- Transcript BART1_0-u37955.002
- Transcript IDBART1_0-u37955.002
- Gene IDBART1_0-u37955
Barley RTD
Exon Structure of BART1_0-u37955.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 564069900 | 564069128 | - |
| chr5H | 2 | 564070092 | 564070030 | - |
| chr5H | 3 | 564070540 | 564070357 | - |
| chr5H | 4 | 564070767 | 564070626 | - |
| chr5H | 5 | 564071554 | 564071423 | - |
| chr5H | 6 | 564072352 | 564071647 | - |
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 | 1.38405 | 0.551459 | 0 |
| morex | ETI | 0 | 0 | 0.230015 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 1.04762 | 0.504197 |
| morex | ROO | 0 | 0.39679 | 0.238075 |
| morex | ROO2 | 1.03773 | 0.343236 | 0.878345 |
| morex | NOD | 0.554332 | 0.300903 | 0 |
| morex | RAC | 0.52085 | 0.658631 | 0.313598 |
| morex | INF1 | 0.974693 | 0 | 0 |
| morex | INF2 | 1.51743 | 0.316965 | 2.01361 |
| morex | CAR5 | 0.95987 | 0.915678 | 1.19701 |
| morex | CAR15 | 0.260551 | 0.292843 | 0 |
| morex | LEM | 0.153915 | 0.238489 | 0.451675 |
| morex | LOD | 0 | 0.431803 | 0.486466 |
| morex | PAL | 0.50776 | 0.395948 | 0.145335 |
| morex | SEN | 0.229162 | 0.692851 | 0.784957 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g36140.1 | +3 | 3e-54 | 189 | 101/155 (65%) | protein|RNA recognition motif 2 domain containing protein, expressed |
| TAIR PP10 | AT3G26120 @ ARAPORT AT3G26120.1 @ TAIR |
+3 | 1e-33 | 137 | 66/152 (43%) | Symbols: TEL1 | terminal EAR1-like 1 | chr3:9546398-9549186 FORWARD LENGTH=615 |
| BRACH PP3 | Bradi4g36020.1.p | +3 | 8e-86 | 271 | 146/217 (67%) | 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 (2000 bp)
>BART1_0-u37955.002 2000 150831_barley_pseudomolecules CGTGATCAGCTTTTTTTTTATCGAAATACGACGGGGCTAGTAAACCCGGAACGGAGGAGG TTGTATACTGCAATGAAGGCTGAGGCTTACTGCGGTGGTGCCACCTGGTGCGTGATACAG GGGGCAGGTGGTGCTCCTCCAAGTCCTCCTCGGGTCGGTCTTGCCCGGGTCCGGTCCTCC TTCCTCCTACTTTTCCCCAGCTCAAAAGAAAAATCAAGTTAGCCATGGCCGCCGCCTACA CCTCGCGCCTGGGCCTGCCCCCCGCCGCGCACCCGTACGACGACGAATCCGTGGCCTGCG CCCTAGGGCATCTCTACCCCACCAAGGATCCGTTCGCCCTGCCGGCCAGCTGCCTCCTCC CGCCGCCCGAGCTGCCGCTGGCCTTCGGGTTGCCCGCCGGCGGTCTCGCCCCCGTCTGCT GCTGCGCCGACGCCGCGGGGGCGCCCGCGTTCCCGCCCTTCCCATGGGCGAACGTGCCCT CGCCGCCAGTGCCGCCGCGTTGCGGCATCACGGAGATCGACGAGTTCCGGGAGGTGGAGT CGGAGGATAACCTCTCCCCTTGTTCCGTCCTCACGCCCTGGAGGAGGCCGACGCCCGCCT CGGCGCTGCCTTCGCCTCCGCCCCTCGTGGTCGGGGGGAAACGGGCCTTCGACCCCACCA GCGAGAAGACTTCTCTGATGATCTGCAATATCCCCAACGGATTCGTGAAGCGGAGGTTCA TGGCGATTCTGGACCAGCATTGCGTCCATGAGAACGACAATCCTGAATGGCGTGTCGTTG GGGGTGGCAAGTTCGTGAGATCGGAGTATGACTTCCTCTACATCCCAATAGACTTCAGGA CGAAGTACAACAAGGGCTATGCGTTCGTCAACATGACGACGGCGACTGCAGCGCGGCGGC TCCATGCTTTTCTCCACGGGCACCGCTGGGCGCTGGCGGGCTCTCGGAAGGTATGCGAGG TTGTGCACGCGGACATCCAGGGGGTGGATGCTTTGTCAGCGCACTTCTCCAGCTCCAAGT TCCCATGCGGTAACAAGGACTTCCTGCCAGTGCGCTTCGGCCCGCCGCGGGACGGCCTTC GGCCGACGGTGGAGCGTGTAATTGGCCGCACGGTGGTCCACCGTCCCGCTGATCAATCTG CTCACCCCACGCCGCGTGCTGCACGTTGCACATATCTGGACCTCATGCGTTGATCATTTC AAAGGAAATACAAGGAAGTTAGTATTGAAAGAGGAGGCAAATGGAAACCTGGTGCAGTGG GGAACAAAACTGTTTGAGCTGGTGGCTACTGGCTAGTGATGTCTTTGCTTCGTCGCGAGG ATGGAGGCCTACTCACCTTAGGGTAGGTGCTTAGTGTGCTTGGTTACCCAAGATGATCAA GTTAGATGGTTCTTTTGGGGCTGCAGGAGTATCTTCTAGTGTCTGTATGACTGTATCCTA CCTTGGAGATGTTGGCTTCATTTGTCTTCCCTAGGTAGCAGCAATGCTTGGTGGTTCTGC CATCCGATTTCCTTTGAGTTGTCACTAACTGTACTCATCTGCCCTGAACTTTCTTAGATT GGTTTGTGCATCTGTTCGCATGTTAACCGTATGTTATCCGCCCGTGTATGTTTTTGAAGA TTTGGCATCCAGTTGCGATGTGTGATGTTGATGGCGCTGAAAGAAAAGGTTAATGGTGGG GAGAGTTTTTTTGGCTCCCCGAGCACCAATGTGCTGTTTTTCTGCCCGAAGTCTCTGCCC TTTGATTGTTGGAATAATAAAGTATCCCCTCCGTAAACAAATACTCCCTTCGTCTTAAAA TAAGTGTCTTAACTTTGTATTAGTTTTAATATAAATTTATACTAAGCTTGAGACAGTTAT TTTGAAACGGAGGAAGTATAGTATAAGAGCGTTCAGATCTAAACGTTCTTATATTTTTTT TACAGAGGGAGTAACTTTTAGGCATAGCTGCCCTCGGTTATCTCTGGAGCAAGCTAAGGT TATCGTCAGATACATTGGAG
Protein Sequence (322 aa)
>BART1_0-u37955.002 322 150831_barley_pseudomolecules MAAAYTSRLGLPPAAHPYDDESVACALGHLYPTKDPFALPASCLLPPPELPLAFGLPAGG LAPVCCCADAAGAPAFPPFPWANVPSPPVPPRCGITEIDEFREVESEDNLSPCSVLTPWR RPTPASALPSPPPLVVGGKRAFDPTSEKTSLMICNIPNGFVKRRFMAILDQHCVHENDNP EWRVVGGGKFVRSEYDFLYIPIDFRTKYNKGYAFVNMTTATAARRLHAFLHGHRWALAGS RKVCEVVHADIQGVDALSAHFSSSKFPCGNKDFLPVRFGPPRDGLRPTVERVIGRTVVHR PADQSAHPTPRAARCTYLDLMR