- Transcript BART1_0-u41201.009
- Transcript IDBART1_0-u41201.009
- Gene IDBART1_0-u41201
Barley RTD
Exon Structure of BART1_0-u41201.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 659416282 | 659416217 | + |
| chr5H | 2 | 659417266 | 659416951 | + |
| chr5H | 3 | 659417758 | 659417637 | + |
| chr5H | 4 | 659419204 | 659418101 | + |
| chr5H | 5 | 659419657 | 659419334 | + |
| chr5H | 6 | 659420969 | 659420632 | + |
| chr5H | 7 | 659422524 | 659421811 | + |
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 | 5.19281 | 5.72527 | 5.50659 |
| morex | ETI | 2.48899 | 2.71245 | 3.19299 |
| morex | LEA | 6.62972 | 6.90126 | 3.92315 |
| morex | EPI | 1.41312 | 1.81819 | 0 |
| morex | ROO | 1.99975 | 3.96349 | 2.03795 |
| morex | ROO2 | 1.33628 | 1.14746 | 0.507727 |
| morex | NOD | 3.85871 | 2.14865 | 0.430473 |
| morex | RAC | 2.44004 | 1.54765 | 2.54169 |
| morex | INF1 | 11.0016 | 13.0056 | 10.3495 |
| morex | INF2 | 19.8206 | 15.7341 | 16.6789 |
| morex | CAR5 | 13.244 | 13.3286 | 9.31429 |
| morex | CAR15 | 3.1107 | 4.82017 | 4.08049 |
| morex | LEM | 1.82767 | 0.556715 | 1.7221 |
| morex | LOD | 2.20775 | 0 | 1.4458 |
| morex | PAL | 0.752409 | 1.30974 | 0.85766 |
| morex | SEN | 1.10604 | 3.19353 | 2.83787 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g63300.1 | +3 | 5e-154 | 463 | 247/283 (87%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G11860 @ ARAPORT AT5G11860.4 @ TAIR |
+3 | 7e-112 | 347 | 196/254 (77%) | Symbols: | SCP1-like small phosphatase 5 | chr5:3822024-3823395 REVERSE LENGTH=305 |
| BRACH PP3 | Bradi4g02010.1.p | +3 | 1e-165 | 492 | 261/281 (93%) | pacid=32785818 transcript=Bradi4g02010.1 locus=Bradi4g02010 ID=Bradi4g02010.1.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 (2984 bp)
>BART1_0-u41201.009 2984 150831_barley_pseudomolecules CGGGCCCGTCCACCCCGTCTCGCCGCCCGCCAGCTCGTCCCCGGCCTCCAGCTCGCCTCC GCCCAGGTCTGTACTCTGAGGGTTATTTGCGTTGAAAGCTCTACGTGCCACTTTGACGGA GTTTGTGCAATTACCCTGAACTGACTTGGCGGAAGTGTGCTGTGTGGTCTGGTGTTCCTT TTCTCATATACGAGCCAACTGCAGGCAAGAAGTCTTCTTGATTGAAGGATGCCGACAAGA AAAAAAGGACCTGCAAGAAATGCAACTGTCGAGCATGTTAATACGAAAACTAGCAGGCAA CCTAGAAGACCCACTCAGACCGCAGCTGCTGATAAGAAAGTCAATGATCTAATTACTTCT TCTTCCAAAAAGCAGAAACCTGCCGGAGACCCTCTGAAGAAAAACCAAGTTCTAAGCGGT GGAAGAAAATTAACATCTCTATATGATTCTGAAACTGAAAATGAAGTGGCTGATGTGCCA AGTAGTAGTATGCTTGATCACAAGTCTCACGGAGATGATGAAGAGCCATGTGAGAACATA TTTTCTCAACCATTCCACCATCATAATGAAGACGACAGTGATGGCTTGAGCAAAGGTACA CAATTAGAACACTGAAACTCCCTCTAAACGATGCTGTTTGAATATCTCGCCATCTTAAGA TGTATCAATGTGATGCATTAATGCATAAGTCTGTATTCCCTCTGTTTCTTTTTACTCCAC ACATTGGGTTTTTCTTAAGTCAAAGTGTAAAGTTTGACAACATTTATATAAATTGTCAAC ATCTACAATACCAAATAATAAATATAGGACCCTGATAAGTGCCACACGTGTGGCACGAAC ACATGACAACTCCGAACTTTTTTGATGGCAAGTTTAGTGGCCCGAGGATCGCAACTTTAG TTGTTATAAGCATGGCAACTTCCTTTTTGGATGGCAAGTTTCAGTTTTTTTTTTGGTTTG TTTTTACTTTTTGGATGGTAACTTTAGTTATAAAAaacgtcagggttggaatgcttcgTG CCACACGTGTGGCACTTATCATTTGGGTAAATATAATATAAAATAGATTCCATCATGGAT TTAATAATATTGATTTGGTATATTGAATGTTTGTATTTTTTCTATAATATTGGTCGAACT TCGGAAAGTTTGACATAAGACAAACCTAATATGCGAAGTAGAAAGAAACAGAGGGAGTAT CTAGTAATCTGGTTGGTATGGCTTCTTATTTTCCTCGTTATCTTCAGTATCTAGAAGGCA TATATGCTTATATCACCACATCCACATCCACATCCTTCCCCTAATTTATATGTACTTAGA CCTGTCCCACTAGTCAATGTAACCTCACCTTTGTAGAATATTCAGTTTTTATATTAATAT TATCAAGCTCTTTTTTAAAGCAGACATGTGATTTCTGACAATCCTTTATAAGTGGTAAGT GAAAGTTTTGAAGTCCTTAGTCACTGTATCTGCTTTGCCTTTCCCTGACTAATCTAGACT GCGTGGTGCAATGCTATTTTTCTCTCTTATTTCATTTGTTGTATATTCAGAACATGCAAA TTAGTATTTTTATCTACAGCTTGTACTGTGAAAAGTGGATCTGTGAGTTTCCTGTGCAAT CAACATGTGGAAATACGAAGCGTGCAAACGATGAATACAGTGAATTGGGTAGTCTTTCTC CCGAAGTGTCTGCTATATATCTTGCAATGCAGCACTCCAAACTGGAGTGTATTGATGAAC AAAGTCAAGATTCGATCTCAACAGATGAGTGCGCTGATCCTGATGAGGCTGAGGAGCTTG ATGAGTTTGACCCTTATAGCTTTATAAAGGATTTGCCTGAGTTATCTATGGTTGTACCCA AGTTTCGACCCGTTCTTCTTCCAAAGCAAACTCGGAGCTGCCCTAGAACCACCCTTGTTC TTGATCTGGATGAGACACTGGTGCATTCTACTCTTGAGCCCTGTGAAGATTCTGATTTCA CTTTCCCAGTTCGTTTTAATCTCAGAGATCACACAATCTATGTACGGTGTCGTCCATATC TGAAAGACTTCCTGGAGAGAGTAGCCAGCATGTTTGAGATAATCATCTTCACGGCTAGTC AAAGTATCTATGCAGAACAACTGCTTAATGTTCTTGATCCGAAAAGAAGGTTGTTCCGTC ATCGAGTTTATCGCGAGTCTTGCGTCTACGTGGAGGGCAACTACTTAAAGGATCTATCAG TTCTCGGACGTGACTTGTCTCGTGTTGTCATAGTTGACAATTCTCCACAGGCCTTTGGGT TCCAGTTGGACAATGGCATACCGATCGAGAGTTGGTTCGACGACCCAAACGACAAGGAGC TCCTAGCACTGCTACCGTTCCTGGAAAGCCTGGTTGGTGTGGAAGATGTCCGGCCATTCA TCGCAACTAAGTTCAACCTCCGCCAGAAGGTGGCCAGCGCGACTTCCCTTGCGATGCACT TCTTTCCTAATGGGGAGTGTGCCAGCTGAAGGGCTCCCGGAGAAAACAGGCAATCAAGTG CTCGAAAGGATACCTGAAAATTTAGAATCCTTTGTTGTTCTGGTACAATCATGTGTCATT TAATTTCGAACCGCCAGACGGACAGAGTCATAATTTGGGCTGTTGTAAGTTTCTAAAAAC CGGTAAACCTTAGGGAACCTTGTACAAGCAGTAGCCAGGACCCAGAGGGGTCACTGCCCA GCATTGTAATAGACCAGCGGATATTTGTCGGAATTTGCTGCCCAGCATTGTAATAGGCCA GCAGATATTTGTCGGAATTTACTGCTAAGCACTGTAATAGCCCAGCGGATATTTGCCAGA ATTTGTTGCGTTCAACGCAGTTATGTCGCAGTCTGTAGTTGTCAAGTCTAGTAAAGAAGT GGGCCAGTGAGGGATTATGCCCATTTGAGCCACTATATCCCCATTTGTGATCTAGCTTTC GTTTGTGTTTGAACCGTGCAATTTAAAACCGAACCAGTAAGAGC
Protein Sequence (311 aa)
>BART1_0-u41201.009 311 150831_barley_pseudomolecules MQISIFIYSLYCEKWICEFPVQSTCGNTKRANDEYSELGSLSPEVSAIYLAMQHSKLECI DEQSQDSISTDECADPDEAEELDEFDPYSFIKDLPELSMVVPKFRPVLLPKQTRSCPRTT LVLDLDETLVHSTLEPCEDSDFTFPVRFNLRDHTIYVRCRPYLKDFLERVASMFEIIIFT ASQSIYAEQLLNVLDPKRRLFRHRVYRESCVYVEGNYLKDLSVLGRDLSRVVIVDNSPQA FGFQLDNGIPIESWFDDPNDKELLALLPFLESLVGVEDVRPFIATKFNLRQKVASATSLA MHFFPNGECAS