- Transcript BART1_0-u17640.003
- Transcript IDBART1_0-u17640.003
- Gene IDBART1_0-u17640
Barley RTD
Exon Structure of BART1_0-u17640.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 18479150 | 18478520 | - |
| chr3H | 2 | 18479916 | 18479746 | - |
| chr3H | 3 | 18480277 | 18480169 | - |
| chr3H | 4 | 18481341 | 18481201 | - |
| chr3H | 5 | 18481920 | 18481434 | - |
| chr3H | 6 | 18482405 | 18482244 | - |
| chr3H | 7 | 18483649 | 18483139 | - |
| chr3H | 8 | 18484106 | 18483774 | - |
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 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0.00225639 |
| morex | ROO | 0.124132 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0.0282952 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0.00000282438 | 0.400821 | 0.418422 |
| morex | INF2 | 0.0145493 | 0.103308 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0.230489 | 0.957844 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0.693535 | 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_Os03g19480.1 | +3 | 3e-51 | 195 | 112/219 (51%) | protein|SET domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g64460.4.p | +3 | 6e-58 | 213 | 122/223 (55%) | pacid=32796250 transcript=Bradi1g64460.4 locus=Bradi1g64460 ID=Bradi1g64460.4.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 (2545 bp)
>BART1_0-u17640.003 2545 150831_barley_pseudomolecules CCCACACATCGCTACCCTATGCCGCCGTCATCATCGCCGAGGGCATCCCCAGTCCCCGAC CGCGGCCACCCGATCCCATGCCTGACCTTGGCGGCGCCGACACGTCCCCGATCGCGGTCT CCCCGCTCCCTCCCGATCGCGGCAGGACCGCCTCGTCCCCAACCGCGGCCGCGTCACCCT GTCAAAGAACGGTGACGCCTCACCCCGTCCCCGACCACGGCCGCCTCGCGTCGAGGAGCA GTAGGTGGTCGGCCTACGGCGGCTCGCACCATCGCCATGGTGTCGTCCTCCTCCAAAGCC TCCTCCTCCTCCTCCCACCGGGATGGCCCCATGATCAGTGGCTCGACGTGGGCACCTCCG CGCTCATGGCGCTCCACGGGAAGCTGACGCAGATGAAGCGCCAAATCCAGCAGGCCTGCC TCACCTCCATGAGGATAAAGCACCGGCATCATCTACGGAATTCCTTGTGAATTGTGAGTT TCGGGTCACTCAATGTGATCCTCCTGTTTTGAGCTTGTGTGCCTATGTTGTGTTTTGACA GGAGAAGCTGGAGGCAAACAGGAGGGCGTTGCAGAAGCACACCTGCGGCGTCGAGGGGCT CGGAGAGCAGCAATGTGTTGTCGCAGCTCGCCTCGGACGGCCAGTCCAGGATCATTGGGT GGAACCTGGCGAGAGGGTCGGGGGAGAGGAAGGTTGTGCATGTGCAGGAGGAGAACCTGT CGGCCGACGGGATGCTCGTGCTCTGCAGCTCCGGCAACGGCGCACAAACCATCGTTTTGC AGCTTATGAAGCTGTCGTCGGTTGATAAGATTCCTCCCTACACCACGTGGATCTTCCTGG ACAAAAACCAAAGAATGGCCGATGATCAATCAATTGCTGGTAGGAGGAGAATTTACTATG ATTCAGCTCGCAACGAGGCTCTAATCTGGAGTGAAAGTGATGAACAAATTGCACAACCTG AGGAAGAGAAGCATGTTTTCACTGAAGCAGAAGATCAGCTAATATGGTTCAACTTGATAT TATGCCAGGCGAGAGACACATAGAGTTAGGGAACGGCCGAGCTCGCCTCCGAGGAAGAGA GATGATTGTCGTCCCTTGGTCGAGGATGGAGCCGACACGCTGTGCCGCCACAGCTATTGA GGCTATCCGTCAAGTGTGGCCGGATTTGGGCATCTGGTGTTGTCACCTAGGCTGGTGTTT CTCCTCTATGCACGCTTGCTTTATCGTTGCCGGATGAATGCACTCGAGGAGGCGGCAGTG GATCCCTAGGTTTTTCGGTTTTTGAAAGAGAATTTTGTTTTTGCGATTTTCTACATGCGT TCCATCAGCAATTGAGAATCATGTGCAAGCCGTGAGATTTGGGAACCACTAGATTGTGAC AGTGCAGGAAGTAAAATATGCGTCGGAGACGGCTATGAAGGCATGAACATGAACCAGAGG GCCGTGAGGGACATCAAGAATATGATCAGCATGTTTGTGAGATGTTCTTCCATGTTCAGA TTTTCACATGACTGATGCCCAGAGCTAGCAGGTCTCAGGACTGAGCTCGTGCCCATGCGG CAGAGCAAGGGATACTTATGGAACATATACGTTGTGTCAATGCATCGTTAGGCGAACATC TTTCTATTTTGCAGATGGTTATACGTTTGAAACATCAACTGGCCTGTCAAGAATGTGAGA GGCCCTCGGGAGTGAAAAAACTATCGTTTGAGATAGTTGTTGGATTGAACAGCCGGAGCG TGGTGGCAAGGCAGCTAGAGACAAAAAGGGAATTGGTGAAAAAGCAACTCGCACATCTAT AGGTCTCTTGGAATCTCACATTTATCAATTTATGGAAAGGGGCATCCATTGGCATTCTAA TAATTTTGTTAGAGAACGGCATAGACTGAGGCAGCCGATGTGAACGAACACCGGGTACCC ATAAACAAGAGGAAAAAACAACACATGTACAACGACAACAAGGTTAGCTAAGAAAAAATC AGGCTGCCGGTGTCTATTAACCCAGGGCATGATCTTGGGACGTCCGGCTTCTTTCCAAAG CGAGATCTCATCCAACATCAAGTTGAAGACACTCCAAATGGTGGAACTTAAGTTGCGGAC AATTCTGGTGTTTCGCTCCTTCCACGTGAACCACCAGATAGCCTGCACTAAGTAGTTCCA TCCCTTCTTCTTCGGGGCAGCAAGACTGGCAGCGGAACTTTCCACTCGATCCGAGAGGCG GGTGGTGTCGCTGGAGGGGCCTAAAGTAGCCGAGGTTGCAGGTAGCAGCATGAGCCGCCA AATAGCCTGAAAAATAGGCATTGAGTGAGCAAAAGAATGTTGTCTTCATCCGTTGAGCGA CTCATGTAGTACACGGGATCAGGGGAGCAGTCCCTTTTCTGCACATTGTCCCCGGTATAT GTTGGCTTGGCCTTCTACTGCCCTTTTAGTTATGTTACTGTCTAGAAATATTTGTAGTAG TTTTAAGATTTGAAAGCTCATTTTTATTAACTTGCTGTGTATGTGATTGTGAACTACTTC CATATTTTAGAAATATTATAACGGA
Protein Sequence (172 aa)
>BART1_0-u17640.003 172 150831_barley_pseudomolecules MLCFDRRSWRQTGGRCRSTPAASRGSESSNVLSQLASDGQSRIIGWNLARGSGERKVVHV QEENLSADGMLVLCSSGNGAQTIVLQLMKLSSVDKIPPYTTWIFLDKNQRMADDQSIAGR RRIYYDSARNEALIWSESDEQIAQPEEEKHVFTEAEDQLIWFNLILCQARDT