGTTTGATT CCCGTTGCTCTGCTCCAATGATCATGGTGCACAAGCTCAGAATTCTGAGCGCTTCAACTG CATCCTTTTTCTTGCTCTAGTTAGTCCTGTCCATTTTACTGTGGCTAGGAATAAAATTAA TAGTGATTCTATGGTCCAACTTCTTAGAAAACTGTATGGTCGACTAGTAAACTTAGGTAC GTGTTTTTTTATCTTGCTTTTTTAGCTTTCACGGGTTTGAGGTGTGCTTTTATCAGATCT CTGATCTAGTATGGTGTTGTTTGTGCTCTGAAGTTGTTTAAAAAGAACGTGTGTAAGTTA GGCTTCTGAGTTTGCTATGCAGGGAGAGAACAGCTTATTTTTTTTATAAGCAGGTGAGTT AAGTTAATTTTGGATTTGCTATGCTGAAAAGAGAGCAGCTTGATCTAGTTTAACTAAGCA GGTGAAGTAATTTGACTAAAATAGATGCTATAGTGAATCGTGCTAAGAAGAAAATATATT TTTTATCTGCTATCAAACATTCATGTTTTTTTTTGGTTGTTGTTATGTCAATATATTTGC TATGATAAAATATCGGGCTGGCTTAAATTCTACTGTTTGTTTCGGAAAGTTCAGCAATCC TAAAGCAACATATGCATATTCAGGTATGTTGCCAAAAAAATATATGTTTCTATTAGTATT AGTTACTCGTTTTGCTTCCTAGTAAGCTCATAGATATGTTTGCAGGCATACTATGTTGTC CTTAAATAACGTGGTTCAGGTTGTGGGAGATAAACTCATGGATGCTCCTTCAAAGGTGTA GGAAGTGTTAAGGGGATACATAATCGGTTTTGAGCTGCGAGGCCCTGCATTTCTTCTGCC TGCTGTTTGATTCACGGCCCACTCTTTTCCTTCTATCCATTCAAGCAAAGTACTGGAATT TCTGAGCCCAATTTATTCAGGTCATGGGATTTGTTTGTCCTTAGCAGAGTTGAAGATAAA GAGAGGAAGGCTAAACTCTGCTGATCCGGTTCATGCGAGCAATGAGCCAACTGCAGTAGA GGTTTACAGTAGAGAGGTTTAGGGGGAGGTATGAGATACTACTCGCGTCAGGTCCAGCGT TTGGCTGGAGACACAGAAGGAGGAGTGCTGTTGTTTGTAGACGCCCTCAACTCCAAGTAA CAAAGCGACCAGTTGTCAGCACTTCCTTTTGTTTTCGCATTTCCCTGGAATTGGAGATGG AGATAAATTCTTCGGGTGAGGAAACGGTGATAAAGGTGCGAAAGCCGTACACAATAACAA AACAGCGGGAGCGGTGGACTGAGGCAGAGCACAAACGGTTCCTTGAAGCCCTCAAACTGT ATGGCAGAGCTTGGCAGCGCATAGAAGAGCATGTTGGGACAAAGACGGCCGTGCAAATCA GAAGCCATGCTCAGAAGTTCTTCACAAAGTTTGTTCTGCAGTGCTGAGCATGATGAAAGA TTCGTTTCCTTTGAATATCATGAGAACCATGCTTTATCTAATTGTTGCCCTGCTGATTGA TTAAAAGATCAAATTAAAGCATGTTAAAATGGATGAAACATGCTAGAAAGTCTTTGCTGA TTGTAAGCAATGAGTAATGTTGCAGAGAAGATGATGTTGAACAACTCTGATTCTCTCATT GATTCATTTTACATATCCATGCTGTTATTGAACATACATATGACTAAGAAAACATTATGG TACTAGTTAAATTTACATAGAGAGTCAATATAATACATAATGTGAAATAGGATATCTGAA TGCACTCAAGTGAACTACAGGAAATTCCTTAGGAATTGTATGGTAAATATGCTAACATTT GTTGCATTTCATTATAGCCCCCATCAACGTAGGTAAACACTTTATCTAACATGTTTCACT ATCAACATTGTGTAAATGAGTCCATTTCATTTTCTAAATCATGATATTTCTTCCGCAGAA GTACACAATGGCATGAACAAAATTTATCTTCTTTCTCCCCTTTTTGTCCTTGCTCTCTTC TCTGCTTTCTGTTCTTTGCTGCTTGTCCTATTTTTTTAGGGGCTGCATACAGCCACATGG TGGAGGCTACATTGCCAATTTGCCATCATGTTGTAACATGCAACAGACTGTTGCCTTGTT AGGATTGCAGCCTCATCCTCTCAGAGGTTTCTTTGCCAGACCCATGGAGGA
Protein Sequence (106 aa)
>BART1_0-u53703.124 106 150831_barley_pseudomolecules MASDLHGRLCPNMLFYALPSSAIQFEGFKEPFVLCLSPPLPLFCYCVRLSHLYHRFLTRR IYLHLQFQGNAKTKGSADNWSLCYLELRASTNNSTPPSVSPAKRWT