- Transcript BART1_0-u47383.004
- Transcript IDBART1_0-u47383.004
- Gene IDBART1_0-u47383
Barley RTD
Exon Structure of BART1_0-u47383.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 557776138 | 557775731 | - |
| chr6H | 2 | 557776874 | 557776813 | - |
| chr6H | 3 | 557777077 | 557777014 | - |
| chr6H | 4 | 557777387 | 557777334 | - |
| chr6H | 5 | 557777826 | 557777680 | - |
| chr6H | 6 | 557778002 | 557777898 | - |
| chr6H | 7 | 557778218 | 557778128 | - |
| chr6H | 8 | 557778541 | 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 | 557784502 | 557784467 | - |
| chr6H | 18 | 557785054 | 557784651 | - |
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 | 0.870829 | 2.47886 | 2.60699 |
| morex | ETI | 5.12308 | 5.27292 | 10.0649 |
| morex | LEA | 4.85541 | 3.79305 | 3.50024 |
| morex | EPI | 2.5389 | 2.0947 | 3.53497 |
| morex | ROO | 1.41053 | 0.856802 | 1.51656 |
| morex | ROO2 | 0.859784 | 0.796781 | 0.797944 |
| morex | NOD | 7.40638 | 16.3022 | 6.41694 |
| morex | RAC | 5.70812 | 3.20042 | 4.69171 |
| morex | INF1 | 6.05733 | 5.21253 | 7.75756 |
| morex | INF2 | 8.87791 | 5.40341 | 6.37515 |
| morex | CAR5 | 7.65033 | 5.16413 | 8.30077 |
| morex | CAR15 | 1.11141 | 0.610332 | 1.53122 |
| morex | LEM | 1.96115 | 1.64213 | 1.92603 |
| morex | LOD | 3.95286 | 6.90515 | 4.49997 |
| morex | PAL | 1.38378 | 1.88827 | 1.69296 |
| morex | SEN | 1.69172 | 1.2851 | 3.07064 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g34130.1 | +3 | 0.0 | 527 | 250/301 (83%) | protein|GRAM domain containing protein, expressed |
| TAIR PP10 | AT3G59660 @ ARAPORT AT3G59660.1 @ TAIR |
+3 | 3e-180 | 428 | 201/291 (69%) | Symbols: | C2 domain-containing protein / GRAM domain-containing protein | chr3:22034426-22038484 REVERSE LENGTH=594 |
| BRACH PP3 | Bradi4g35301.1.p | +3 | 0.0 | 536 | 254/301 (84%) | pacid=32787900 transcript=Bradi4g35301.1 locus=Bradi4g35301 ID=Bradi4g35301.1.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 (2199 bp)
>BART1_0-u47383.004 2199 150831_barley_pseudomolecules CGTGGGGCCGACCGTCGTCCCCGACGAGTCAAGATTCGCGTCGCCGAGCAGCAGCAGCAG CAGCAGCCGACTGGCGGGCCACGCGACTCCGACAGCTTCCGCCTCCACCGCCCCCGTCGG CCGTCGGCCGTCGCCTCCACTCCCACTCTCCTCCCAGTCATAACCACCATCCTCCCCTTT CCTTCCCGTCCCTCTCAACTCTCATGGCCATCGCGTGCTTGCCCCACCCCACCCCCGAGA AAGAGAACCCAACCCCCACATGGCTCCGTACCCCGGCACGCTGGGAGATCGAGGTCACCT TCGCCGCCGCGACGGTCCTCGTCCTCGCCGCGCTCTACGCGCTCCTCCGCCCGCGCCGCC GCGCGCCCGCGGCTGCCGCCGACGGCCCCCAGACCGCCGACAAGTGTCACGAGGGAGCGC CGCCGGCGTATGCTGTCAAGCTGAAGCTGCTGGCCGCCAAGGATTTGATCGCGGCCAACT TGAACGGCACCTCCGACCCGTACGCACTCATCACCTGCGGCCAAGATAAGCGTTTCAGCT CCATGGTTCCTGGCTCAAGAAACCCAATGTGGGGAGAGGAATTCAATTTTGTTGTTGACT GTCTTCCTGCAAAGATAAAGGTGGAACTATATGACTGGGACCTAGTATGGAAAAGCACAA CACTTGGTTCTGTTACAGTTCCAGTTGAGTCTGAGAAGCAGAGTGGACCAGTTTGGTATA CACTTGACAGCTCATCAGGGCGGGTTTGTCTCCATATCAAGGCAATCAGGGTTAATGAGA GTTCCTCCAGGGCTCTAAACAACTCTGCCGAGGCTGATGCTCGTAAAAGGATGTCCTTAG ACAAAGAAGGCCCTATTGTCGTTCACCAAAAGCCAGGTCATTTACAGACAATTTTTGGGC TACCTCCAGATGAGGTTGTTGAACACAGTTATTCATGTGCACTTGAGAGGTCATTTCTGT ATCACGGCCGCATGTATGTGTCTTTATGGCACATTTGCTTCTATTCGAACATCTTCTCTA AGCAGATTAAGGTTGAGCTCCCTTTGAGAGATATTGATGAGATAACAAAAAGCCAACTTG CAGTTATTAATCCTGCAATTACGATATTTCTTCGAACGGGAGCTGGAGGACATGGAGTTC CTTCCTTAGGATGCCCTGATGGAAGAGTTAGATATATATTTGCATCGTTTTGGAACAGAA ACCACACAATTAGAGCACTGGAACAAGCTGTGAAGAACTTCCATACCATGATAGAGGCTG AGAAACAGGAACGTGCTCGATCTGCATTACGTGCACTCAGTGGCTCAAGAAAAAATAGCA TGGAGATAGATGTTCCAGAAGATTGTGCTGATTTAATAGGGAACATTTCCGTGTACTGCA GACCAGTTTTTCAATAATCTTATAAGTGATGACTCAACTTACACAACAGAATATCGAACA GCTCGTCAGGATAAAGATATCAAACTGGGCCAGTGGCACCTTGCAGACGAGTATGATGGT CAGGTGAGAGAACTTAACTGTAAATCCATGTGCCACAGTCCGATGTGCCCTCCATATTCA GCAATTACAGAGTGGCAGCATACGGTTCTTTCAGCTAACAAAACCGATCTGGTATTCGAG ACTGTACAACAAGTACATGATGTTCCCTTTGGTTCCTATTTTGAGATACACTGTAGATGG TCTGTGAAAACCATCGATTCTAGTTCGTGCAGTGTTGACATTAGTGCTGGTGCACATTTC AAGAAATGGTGCATAATGCAGTCTAAGATAAAGAGCGGTGCTGTGGACGAGTTAAAGAAG GAAACTAGAGAAATGTTAGGGTTTGCGGAGTCGTATATGCTAAAAGTTAGCTTCCCTACC CAAGAAGACAACACGGAGCCAGACGCAGATGACAAACCTGGTGATCAGTAACTCATGACA GCCTATTTGAGCATGCTCTCTTCTAATGGCAGCCACGGTCCCGTGATGGTGGTTTATGAT GATACCCAGTGGACCTGTAACTGTAACTAGTCCAAATTTGATATGATTAGCTGCCTTAAA GAAGAAAAATGTTTAGGAAGTCCTATATTGTGTAAACTTTTGGCTTACGTATATCTCTTT TTCTTTAAAAGAGAAGGATAACCCTGGCCTCTGTATCATTGCATGCACACAACCATATTT ATTAAACGACGAGTATCAAGATCTTTTAAAAAAAAGAGG
Protein Sequence (397 aa)
>BART1_0-u47383.004 397 150831_barley_pseudomolecules MAIACLPHPTPEKENPTPTWLRTPARWEIEVTFAAATVLVLAALYALLRPRRRAPAAAAD GPQTADKCHEGAPPAYAVKLKLLAAKDLIAANLNGTSDPYALITCGQDKRFSSMVPGSRN PMWGEEFNFVVDCLPAKIKVELYDWDLVWKSTTLGSVTVPVESEKQSGPVWYTLDSSSGR VCLHIKAIRVNESSSRALNNSAEADARKRMSLDKEGPIVVHQKPGHLQTIFGLPPDEVVE HSYSCALERSFLYHGRMYVSLWHICFYSNIFSKQIKVELPLRDIDEITKSQLAVINPAIT IFLRTGAGGHGVPSLGCPDGRVRYIFASFWNRNHTIRALEQAVKNFHTMIEAEKQERARS ALRALSGSRKNSMEIDVPEDCADLIGNISVYCRPVFQ