- Transcript BART1_0-u47383.008
- Transcript IDBART1_0-u47383.008
- Gene IDBART1_0-u47383
Barley RTD
Exon Structure of BART1_0-u47383.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 557776138 | 557775779 | - |
| chr6H | 2 | 557776874 | 557776813 | - |
| chr6H | 3 | 557777077 | 557777014 | - |
| chr6H | 4 | 557777387 | 557777334 | - |
| chr6H | 5 | 557777826 | 557777680 | - |
| chr6H | 6 | 557778002 | 557777898 | - |
| chr6H | 7 | 557778218 | 557778078 | - |
| chr6H | 8 | 557778504 | 557778435 | - |
| chr6H | 9 | 557781947 | 557781883 | - |
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 | 4.02667 | 0 | 1.05131 |
| morex | ETI | 1.57369 | 1.79983 | 1.02152 |
| morex | LEA | 0 | 1.51358 | 2.38897 |
| morex | EPI | 3.74384 | 4.34961 | 2.90741 |
| morex | ROO | 0 | 0.479255 | 1.04909 |
| morex | ROO2 | 0.723562 | 0 | 0.221041 |
| morex | NOD | 11.4198 | 10.2058 | 12.3723 |
| morex | RAC | 2.60999 | 2.91107 | 0 |
| morex | INF1 | 1.5718 | 0.0000019467 | 5.08442 |
| morex | INF2 | 2.48393 | 0 | 1.68085 |
| morex | CAR5 | 2.93349 | 3.14029 | 0.000251828 |
| morex | CAR15 | 0.992162 | 0 | 0.639152 |
| morex | LEM | 1.57921 | 0 | 0.556106 |
| morex | LOD | 0.377016 | 3.53188 | 2.74068 |
| morex | PAL | 1.75574 | 1.50453 | 0.234422 |
| morex | SEN | 1.43038 | 1.62437 | 2.63864 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g34130.1 | +1 | 3e-143 | 419 | 197/249 (79%) | protein|GRAM domain containing protein, expressed |
| TAIR PP10 | AT3G59660 @ ARAPORT AT3G59660.1 @ TAIR |
+1 | 4e-95 | 295 | 135/232 (58%) | Symbols: | C2 domain-containing protein / GRAM domain-containing protein | chr3:22034426-22038484 REVERSE LENGTH=594 |
| BRACH PP3 | Bradi4g35301.2.p | +1 | 6e-152 | 437 | 216/259 (83%) | pacid=32787901 transcript=Bradi4g35301.2 locus=Bradi4g35301 ID=Bradi4g35301.2.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 (1068 bp)
>BART1_0-u47383.008 1068 150831_barley_pseudomolecules AATTACGATATTTCTTCGAACGGGAGCTGGAGGACATGGAGTTCCTTCCTTAGGATGCCC TGATGAAACCACACAATTAGAGCACTGGAACAAGCTGTGAAGAACTTCCATACCATGATA GAGGCTGAGAAACAGGAACGTGCTCGATCTGCATTACGTGCACTCAGTGGCTCAAGAAAA AATAGCATGGAGATAGATGTTCCAGAAGATTGTGCTGATTTAATAGGTCTATTACAACCT TTTGTCAAAGAAGAAGTTCTAGTCTCTGTATTTGATGGAACATTTCCGTGTACTGCAGAC CAGTTTTTCAATAATCTTATAAGTGATGACTCAACTTACACAACAGAATATCGAACAGCT CGTCAGGATAAAGATATCAAACTGGGCCAGTGGCACCTTGCAGACGAGTATGATGGTCAG GTGAGAGAACTTAACTGTAAATCCATGTGCCACAGTCCGATGTGCCCTCCATATTCAGCA ATTACAGAGTGGCAGCATACGGTTCTTTCAGCTAACAAAACCGATCTGGTATTCGAGACT GTACAACAAGTACATGATGTTCCCTTTGGTTCCTATTTTGAGATACACTGTAGATGGTCT GTGAAAACCATCGATTCTAGTTCGTGCAGTGTTGACATTAGTGCTGGTGCACATTTCAAG AAATGGTGCATAATGCAGTCTAAGATAAAGAGCGGTGCTGTGGACGAGTTAAAGAAGGAA ACTAGAGAAATGTTAGGGTTTGCGGAGTCGTATATGCTAAAAGTTAGCTTCCCTACCCAA GAAGACAACACGGAGCCAGACGCAGATGACAAACCTGGTGATCAGTAACTCATGACAGCC TATTTGAGCATGCTCTCTTCTAATGGCAGCCACGGTCCCGTGATGGTGGTTTATGATGAT ACCCAGTGGACCTGTAACTGTAACTAGTCCAAATTTGATATGATTAGCTGCCTTAAAGAA GAAAAATGTTTAGGAAGTCCTATATTGTGTAAACTTTTGGCTTACGTATATCTCTTTTTC TTTAAAAGAGAAGGATAACCCTGGCCTCTGTATCATTGCATGCACACA
Protein Sequence (237 aa)
>BART1_0-u47383.008 237 150831_barley_pseudomolecules MIEAEKQERARSALRALSGSRKNSMEIDVPEDCADLIGLLQPFVKEEVLVSVFDGTFPCT ADQFFNNLISDDSTYTTEYRTARQDKDIKLGQWHLADEYDGQVRELNCKSMCHSPMCPPY SAITEWQHTVLSANKTDLVFETVQQVHDVPFGSYFEIHCRWSVKTIDSSSCSVDISAGAH FKKWCIMQSKIKSGAVDELKKETREMLGFAESYMLKVSFPTQEDNTEPDADDKPGDQ