- Transcript BART1_0-u41201.006
- Transcript IDBART1_0-u41201.006
- Gene IDBART1_0-u41201
Barley RTD
Exon Structure of BART1_0-u41201.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 659416282 | 659416063 | + |
| chr5H | 2 | 659417266 | 659416951 | + |
| chr5H | 3 | 659417758 | 659417637 | + |
| chr5H | 4 | 659418191 | 659418101 | + |
| chr5H | 5 | 659419657 | 659419334 | + |
| chr5H | 6 | 659420969 | 659420632 | + |
| chr5H | 7 | 659422509 | 659421570 | + |
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 | 5.30485 | 9.97451 | 14.1588 |
| morex | ETI | 1.3109 | 3.63273 | 1.78284 |
| morex | LEA | 8.73776 | 4.0776 | 7.68473 |
| morex | EPI | 0 | 0.401507 | 0.00000175334 |
| morex | ROO | 8.07491 | 4.98164 | 3.12012 |
| morex | ROO2 | 4.13429 | 0.778478 | 0.161495 |
| morex | NOD | 6.44625 | 3.26195 | 11.3457 |
| morex | RAC | 2.6964 | 1.37794 | 6.31108 |
| morex | INF1 | 34.2991 | 32.8264 | 31.2599 |
| morex | INF2 | 30.889 | 27.5827 | 27.4041 |
| morex | CAR5 | 12.3385 | 12.3944 | 16.0143 |
| morex | CAR15 | 9.82386 | 7.23272 | 8.61215 |
| morex | LEM | 1.89361 | 4.50844 | 3.99952 |
| morex | LOD | 3.10096 | 0.718288 | 4.35723 |
| morex | PAL | 6.01215 | 4.31497 | 1.65615 |
| morex | SEN | 1.91886 | 2.70082 | 1.68556 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g63300.1 | +2 | 2e-164 | 484 | 269/379 (71%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G11860 @ ARAPORT AT5G11860.4 @ TAIR |
+2 | 3e-84 | 270 | 149/192 (78%) | Symbols: | SCP1-like small phosphatase 5 | chr5:3822024-3823395 REVERSE LENGTH=305 |
| BRACH PP3 | Bradi4g02010.1.p | +2 | 0.0 | 570 | 297/344 (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 (2351 bp)
>BART1_0-u41201.006 2351 150831_barley_pseudomolecules CACCCCACCCCCGCTCCGCCGTCGCCCCCCACCCTCGCCGTCGCCGCCCCGCCTACCGCA TCCCGCATACAATCTCCGACGCCGTCCCCGACCGCGTCCTCCCTCTGCCGCCGGCCACTA CCACGGAGCCCCCGCGCCAGCAGATCGACGCCGCCGGGCCCGTCCACCCCGTCTCGCCGC CCGCCAGCTCGTCCCCGGCCTCCAGCTCGCCTCCGCCCAGGTCTGTACTCTGAGGGTTAT TTGCGTTGAAAGCTCTACGTGCCACTTTGACGGAGTTTGTGCAATTACCCTGAACTGACT TGGCGGAAGTGTGCTGTGTGGTCTGGTGTTCCTTTTCTCATATACGAGCCAACTGCAGGC AAGAAGTCTTCTTGATTGAAGGATGCCGACAAGAAAAAAAGGACCTGCAAGAAATGCAAC TGTCGAGCATGTTAATACGAAAACTAGCAGGCAACCTAGAAGACCCACTCAGACCGCAGC TGCTGATAAGAAAGTCAATGATCTAATTACTTCTTCTTCCAAAAAGCAGAAACCTGCCGG AGACCCTCTGAAGAAAAACCAAGTTCTAAGCGGTGGAAGAAAATTAACATCTCTATATGA TTCTGAAACTGAAAATGAAGTGGCTGATGTGCCAAGTAGTAGTATGCTTGATCACAAGTC TCACGGAGATGATGAAGAGCCATGTGAGAACATATTTTCTCAACCATTCCACCATCATAA TGAAGACGACAGTGATGGCTTGAGCAAAGTTCCTGTGCAATCAACATGTGGAAATACGAA GCGTGCAAACGATGAATACAGTGAATTGGGTAGTCTTTCTCCCGAAGTGTCTGCTATATA TCTTGCAATGCAGCACTCCAAACTGGAGTGTATTGATGAACAAAGTCAAGATTCGATCTC AACAGATGAGTGCGCTGATCCTGATGAGGCTGAGGAGCTTGATGAGTTTGACCCTTATAG CTTTATAAAGGATTTGCCTGAGTTATCTATGGTTGTACCCAAGTTTCGACCCGTTCTTCT TCCAAAGCAAACTCGGAGCTGCCCTAGAACCACCCTTGTTCTTGATCTGGATGAGACACT GGTGCATTCTACTCTTGAGCCCTGTGAAGATTCTGATTTCACTTTCCCAGTTCGTTTTAA TCTCAGAGATCACACAATCTATGTACGGTGTCGTCCATATCTGAAAGACTTCCTGGAGAG AGTAGCCAGCATGTTTGAGATAATCATCTTCACGGCTAGTCAAAGTATCTATGCAGAACA ACTGCTTAATGTTCTTGATCCGAAAAGAAGGTTGTTCCGTCATCGAGTTTATCGCGAGTC TTGCGTCTACGTGGAGGGCAACTACTTAAAGGATCTATCAGTTCTCGGACGTGACTTGTC TCGTGTTGTCATAGTTGACAATTCTCCACAGTCCTCCTCTCCCCACATGGATTCATCAAG ATAGTCATCGATCATGCCTTAGAATTGATTTGCTGAGCAGCGCGCTTGTTGTACCATGGG TGTAGTTAATTCCTTCTTGCTGTGCAATGAGATTGTCACAAATTATTATTTATTTACAAA AAAAATGTGTGTAGCAATGAGTACTACAATTACATTTGCATCACATGTAAGCAGATGAAT CAAGATTTATTCTCTGATATTGTTGCTTTCAGGCCTTTGGGTTCCAGTTGGACAATGGCA TACCGATCGAGAGTTGGTTCGACGACCCAAACGACAAGGAGCTCCTAGCACTGCTACCGT TCCTGGAAAGCCTGGTTGGTGTGGAAGATGTCCGGCCATTCATCGCAACTAAGTTCAACC TCCGCCAGAAGGTGGCCAGCGCGACTTCCCTTGCGATGCACTTCTTTCCTAATGGGGAGT GTGCCAGCTGAAGGGCTCCCGGAGAAAACAGGCAATCAAGTGCTCGAAAGGATACCTGAA AATTTAGAATCCTTTGTTGTTCTGGTACAATCATGTGTCATTTAATTTCGAACCGCCAGA CGGACAGAGTCATAATTTGGGCTGTTGTAAGTTTCTAAAAACCGGTAAACCTTAGGGAAC CTTGTACAAGCAGTAGCCAGGACCCAGAGGGGTCACTGCCCAGCATTGTAATAGACCAGC GGATATTTGTCGGAATTTGCTGCCCAGCATTGTAATAGGCCAGCAGATATTTGTCGGAAT TTACTGCTAAGCACTGTAATAGCCCAGCGGATATTTGCCAGAATTTGTTGCGTTCAACGC AGTTATGTCGCAGTCTGTAGTTGTCAAGTCTAGTAAAGAAGTGGGCCAGTGAGGGATTAT GCCCATTTGAGCCACTATATCCCCATTTGTGATCTAGCTTTCGTTTGTGTTTGAACCGTG CAATTTAAAAC
Protein Sequence (353 aa)
>BART1_0-u41201.006 353 150831_barley_pseudomolecules MPTRKKGPARNATVEHVNTKTSRQPRRPTQTAAADKKVNDLITSSSKKQKPAGDPLKKNQ VLSGGRKLTSLYDSETENEVADVPSSSMLDHKSHGDDEEPCENIFSQPFHHHNEDDSDGL SKVPVQSTCGNTKRANDEYSELGSLSPEVSAIYLAMQHSKLECIDEQSQDSISTDECADP DEAEELDEFDPYSFIKDLPELSMVVPKFRPVLLPKQTRSCPRTTLVLDLDETLVHSTLEP CEDSDFTFPVRFNLRDHTIYVRCRPYLKDFLERVASMFEIIIFTASQSIYAEQLLNVLDP KRRLFRHRVYRESCVYVEGNYLKDLSVLGRDLSRVVIVDNSPQSSSPHMDSSR