- Transcript BART1_0-u41201.002
- Transcript IDBART1_0-u41201.002
- Gene IDBART1_0-u41201
Barley RTD
Exon Structure of BART1_0-u41201.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 659416282 | 659415961 | + |
| chr5H | 2 | 659417266 | 659416951 | + |
| chr5H | 3 | 659417758 | 659417637 | + |
| chr5H | 4 | 659418191 | 659418098 | + |
| 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 | 1.54222 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 1.20081 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0.647645 | 0 |
| morex | RAC | 0 | 0 | 0.00000108402 |
| morex | INF1 | 2.61614 | 2.15755 | 4.15554 |
| morex | INF2 | 10.3683 | 5.7012 | 5.93012 |
| morex | CAR5 | 3.1799 | 1.19724 | 1.94088 |
| morex | CAR15 | 3.80241 | 0.756485 | 0.90768 |
| morex | LEM | 0 | 0 | 0.00000482211 |
| morex | LOD | 0 | 0.327606 | 0.512586 |
| 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 | 587 | 326/446 (73%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G11860 @ ARAPORT AT5G11860.4 @ TAIR |
+2 | 4e-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 | 673 | 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 (2503 bp)
>BART1_0-u41201.002 2503 150831_barley_pseudomolecules TTCTCCTCTCCTCATCACTCCCCGAAGCGTTGCGCCGCGGCTATAGGCTCTCTCCCCTCT CCCCCGTGCGCGACAAGCGGCTAGGGTTTCGCCCTCCCAACCCACCCCACCCCCGCTCCG CCGTCGCCCCCCACCCTCGCCGTCGCCGCCCCGCCTACCGCATCCCGCATACAATCTCCG ACGCCGTCCCCGACCGCGTCCTCCCTCTGCCGCCGGCCACTACCACGGAGCCCCCGCGCC AGCAGATCGACGCCGCCGGGCCCGTCCACCCCGTCTCGCCGCCCGCCAGCTCGTCCCCGG CCTCCAGCTCGCCTCCGCCCAGGTCTGTACTCTGAGGGTTATTTGCGTTGAAAGCTCTAC GTGCCACTTTGACGGAGTTTGTGCAATTACCCTGAACTGACTTGGCGGAAGTGTGCTGTG TGGTCTGGTGTTCCTTTTCTCATATACGAGCCAACTGCAGGCAAGAAGTCTTCTTGATTG AAGGATGCCGACAAGAAAAAAAGGACCTGCAAGAAATGCAACTGTCGAGCATGTTAATAC GAAAACTAGCAGGCAACCTAGAAGACCCACTCAGACCGCAGCTGCTGATAAGAAAGTCAA TGATCTAATTACTTCTTCTTCCAAAAAGCAGAAACCTGCCGGAGACCCTCTGAAGAAAAA CCAAGTTCTAAGCGGTGGAAGAAAATTAACATCTCTATATGATTCTGAAACTGAAAATGA AGTGGCTGATGTGCCAAGTAGTAGTATGCTTGATCACAAGCAGTCTCACGGAGATGATGA AGAGCCATGTGAGAACATATTTTCTCAACCATTCCACCATCATAATGAAGACGACAGTGA TGGCTTGAGCAAAGTTCCTGTGCAATCAACATGTGGAAATACGAAGCGTGCAAACGATGA ATACAGTGAATTGGGTAGTCTTTCTCCCGAAGTGTCTGCTATATATCTTGCAATGCAGCA CTCCAAACTGGAGTGTATTGATGAACAAAGTCAAGATTCGATCTCAACAGATGAGTGCGC TGATCCTGATGAGGCTGAGGAGCTTGATGAGTTTGACCCTTATAGCTTTATAAAGGATTT GCCTGAGTTATCTATGGTTGTACCCAAGTTTCGACCCGTTCTTCTTCCAAAGCAAACTCG GAGCTGCCCTAGAACCACCCTTGTTCTTGATCTGGATGAGACACTGGTGCATTCTACTCT TGAGCCCTGTGAAGATTCTGATTTCACTTTCCCAGTTCGTTTTAATCTCAGAGATCACAC AATCTATGTACGGTGTCGTCCATATCTGAAAGACTTCCTGGAGAGAGTAGCCAGCATGTT TGAGATAATCATCTTCACGGCTAGTCAAAGTATCTATGCAGAACAACTGCTTAATGTTCT TGATCCGAAAAGAAGGTTGTTCCGTCATCGAGTTTATCGCGAGTCTTGCGTCTACGTGGA GGGCAACTACTTAAAGGATCTATCAGTTCTCGGACGTGACTTGTCTCGTGTTGTCATAGT TGACAATTCTCCACAGGCCTTTGGGTTCCAGTTGGACAATGGCATACCGATCGAGAGTTG GTTCGACGACCCAAACGACAAGGAGCTCCTAGCACTGCTACCGTTCCTGGAAAGCCTGGT TGGTGTGGAAGATGTCCGGCCATTCATCGCAACTAAGTTCAACCTCCGCCAGAAGGTGGC CAGCGCGACTTCCCTTGCGATGCACTTCTTTCCTAATGGGGAGTGTGCCAGCTGAAGGGC TCCCGGAGAAAACAGGCAATCAAGTGCTCGAAAGGATACCTGAAAATTTAGAATCCTTTG TTGTTCTGGTACAATCATGTGTCATTTAATTTCGAACCGCCAGACGGACAGAGTCATAAT TTGGGCTGTTGTAAGTTTCTAAAAACCGGTAAACCTTAGGGAACCTTGTACAAGCAGTAG CCAGGACCCAGAGGGGTCACTGCCCAGCATTGTAATAGACCAGCGGATATTTGTCGGAAT TTGCTGCCCAGCATTGTAATAGGCCAGCAGATATTTGTCGGAATTTACTGCTAAGCACTG TAATAGCCCAGCGGATATTTGCCAGAATTTGTTGCGTTCAACGCAGTTATGTCGCAGTCT GTAGTTGTCAAGTCTAGTAAAGAAGTGGGCCAGTGAGGGATTATGCCCATTTGAGCCACT ATATCCCCATTTGTGATCTAGCTTTCGTTTGTGTTTGAACCGTGCAATTTAAAACCGAAC CAGTAAGAGCATCTCCAGCCGTTTGGGGCATTTTTTTCGCTGCTTGGGGTGCTGCTGGCG AAAATTGGGGGCAATTTTTTTCACTCGTGATGGGCCTAGCAAAAAAATGAAGGAGAGAGA GAGACAGGAAAGAGGCCAACCAGTGTGACTTGTGTATGTAAAAATAGCTTCTTTGGTCCG CCCTCCCGCAGCTCAGCATACTCTGGTCCTGAAACAATGTTCTCAAATGCTCCAATCAGG ATATCTATATCAGTGACAACATCAAATACATTAATGTAGCGTC
Protein Sequence (416 aa)
>BART1_0-u41201.002 416 150831_barley_pseudomolecules MPTRKKGPARNATVEHVNTKTSRQPRRPTQTAAADKKVNDLITSSSKKQKPAGDPLKKNQ VLSGGRKLTSLYDSETENEVADVPSSSMLDHKQSHGDDEEPCENIFSQPFHHHNEDDSDG LSKVPVQSTCGNTKRANDEYSELGSLSPEVSAIYLAMQHSKLECIDEQSQDSISTDECAD PDEAEELDEFDPYSFIKDLPELSMVVPKFRPVLLPKQTRSCPRTTLVLDLDETLVHSTLE PCEDSDFTFPVRFNLRDHTIYVRCRPYLKDFLERVASMFEIIIFTASQSIYAEQLLNVLD PKRRLFRHRVYRESCVYVEGNYLKDLSVLGRDLSRVVIVDNSPQAFGFQLDNGIPIESWF DDPNDKELLALLPFLESLVGVEDVRPFIATKFNLRQKVASATSLAMHFFPNGECAS