- Transcript BART1_0-u47383.007
- Transcript IDBART1_0-u47383.007
- Gene IDBART1_0-u47383
Barley RTD
Exon Structure of BART1_0-u47383.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 557776138 | 557775758 | - |
| 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 | 557779291 | 557778435 | - |
| chr6H | 9 | 557781982 | 557781883 | - |
| chr6H | 10 | 557782102 | 557782073 | - |
| chr6H | 11 | 557782889 | 557782773 | - |
| chr6H | 12 | 557783122 | 557782999 | - |
| chr6H | 13 | 557783402 | 557783356 | - |
| chr6H | 14 | 557783611 | 557783483 | - |
| chr6H | 15 | 557783901 | 557783826 | - |
| chr6H | 16 | 557784351 | 557784254 | - |
| chr6H | 17 | 557784570 | 557784467 | - |
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 | 0.266552 | 1.64105 | 0.523265 |
| morex | ETI | 2.41301 | 0.823781 | 2.86608 |
| morex | LEA | 1.7957 | 0.591188 | 0.921385 |
| morex | EPI | 1.40087 | 1.76319 | 0.889348 |
| morex | ROO | 0.13119 | 1.07008 | 0.302591 |
| morex | ROO2 | 0.178225 | 0.0565018 | 0.328147 |
| morex | NOD | 3.93321 | 3.73651 | 3.62853 |
| morex | RAC | 1.17947 | 1.70146 | 1.89949 |
| morex | INF1 | 2.44172 | 2.54074 | 3.04119 |
| morex | INF2 | 2.98112 | 3.85212 | 3.04597 |
| morex | CAR5 | 5.91352 | 5.18446 | 5.13284 |
| morex | CAR15 | 0.348805 | 0.913336 | 0.737918 |
| morex | LEM | 0.404881 | 0.504905 | 0.666479 |
| morex | LOD | 1.3872 | 0.954325 | 0.543864 |
| morex | PAL | 0.31655 | 0.379301 | 0.440565 |
| morex | SEN | 0.58194 | 0.584371 | 0.349387 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g34130.1 | +3 | 6e-146 | 445 | 209/262 (80%) | protein|GRAM domain containing protein, expressed |
| TAIR PP10 | AT3G59660 @ ARAPORT AT3G59660.1 @ TAIR |
+3 | 6e-110 | 350 | 161/229 (70%) | Symbols: | C2 domain-containing protein / GRAM domain-containing protein | chr3:22034426-22038484 REVERSE LENGTH=594 |
| BRACH PP3 | Bradi4g35301.2.p | +3 | 2e-154 | 462 | 228/272 (84%) | 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 (2636 bp)
>BART1_0-u47383.007 2636 150831_barley_pseudomolecules GTCGCGACCGTTTTTGTTTTGGCCTTCGTCTGCTCTGCTCCGCTCTGCGCGCCGGGATCG CCGCTCAGTGTCACGAGGGAGCGCCGCCGGCGTATGCTGTCAAGCTGAAGCTGCTGGCCG CCAAGGATTTGATCGCGGCCAACTTGAACGGCACCTCCGACCCGTACGCACTCATCACCT GCGGCCAAGATAAGCGTTTCAGCTCCATGGTTCCTGGCTCAAGAAACCCAATGTGGGGAG AGGAATTCAATTTTGTTGTTGACTGTCTTCCTGCAAAGATAAAGGTGGAACTATATGACT GGGACCTAGTATGGAAAAGCACAACACTTGGTTCTGTTACAGTTCCAGTTGAGTCTGAGA AGCAGAGTGGACCAGTTTGGTATACACTTGACAGCTCATCAGGGCGGGTTTGTCTCCATA TCAAGGCAATCAGGGTTAATGAGAGTTCCTCCAGGGCTCTAAACAACTCTGCCGAGGCTG ATGCTCGTAAAAGGATGTCCTTAGACAAAGAAGGCCCTATTGTCGTTCACCAAAAGCCAG GTCATTTACAGACAATTTTTGGGCTACCTCCAGATGAGGTTGTTGAACACAGTTATTCAT GTGCACTTGAGAGGTCATTTCTGTATCACGGCCGCATGTATGTGTCTTTATGGCACATTT GCTTCTATTCGAACATCTTCTCTAAGCAGATTAAGGTTGAGCTCCCTTTGAGAGATATTG ATGAGATAACAAAAAGCCAACTTGCAGTTATTAATCCTGCAATTACGATATTTCTTCGAA CGGGAGCTGGAGGACATGGAGTTCCTTCCTTAGGATGCCCTGATGCTAAACTAGGCGCAT GCAGTAGCGGAGCTACAATTAGACTACGTGCCAGGCAGGCTCTATGGCTACAGTGTTATG CAGTGTGCTACAGTGGTGCACGAAGAAAATCGTGACCACGCCCCAGGCCAAGGCCCTCGC TGCCTTGGGCCTGGATCCGCCTCTGGGTACATGCATAATGTGGTCTTCTCTATTTTTCGG TTTGACTGTGTTTTTTTTGCTCCCATTCAATCTTCTATGATTCTATTTCTAAGCAACATC AACATGTTTGGTATTACTACTTATTAGTCGACAGTGACGGAGTCAGCCAGCTCAAGGAGC CCGGGCAAATTCTTTACACGGTGACGTGGTAGAGCATTTGCCCAAGGAATTAGCAATGCT AATCATGGTTGTTTTGCACTAATTAGTGAAGAATGGACGGAGCAGCCCGTGCAGCTGCCC TGGGTCACCGGGAGCTAGCTCCGCCACTGTTAGTCAATGACTTGGTGTAGATTTCCGTTT CGTGAGTGTAGATTGCATTCCACCATGACTTGAGATGCAGGTTTATTTGATGTGAAATTG GTTGCAAGCTTAAGAAGTGCGGAGGAAGCTAGTGATCATGCATTCATGCTAGAAAACAGA GTAAAAGGGCTGATAAGGGTAATCTTTTCTTTTTGGAAAAGGAGGAACTTAGCCCCCGGC CTGATAAGGGTAATCTAGATAAGATGGGAGGTTTCATCAATTGCTTTATGTCACCTTTTT ATATTATTTTTGCAGGAAGAGTTAGATATATATTTGCATCGTTTTGGAACAGAAACCACA CAATTAGAGCACTGGAACAAGCTGTGAAGAACTTCCATACCATGATAGAGGCTGAGAAAC AGGAACGTGCTCGATCTGCATTACGTGCACTCAGTGGCTCAAGAAAAAATAGCATGGAGA TAGATGTTCCAGAAGATTGTGCTGATTTAATAGGTCTATTACAACCTTTTGTCAAAGAAG AAGTTCTAGTCTCTGTATTTGATGGAACATTTCCGTGTACTGCAGACCAGTTTTTCAATA ATCTTATAAGTGATGACTCAACTTACACAACAGAATATCGAACAGCTCGTCAGGATAAAG ATATCAAACTGGGCCAGTGGCACCTTGCAGACGAGTATGATGGTCAGGTGAGAGAACTTA ACTGTAAATCCATGTGCCACAGTCCGATGTGCCCTCCATATTCAGCAATTACAGAGTGGC AGCATACGGTTCTTTCAGCTAACAAAACCGATCTGGTATTCGAGACTGTACAACAAGTAC ATGATGTTCCCTTTGGTTCCTATTTTGAGATACACTGTAGATGGTCTGTGAAAACCATCG ATTCTAGTTCGTGCAGTGTTGACATTAGTGCTGGTGCACATTTCAAGAAATGGTGCATAA TGCAGTCTAAGATAAAGAGCGGTGCTGTGGACGAGTTAAAGAAGGAAACTAGAGAAATGT TAGGGTTTGCGGAGTCGTATATGCTAAAAGTTAGCTTCCCTACCCAAGAAGACAACACGG AGCCAGACGCAGATGACAAACCTGGTGATCAGTAACTCATGACAGCCTATTTGAGCATGC TCTCTTCTAATGGCAGCCACGGTCCCGTGATGGTGGTTTATGATGATACCCAGTGGACCT GTAACTGTAACTAGTCCAAATTTGATATGATTAGCTGCCTTAAAGAAGAAAAATGTTTAG GAAGTCCTATATTGTGTAAACTTTTGGCTTACGTATATCTCTTTTTCTTTAAAAGAGAAG GATAACCCTGGCCTCTGTATCATTGCATGCACACAACCATATTTATTAAACGACGA
Protein Sequence (310 aa)
>BART1_0-u47383.007 310 150831_barley_pseudomolecules RDRFCFGLRLLCSALRAGIAAQCHEGAPPAYAVKLKLLAAKDLIAANLNGTSDPYALITC GQDKRFSSMVPGSRNPMWGEEFNFVVDCLPAKIKVELYDWDLVWKSTTLGSVTVPVESEK QSGPVWYTLDSSSGRVCLHIKAIRVNESSSRALNNSAEADARKRMSLDKEGPIVVHQKPG HLQTIFGLPPDEVVEHSYSCALERSFLYHGRMYVSLWHICFYSNIFSKQIKVELPLRDID EITKSQLAVINPAITIFLRTGAGGHGVPSLGCPDAKLGACSSGATIRLRARQALWLQCYA VCYSGARRKS