- Transcript BART1_0-u41201.004
- Transcript IDBART1_0-u41201.004
- Gene IDBART1_0-u41201
Barley RTD
Exon Structure of BART1_0-u41201.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 659416282 | 659415983 | + |
| chr5H | 2 | 659417266 | 659417089 | + |
| chr5H | 3 | 659417758 | 659417637 | + |
| chr5H | 4 | 659418191 | 659418098 | + |
| chr5H | 5 | 659419657 | 659419334 | + |
| chr5H | 6 | 659420969 | 659420632 | + |
| chr5H | 7 | 659422463 | 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 | 6.40124 | 5.05163 | 7.17962 |
| morex | ETI | 4.66908 | 2.99588 | 4.98435 |
| morex | LEA | 1.79256 | 3.02606 | 2.88223 |
| morex | EPI | 3.23092 | 2.76548 | 4.93885 |
| morex | ROO | 3.18656 | 2.78428 | 1.5398 |
| morex | ROO2 | 6.66126 | 6.52147 | 5.24253 |
| morex | NOD | 3.49343 | 6.32026 | 5.90749 |
| morex | RAC | 7.03306 | 8.24984 | 7.68056 |
| morex | INF1 | 5.42496 | 9.53851 | 6.36246 |
| morex | INF2 | 6.08914 | 10.6896 | 9.35111 |
| morex | CAR5 | 2.5982 | 5.41024 | 4.30306 |
| morex | CAR15 | 0.666008 | 2.95887 | 4.54076 |
| morex | LEM | 5.70378 | 6.36784 | 7.11647 |
| morex | LOD | 6.33354 | 10.228 | 6.86908 |
| morex | PAL | 7.96424 | 7.29196 | 6.21051 |
| morex | SEN | 2.81422 | 5.93857 | 3.39078 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g63300.1 | +1 | 0.0 | 587 | 326/446 (73%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G11860 @ ARAPORT AT5G11860.4 @ TAIR |
+1 | 8e-117 | 352 | 196/254 (77%) | Symbols: | SCP1-like small phosphatase 5 | chr5:3822024-3823395 REVERSE LENGTH=305 |
| BRACH PP3 | Bradi4g02010.1.p | +1 | 0.0 | 674 | 355/411 (86%) | 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 (2009 bp)
>BART1_0-u41201.004 2009 150831_barley_pseudomolecules CGAAGCGTTGCGCCGCGGCTATAGGCTCTCTCCCCTCTCCCCCGTGCGCGACAAGCGGCT AGGGTTTCGCCCTCCCAACCCACCCCACCCCCGCTCCGCCGTCGCCCCCCACCCTCGCCG TCGCCGCCCCGCCTACCGCATCCCGCATACAATCTCCGACGCCGTCCCCGACCGCGTCCT CCCTCTGCCGCCGGCCACTACCACGGAGCCCCCGCGCCAGCAGATCGACGCCGCCGGGCC CGTCCACCCCGTCTCGCCGCCCGCCAGCTCGTCCCCGGCCTCCAGCTCGCCTCCGCCCAG GCAAGAAGTCTTCTTGATTGAAGGATGCCGACAAGAAAAAAAGGACCTGCAAGAAATGCA ACTGTCGAGCATGTTAATACGAAAACTAGCAGGCAACCTAGAAGACCCACTCAGACCGCA GCTGCTGATAAGAAAGTCAATGATCTAATTACTTCTTCTTCCAAAAAGCAGAAACCTGCC GGAGACCCTCTGAAGAAAAACCAAGTTCTAAGCGGTGGAAGAAAATTAACATCTCTATAT GATTCTGAAACTGAAAATGAAGTGGCTGATGTGCCAAGTAGTAGTATGCTTGATCACAAG CAGTCTCACGGAGATGATGAAGAGCCATGTGAGAACATATTTTCTCAACCATTCCACCAT CATAATGAAGACGACAGTGATGGCTTGAGCAAAGTTCCTGTGCAATCAACATGTGGAAAT ACGAAGCGTGCAAACGATGAATACAGTGAATTGGGTAGTCTTTCTCCCGAAGTGTCTGCT ATATATCTTGCAATGCAGCACTCCAAACTGGAGTGTATTGATGAACAAAGTCAAGATTCG ATCTCAACAGATGAGTGCGCTGATCCTGATGAGGCTGAGGAGCTTGATGAGTTTGACCCT TATAGCTTTATAAAGGATTTGCCTGAGTTATCTATGGTTGTACCCAAGTTTCGACCCGTT CTTCTTCCAAAGCAAACTCGGAGCTGCCCTAGAACCACCCTTGTTCTTGATCTGGATGAG ACACTGGTGCATTCTACTCTTGAGCCCTGTGAAGATTCTGATTTCACTTTCCCAGTTCGT TTTAATCTCAGAGATCACACAATCTATGTACGGTGTCGTCCATATCTGAAAGACTTCCTG GAGAGAGTAGCCAGCATGTTTGAGATAATCATCTTCACGGCTAGTCAAAGTATCTATGCA GAACAACTGCTTAATGTTCTTGATCCGAAAAGAAGGTTGTTCCGTCATCGAGTTTATCGC GAGTCTTGCGTCTACGTGGAGGGCAACTACTTAAAGGATCTATCAGTTCTCGGACGTGAC TTGTCTCGTGTTGTCATAGTTGACAATTCTCCACAGGCCTTTGGGTTCCAGTTGGACAAT GGCATACCGATCGAGAGTTGGTTCGACGACCCAAACGACAAGGAGCTCCTAGCACTGCTA CCGTTCCTGGAAAGCCTGGTTGGTGTGGAAGATGTCCGGCCATTCATCGCAACTAAGTTC AACCTCCGCCAGAAGGTGGCCAGCGCGACTTCCCTTGCGATGCACTTCTTTCCTAATGGG GAGTGTGCCAGCTGAAGGGCTCCCGGAGAAAACAGGCAATCAAGTGCTCGAAAGGATACC TGAAAATTTAGAATCCTTTGTTGTTCTGGTACAATCATGTGTCATTTAATTTCGAACCGC CAGACGGACAGAGTCATAATTTGGGCTGTTGTAAGTTTCTAAAAACCGGTAAACCTTAGG GAACCTTGTACAAGCAGTAGCCAGGACCCAGAGGGGTCACTGCCCAGCATTGTAATAGAC CAGCGGATATTTGTCGGAATTTGCTGCCCAGCATTGTAATAGGCCAGCAGATATTTGTCG GAATTTACTGCTAAGCACTGTAATAGCCCAGCGGATATTTGCCAGAATTTGTTGCGTTCA ACGCAGTTATGTCGCAGTCTGTAGTTGTCAAGTCTAGTAAAGAAGTGGGCCAGTGAGGGA TTATGCCCATTTGAGCCACTATATCCCCA
Protein Sequence (416 aa)
>BART1_0-u41201.004 416 150831_barley_pseudomolecules MPTRKKGPARNATVEHVNTKTSRQPRRPTQTAAADKKVNDLITSSSKKQKPAGDPLKKNQ VLSGGRKLTSLYDSETENEVADVPSSSMLDHKQSHGDDEEPCENIFSQPFHHHNEDDSDG LSKVPVQSTCGNTKRANDEYSELGSLSPEVSAIYLAMQHSKLECIDEQSQDSISTDECAD PDEAEELDEFDPYSFIKDLPELSMVVPKFRPVLLPKQTRSCPRTTLVLDLDETLVHSTLE PCEDSDFTFPVRFNLRDHTIYVRCRPYLKDFLERVASMFEIIIFTASQSIYAEQLLNVLD PKRRLFRHRVYRESCVYVEGNYLKDLSVLGRDLSRVVIVDNSPQAFGFQLDNGIPIESWF DDPNDKELLALLPFLESLVGVEDVRPFIATKFNLRQKVASATSLAMHFFPNGECAS