- Transcript BART1_0-u51505.004
- Transcript IDBART1_0-u51505.004
- Gene IDBART1_0-u51505
Barley RTD
Exon Structure of BART1_0-u51505.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 112660066 | 112659881 | + |
| chr7H | 2 | 112660224 | 112660166 | + |
| chr7H | 3 | 112660580 | 112660502 | + |
| chr7H | 4 | 112661070 | 112660982 | + |
| chr7H | 5 | 112661592 | 112661380 | + |
| chr7H | 6 | 112662272 | 112662138 | + |
| chr7H | 7 | 112662527 | 112662396 | + |
| chr7H | 8 | 112662915 | 112662700 | + |
| chr7H | 9 | 112665447 | 112665323 | + |
| chr7H | 10 | 112665926 | 112665869 | + |
| chr7H | 11 | 112666810 | 112666039 | + |
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 | 0.601222 | 2.41121 | 0 |
| morex | ETI | 0 | 0 | 1.49857 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0.00000145757 | 0.0944186 | 0 |
| morex | ROO | 0 | 0.000177369 | 1.17934 |
| morex | ROO2 | 0.80502 | 0 | 0.614028 |
| morex | NOD | 0.599064 | 0.192423 | 0 |
| morex | RAC | 0.973812 | 0.623646 | 0.269171 |
| morex | INF1 | 4.65282 | 1.0341 | 2.41772 |
| morex | INF2 | 7.39052 | 2.52209 | 4.09863 |
| morex | CAR5 | 0 | 2.20421 | 0.566694 |
| morex | CAR15 | 1.23724 | 0.00407259 | 0.794526 |
| morex | LEM | 0.354015 | 1.06367 | 0.574943 |
| morex | LOD | 1.06849 | 0.593449 | 0.417367 |
| morex | PAL | 0.497093 | 0 | 0 |
| morex | SEN | 0 | 0.443288 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os06g14040.1 | +3 | 0.0 | 629 | 329/352 (93%) | protein|ThiF family domain containing protein, putative, expressed |
| TAIR PP10 | AT5G37530 @ ARAPORT AT5G37530.2 @ TAIR |
+3 | 8e-176 | 509 | 271/350 (77%) | Symbols: | NAD(P)-binding Rossmann-fold superfamily protein | chr5:14906505-14909020 FORWARD LENGTH=456 |
| BRACH PP3 | Bradi1g44307.5.p | +3 | 0.0 | 683 | 364/393 (93%) | pacid=32793960 transcript=Bradi1g44307.5 locus=Bradi1g44307 ID=Bradi1g44307.5.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 (2064 bp)
>BART1_0-u51505.004 2064 150831_barley_pseudomolecules CGGCTCGGTCGCCTCCAAGACTTTCCTCTACCTTCTGATCGGCCGAGCAGGGGTTAGGGT TCTAGGCGGCTGCGCCGGAGACATGGAGGAGAGGGCGAGGCAGCTGCTCCTCCTCGCCGC CGTCGCGGGCGCTGGCGCCGTAGTAGGCGGGCTCTCCGTTGCTTCCGTCTTCAGCTTCCT CTCCAGGGCGAAGCGGAGAGAGGGATACGTGCGCAAGCTGTTGGAATCCAATGGCGGTGC TGGTGGCAGTACTGGACCGGGAGCACGTCTGCATGCTAGCTCGGATCTTCTCTCTGATGA AGTTGTCGCTGAGCAGCTTACAAGTCATTGGTCTTGGAGGAGTTGGCAGTCATGCTGCTT CCATGCTCCTCAGATCTGGGGTTGGCAGGTTGCTCCTAGTAGATTTTGATCAGGTCTCAC TCTCATCACTAAATCGGCATGCTGTGGCAACCAGAGAGGACGTGGGGACCCCAAAAGCAT CATGCCTCAAGAAGCATTTCTCATTGATATATCCAGAGTGTCAAATAGAAGCAAGAGTGC AGTTGTATGATTCATCAGCTGAGGACGAAATTCTTTCTGGACAGCCAGATTTTGTTCTTG ATTGCATAGATAACATTGATACTAAGGTGTCTCTCCTTGCGGCTTGCGTACGCAGAGGGT TAAGGGTACTTTCTGCAATGGGGGCTGGAGCTCGAGCTGACCCGACCCGAATCCGTGTTG CGGATTTGAGAGAATCAAGCAATGATCCCCTTTCTCGGGCGGTACGGCATCGGCTGAAGA AGGATCATGGAATTGAAGGTGGAATACCAGTAGTTTTTTCAATGGAGAAGCCCAAGGCAA AGCTACTTCCCTTTCAAGGTTCGAAAGAAGAGGAAACTCCATCAGATTACCAGATTGTGC CAGGATTCAGGGTTCGCATTATCCCAGTACTGGGAACTATCCCTGCAATATTTGGTCAAG TTATGGCCTCCTATGTGGTTACTCAGCTTGCCCAGTTTGATTTTCAAACTGAACCAATTG TTAACCTGGATTTGGATCATTACCGCGTTCTTCACCATCGTCTTCTTGAGCACGAGGAGC TGATATATGGGTCAGCCGAGCAAGTTTTGGTTGATGCTGAAGAGGTGATGTACATTGTGA AAGAATTGTGGCGTGGCCGCAGTGCTAGGGACCAAAACATGAAGGATACTGGCCGGAAAA TGTGGAGATCTGTCAACGAACTGATGCTTGTTCGGTGGGACAAAACGAAGCCCGCTGGTG TGTCAAACTTAATACTTCTCAAGTTCAGTGAGGCGGATGCACATGAATCCACCACGCTTG ATCAGCTAAAAGATGAAGAACCTGAATTCTACGCCATGGTTTCACGTGTTCTGAAACGAG CCGAAACGGAGTTTGCTTTATGAGCTGGTCACCGATGTTACTGGATTTCTACGATTGCTA TACCGTCATAAGCCGTGCAATGCTACTGGACTAGTCAGGTAGGTTTCAGTTTTGCATGGT CTGATCTTGTGTGATAGTGACGAGGAGCAAGTAGATGATGCACACTTCCCTGAATTTTTG TTTTGGCCATAGAACTAGGACTTGTTGGTGATGCTTTGATTTCTCTGGAAGGATCCTCCT GTAATCGTCTCCCCGGGATTTTTTATGCGTTTGAGATTGTCTCATGTAAACCAAATCAGA GATTATATTGAGCATACGATATGCGGCATATTCAAATGAATTCTAAGAGATTCGAGCTGT GGATGTCCAACAGGCTCTTGCAATCAACGCCAGACGCTGCCGGGTTCGCCAAGGCGGCCC GTTGTCCTGTTCAGTAGTAGTACTACTTTTCAAGGCCATATTCCTTTATATCCTGTCGAT GGAAAAAGCCAAGACAAAGACATATCCCCTTTCACTCTGCAGCCTTTTCCAAGACAAAGC CATGTGTGTTTAATGTAGTCAATGTGGTCCTTTTCACTCCCACTTTGAGACATATGGATC CATCGTTCCTTTCCAAAAATGTAGCATTAGAATTGTGCTGACACCTGACAAGTATAGTAC CGTTGATATGCAGGCCTAAAGAAT
Protein Sequence (390 aa)
>BART1_0-u51505.004 390 150831_barley_pseudomolecules MAVLVAVLDREHVCMLARIFSLMKLSLSSLQVIGLGGVGSHAASMLLRSGVGRLLLVDFD QVSLSSLNRHAVATREDVGTPKASCLKKHFSLIYPECQIEARVQLYDSSAEDEILSGQPD FVLDCIDNIDTKVSLLAACVRRGLRVLSAMGAGARADPTRIRVADLRESSNDPLSRAVRH RLKKDHGIEGGIPVVFSMEKPKAKLLPFQGSKEEETPSDYQIVPGFRVRIIPVLGTIPAI FGQVMASYVVTQLAQFDFQTEPIVNLDLDHYRVLHHRLLEHEELIYGSAEQVLVDAEEVM YIVKELWRGRSARDQNMKDTGRKMWRSVNELMLVRWDKTKPAGVSNLILLKFSEADAHES TTLDQLKDEEPEFYAMVSRVLKRAETEFAL