- Transcript BART1_0-u37955.004
- Transcript IDBART1_0-u37955.004
- Gene IDBART1_0-u37955
Barley RTD
Exon Structure of BART1_0-u37955.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 564069900 | 564069403 | - |
| chr5H | 2 | 564070092 | 564070040 | - |
| chr5H | 3 | 564070540 | 564070357 | - |
| chr5H | 4 | 564072255 | 564070626 | - |
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 | 0.207894 | 0.962125 | 0.13227 |
| morex | ETI | 0.634609 | 0.3901 | 0.119182 |
| morex | LEA | 0.727086 | 0.204941 | 0.370338 |
| morex | EPI | 0.988015 | 0.594067 | 0.560335 |
| morex | ROO | 0.101808 | 0.557919 | 0.0639111 |
| morex | ROO2 | 0.478811 | 0.635511 | 0.491392 |
| morex | NOD | 1.02104 | 1.04779 | 0.542129 |
| morex | RAC | 0.530873 | 1.0344 | 0.592513 |
| morex | INF1 | 1.82693 | 2.4157 | 1.80781 |
| morex | INF2 | 4.53449 | 6.26041 | 5.67212 |
| morex | CAR5 | 1.47171 | 0.899306 | 1.19968 |
| morex | CAR15 | 0.721166 | 0.30471 | 0.98215 |
| morex | LEM | 0.433579 | 0.255765 | 0.611929 |
| morex | LOD | 0.898849 | 1.38583 | 0.906419 |
| morex | PAL | 1.11579 | 0.235799 | 0.844774 |
| morex | SEN | 0.329098 | 0.5609 | 0.392738 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g36140.1 | +2 | 2e-31 | 127 | 63/94 (67%) | protein|RNA recognition motif 2 domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi4g36020.1.p | +2 | 2e-44 | 162 | 79/97 (81%) | pacid=32789987 transcript=Bradi4g36020.1 locus=Bradi4g36020 ID=Bradi4g36020.1.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 (2365 bp)
>BART1_0-u37955.004 2365 150831_barley_pseudomolecules GTGCCACCTGGTGCGTGATACAGGGGGCAGGTGGTGCTCCTCCAAGTCCTCCTCGGGTCG GTCTTGCCCGGGTCCGGTCCTCCTTCCTCCTACTTTTCCCCAGCTCAAAAGAAAAATCAA GTTAGCCATGGCCGCCGCCTACACCTCGCGCCTGGGCCTGCCCCCCGCCGCGCACCCGTA CGACGACGAATCCGTGGCCTGCGCCCTAGGGCATCTCTACCCCACCAAGGATCCGTTCGC CCTGCCGGCCAGCTGCCTCCTCCCGCCGCCCGAGCTGCCGCTGGCCTTCGGGTTGCCCGC CGGCGGTCTCGCCCCCGTCTGCTGCTGCGCCGACGCCGCGGGGGCGCCCGCGTTCCCGCC CTTCCCATGGGCGAACGTGCCCTCGCCGCCAGTGCCGCCGCGTTGCGGCATCACGGAGAT CGACGAGTTCCGGGAGGTGGAGTCGGAGGATAACCTCTCCCCTTGTTCCGTCCTCACGCC CTGGAGGAGGCCGACGCCCGCCTCGGCGCTGCCTTCGCCTCCGCCCCTCGTGGTCGGGGG GAAACGGGCCTTCGACCCCACCAGCGAGAAGACTTCTCTGATGATCTGCAATATCCCCAA CGGATTCGTGTTAGCGGGCTGCTATTCTCTGCTGCCAGTGCCAGCCATTTCCCCCTCTTC TTTTTGCTGAAATACTCTGTGGATTCTTGCTATGTGCGCAGGAAGCGGAGGTTCATGGCG ATTCTGGACCAGCATTGCGTCCATGAGAACGACAATCCTGAATGGCGTGTCGTTGGGGGT GGCAAGTTCGTGAGATCGGAGTATGACTTCCTCTACATCCCAATAGACTTCAGGTAGTAC CAGCATTTGCATTTCCGGATTTGCTAATTCTCAGTTGCCTGAAAACTAATTTTAGCCTAG TTGATTCTTTGGGAGAGTAGAGAGGGAGGGAGGGAGAGAGAGAGAGCACGAAGCTCCAAG GCCTCAGTTGACTGAAAATGGAATTCAGCCTAGTCGATTCTTTGGGAGAGTAGAGCGGGA GGTCTCAGTTGCCTGAAAATGAAATTCAGGTTAGTCAATTCTTCGGGAGAGTAGAGCGGG AGAGAGAGAGAGAGATAGAGAGCAGCCCTCCAAGGCCAAGATATGAGTGACGTGGCTGGC CGCCGTGTCGCAGGTGCGGGTGGGGGGCATTTTCATTTACAATGCCGCTCGAATTAGATA GTCGTCGAGCTCGAGATGGGACGCAGCAGCTTCGCCGGCGAGTGAGGGCCTCACAGGTGA CGGGGACTGCATGATGCTGCCAGAGGAGAGGTCGGGGCTGGGGCGGAAAGAAGATCGGGC CGGGAGGAAGATGAAGCAGTAGCCGTTGCATTTCTATCCAACGTCTTGAAGAATCGGCCG CTGTTTTATAGGCGGACCCTAACATTTTACCATAGTTGTGTTATTGCGCATCTACGGCTT TTGTTTTCTCTGATCCAAAGCTTGTTTGTTGTGTTTGTCTTTGCGCAGGACGAAGTACAA CAAGGGCTATGCGTTCGTCAACATGACGACGGCGACTGCAGCGCGGCGGCTCCATGCTTT TCTCCACGGGCACCGCTGGGCGCTGGCGGGCTCTCGGAAGGTATGCGAGGTTGTGCACGC GGACATCCAGGGGGTGGATGCTTTGTCAGCGCACTTCTCCAGCTCCAAGTTCCCATGCGG TAACAAGGACTTCCTGCCAGTGCGCTTCGGCCCGCCGCGGGACGGCCTTCGGCCGACGGT GGAGCGTGTAATTGGCCGCACGGTGGTCCACCGTCCCGCTGATCAATCTGCTCACCCCAC GCCGCGTGCTGCACGTTGCACATATCTGGACCTCATGCGTTGATCATTTCAAAGGAAATA CAAGGAAAAAGAGGAGGCAAATGGAAACCTGGTGCAGTGGGGAACAAAACTGTTTGAGCT GGTGGCTACTGGCTAGTGATGTCTTTGCTTCGTCGCGAGGATGGAGGCCTACTCACCTTA GGGTAGGTGCTTAGTGTGCTTGGTTACCCAAGATGATCAAGTTAGATGGTTCTTTTGGGG CTGCAGGAGTATCTTCTAGTGTCTGTATGACTGTATCCTACCTTGGAGATGTTGGCTTCA TTTGTCTTCCCTAGGTAGCAGCAATGCTTGGTGGTTCTGCCATCCGATTTCCTTTGAGTT GTCACTAACTGTACTCATCTGCCCTGAACTTTCTTAGATTGGTTTGTGCATCTGTTCGCA TGTTAACCGTATGTTATCCGCCCGTGTATGTTTTTGAAGATTTGGCATCCAGTTGCGATG TGTGATGTTGATGGCGCTGAAAGAAAAGGTTAATGGTGGGGAGAGTTTTTTTGGCTCCCC GAGCACCAATGTGCTGTTTTTCTGC
Protein Sequence (222 aa)
>BART1_0-u37955.004 222 150831_barley_pseudomolecules CHLVRDTGGRWCSSKSSSGRSCPGPVLLPPTFPQLKRKIKLAMAAAYTSRLGLPPAAHPY DDESVACALGHLYPTKDPFALPASCLLPPPELPLAFGLPAGGLAPVCCCADAAGAPAFPP FPWANVPSPPVPPRCGITEIDEFREVESEDNLSPCSVLTPWRRPTPASALPSPPPLVVGG KRAFDPTSEKTSLMICNIPNGFVLAGCYSLLPVPAISPSSFC