- Transcript BART1_0-u41201.001
- Transcript IDBART1_0-u41201.001
- Gene IDBART1_0-u41201
Barley RTD
Exon Structure of BART1_0-u41201.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 659416282 | 659415961 | + |
| chr5H | 2 | 659417266 | 659416951 | + |
| chr5H | 3 | 659417758 | 659417637 | + |
| chr5H | 4 | 659418191 | 659418101 | + |
| chr5H | 5 | 659419657 | 659419334 | + |
| chr5H | 6 | 659420969 | 659420632 | + |
| chr5H | 7 | 659422797 | 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 | 0 | 0 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0.0000000047465 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0.00000000078498 |
| morex | LOD | 0 | 0.000106575 | 0.0000813759 |
| morex | PAL | 0 | 0 | 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_Os03g63300.1 | +2 | 0.0 | 580 | 325/446 (73%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G11860 @ ARAPORT AT5G11860.4 @ TAIR |
+2 | 5e-115 | 352 | 196/254 (77%) | Symbols: | SCP1-like small phosphatase 5 | chr5:3822024-3823395 REVERSE LENGTH=305 |
| BRACH PP3 | Bradi4g02010.1.p | +2 | 0.0 | 674 | 358/411 (87%) | 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 (2500 bp)
>BART1_0-u41201.001 2500 150831_barley_pseudomolecules TTCTCCTCTCCTCATCACTCCCCGAAGCGTTGCGCCGCGGCTATAGGCTCTCTCCCCTCT CCCCCGTGCGCGACAAGCGGCTAGGGTTTCGCCCTCCCAACCCACCCCACCCCCGCTCCG CCGTCGCCCCCCACCCTCGCCGTCGCCGCCCCGCCTACCGCATCCCGCATACAATCTCCG ACGCCGTCCCCGACCGCGTCCTCCCTCTGCCGCCGGCCACTACCACGGAGCCCCCGCGCC AGCAGATCGACGCCGCCGGGCCCGTCCACCCCGTCTCGCCGCCCGCCAGCTCGTCCCCGG CCTCCAGCTCGCCTCCGCCCAGGTCTGTACTCTGAGGGTTATTTGCGTTGAAAGCTCTAC GTGCCACTTTGACGGAGTTTGTGCAATTACCCTGAACTGACTTGGCGGAAGTGTGCTGTG TGGTCTGGTGTTCCTTTTCTCATATACGAGCCAACTGCAGGCAAGAAGTCTTCTTGATTG AAGGATGCCGACAAGAAAAAAAGGACCTGCAAGAAATGCAACTGTCGAGCATGTTAATAC GAAAACTAGCAGGCAACCTAGAAGACCCACTCAGACCGCAGCTGCTGATAAGAAAGTCAA TGATCTAATTACTTCTTCTTCCAAAAAGCAGAAACCTGCCGGAGACCCTCTGAAGAAAAA CCAAGTTCTAAGCGGTGGAAGAAAATTAACATCTCTATATGATTCTGAAACTGAAAATGA AGTGGCTGATGTGCCAAGTAGTAGTATGCTTGATCACAAGTCTCACGGAGATGATGAAGA GCCATGTGAGAACATATTTTCTCAACCATTCCACCATCATAATGAAGACGACAGTGATGG CTTGAGCAAAGTTCCTGTGCAATCAACATGTGGAAATACGAAGCGTGCAAACGATGAATA CAGTGAATTGGGTAGTCTTTCTCCCGAAGTGTCTGCTATATATCTTGCAATGCAGCACTC CAAACTGGAGTGTATTGATGAACAAAGTCAAGATTCGATCTCAACAGATGAGTGCGCTGA TCCTGATGAGGCTGAGGAGCTTGATGAGTTTGACCCTTATAGCTTTATAAAGGATTTGCC TGAGTTATCTATGGTTGTACCCAAGTTTCGACCCGTTCTTCTTCCAAAGCAAACTCGGAG CTGCCCTAGAACCACCCTTGTTCTTGATCTGGATGAGACACTGGTGCATTCTACTCTTGA GCCCTGTGAAGATTCTGATTTCACTTTCCCAGTTCGTTTTAATCTCAGAGATCACACAAT CTATGTACGGTGTCGTCCATATCTGAAAGACTTCCTGGAGAGAGTAGCCAGCATGTTTGA GATAATCATCTTCACGGCTAGTCAAAGTATCTATGCAGAACAACTGCTTAATGTTCTTGA TCCGAAAAGAAGGTTGTTCCGTCATCGAGTTTATCGCGAGTCTTGCGTCTACGTGGAGGG CAACTACTTAAAGGATCTATCAGTTCTCGGACGTGACTTGTCTCGTGTTGTCATAGTTGA CAATTCTCCACAGGCCTTTGGGTTCCAGTTGGACAATGGCATACCGATCGAGAGTTGGTT CGACGACCCAAACGACAAGGAGCTCCTAGCACTGCTACCGTTCCTGGAAAGCCTGGTTGG TGTGGAAGATGTCCGGCCATTCATCGCAACTAAGTTCAACCTCCGCCAGAAGGTGGCCAG CGCGACTTCCCTTGCGATGCACTTCTTTCCTAATGGGGAGTGTGCCAGCTGAAGGGCTCC CGGAGAAAACAGGCAATCAAGTGCTCGAAAGGATACCTGAAAATTTAGAATCCTTTGTTG TTCTGGTACAATCATGTGTCATTTAATTTCGAACCGCCAGACGGACAGAGTCATAATTTG GGCTGTTGTAAGTTTCTAAAAACCGGTAAACCTTAGGGAACCTTGTACAAGCAGTAGCCA GGACCCAGAGGGGTCACTGCCCAGCATTGTAATAGACCAGCGGATATTTGTCGGAATTTG CTGCCCAGCATTGTAATAGGCCAGCAGATATTTGTCGGAATTTACTGCTAAGCACTGTAA TAGCCCAGCGGATATTTGCCAGAATTTGTTGCGTTCAACGCAGTTATGTCGCAGTCTGTA GTTGTCAAGTCTAGTAAAGAAGTGGGCCAGTGAGGGATTATGCCCATTTGAGCCACTATA TCCCCATTTGTGATCTAGCTTTCGTTTGTGTTTGAACCGTGCAATTTAAAACCGAACCAG TAAGAGCATCTCCAGCCGTTTGGGGCATTTTTTTCGCTGCTTGGGGTGCTGCTGGCGAAA ATTGGGGGCAATTTTTTTCACTCGTGATGGGCCTAGCAAAAAAATGAAGGAGAGAGAGAG ACAGGAAAGAGGCCAACCAGTGTGACTTGTGTATGTAAAAATAGCTTCTTTGGTCCGCCC TCCCGCAGCTCAGCATACTCTGGTCCTGAAACAATGTTCTCAAATGCTCCAATCAGGATA TCTATATCAGTGACAACATCAAATACATTAATGTAGCGTC
Protein Sequence (415 aa)
>BART1_0-u41201.001 415 150831_barley_pseudomolecules MPTRKKGPARNATVEHVNTKTSRQPRRPTQTAAADKKVNDLITSSSKKQKPAGDPLKKNQ VLSGGRKLTSLYDSETENEVADVPSSSMLDHKSHGDDEEPCENIFSQPFHHHNEDDSDGL SKVPVQSTCGNTKRANDEYSELGSLSPEVSAIYLAMQHSKLECIDEQSQDSISTDECADP DEAEELDEFDPYSFIKDLPELSMVVPKFRPVLLPKQTRSCPRTTLVLDLDETLVHSTLEP CEDSDFTFPVRFNLRDHTIYVRCRPYLKDFLERVASMFEIIIFTASQSIYAEQLLNVLDP KRRLFRHRVYRESCVYVEGNYLKDLSVLGRDLSRVVIVDNSPQAFGFQLDNGIPIESWFD DPNDKELLALLPFLESLVGVEDVRPFIATKFNLRQKVASATSLAMHFFPNGECAS