- Transcript BART1_0-u51505.005
- Transcript IDBART1_0-u51505.005
- Gene IDBART1_0-u51505
Barley RTD
Exon Structure of BART1_0-u51505.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 112659944 | 112659895 | + |
| chr7H | 2 | 112660224 | 112660166 | + |
| chr7H | 3 | 112660580 | 112660502 | + |
| chr7H | 4 | 112661070 | 112660923 | + |
| 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 | 112666464 | 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 | 12.5962 | 6.94085 | 7.14633 |
| morex | ETI | 5.67121 | 3.79232 | 3.08226 |
| morex | LEA | 1.47062 | 0.569006 | 0.883495 |
| morex | EPI | 1.73994 | 3.06028 | 2.03043 |
| morex | ROO | 3.87043 | 4.68134 | 1.89495 |
| morex | ROO2 | 26.6676 | 25.5118 | 23.8992 |
| morex | NOD | 0.949584 | 4.4548 | 10.9966 |
| morex | RAC | 18.9241 | 18.0911 | 18.1325 |
| morex | INF1 | 0.195488 | 16.8552 | 22.8563 |
| morex | INF2 | 2.86948 | 13.1312 | 2.47155 |
| morex | CAR5 | 3.49951 | 8.30353 | 6.37463 |
| morex | CAR15 | 0 | 0.0998769 | 0 |
| morex | LEM | 6.35621 | 4.80476 | 8.2777 |
| morex | LOD | 11.1359 | 15.1391 | 8.52948 |
| morex | PAL | 5.57409 | 6.99277 | 6.27263 |
| morex | SEN | 4.31988 | 5.8218 | 5.31842 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os06g14040.1 | +1 | 0.0 | 701 | 384/427 (90%) | protein|ThiF family domain containing protein, putative, expressed |
| TAIR PP10 | AT5G37530 @ ARAPORT AT5G37530.2 @ TAIR |
+1 | 0.0 | 553 | 303/391 (77%) | Symbols: | NAD(P)-binding Rossmann-fold superfamily protein | chr5:14906505-14909020 FORWARD LENGTH=456 |
| BRACH PP3 | Bradi1g44307.6.p | +1 | 0.0 | 709 | 393/427 (92%) | pacid=32793958 transcript=Bradi1g44307.6 locus=Bradi1g44307 ID=Bradi1g44307.6.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 (1641 bp)
>BART1_0-u51505.005 1641 150831_barley_pseudomolecules CCAAGACTTTCCTCTACCTTCTGATCGGCCGAGCAGGGGTTAGGGTTCTAGGCGAAGCGG AGAGAGGGATACGTGCGCAAGCTGTTGGAATCCAATGGCGGTGCTGGTGGCAGTACTGGA CCGGGAGCACGTCTGCATGCTAGCTCGGATCTTCTCTCTGATGAAGTTGTCGCTGAGCAG CTTACAAGGAATATACAATTTTTTGGAGTCCAATCTCAGAAGAAAGTTACTGAATCTTTT GTTGTAGTCATTGGTCTTGGAGGAGTTGGCAGTCATGCTGCTTCCATGCTCCTCAGATCT GGGGTTGGCAGGTTGCTCCTAGTAGATTTTGATCAGGTCTCACTCTCATCACTAAATCGG CATGCTGTGGCAACCAGAGAGGACGTGGGGACCCCAAAAGCATCATGCCTCAAGAAGCAT TTCTCATTGATATATCCAGAGTGTCAAATAGAAGCAAGAGTGCAGTTGTATGATTCATCA GCTGAGGACGAAATTCTTTCTGGACAGCCAGATTTTGTTCTTGATTGCATAGATAACATT GATACTAAGGTGTCTCTCCTTGCGGCTTGCGTACGCAGAGGGTTAAGGGTACTTTCTGCA ATGGGGGCTGGAGCTCGAGCTGACCCGACCCGAATCCGTGTTGCGGATTTGAGAGAATCA AGCAATGATCCCCTTTCTCGGGCGGTACGGCATCGGCTGAAGAAGGATCATGGAATTGAA GGTGGAATACCAGTAGTTTTTTCAATGGAGAAGCCCAAGGCAAAGCTACTTCCCTTTCAA GGTTCGAAAGAAGAGGAAACTCCATCAGATTACCAGATTGTGCCAGGATTCAGGGTTCGC ATTATCCCAGTACTGGGAACTATCCCTGCAATATTTGGTCAAGTTATGGCCTCCTATGTG GTTACTCAGCTTGCCCAGTTTGATTTTCAAACTGAACCAATTGTTAACCTGGATTTGGAT CATTACCGCGTTCTTCACCATCGTCTTCTTGAGCACGAGGAGCTGATATATGGGTCAGCC GAGCAAGTTTTGGTTGATGCTGAAGAGGTGATGTACATTGTGAAAGAATTGTGGCGTGGC CGCAGTGCTAGGGACCAAAACATGAAGGATACTGGCCGGAAAATGTGGAGATCTGTCAAC GAACTGATGCTTGTTCGGTGGGACAAAACGAAGCCCGCTGGTGTGTCAAACTTAATACTT CTCAAGTTCAGTGAGGCGGATGCACATGAATCCACCACGCTTGATCAGCTAAAAGATGAA GAACCTGAATTCTACGCCATGGTTTCACGTGTTCTGAAACGAGCCGAAACGGAGTTTGCT TTATGAGCTGGTCACCGATGTTACTGGATTTCTACGATTGCTATACCGTCATAAGCCGTG CAATGCTACTGGACTAGTCAGGTAGGTTTCAGTTTTGCATGGTCTGATCTTGTGTGATAG TGACGAGGAGCAAGTAGATGATGCACACTTCCCTGAATTTTTGTTTTGGCCATAGAACTA GGACTTGTTGGTGATGCTTTGATTTCTCTGGAAGGATCCTCCTGTAATCGTCTCCCCGGG ATTTTTTATGCGTTTGAGATTGTCTCATGTAAACCAAATCAGAGATTATATTGAGCATAC GATATGCGGCATATTCAAATG
Protein Sequence (346 aa)
>BART1_0-u51505.005 346 150831_barley_pseudomolecules MLLRSGVGRLLLVDFDQVSLSSLNRHAVATREDVGTPKASCLKKHFSLIYPECQIEARVQ LYDSSAEDEILSGQPDFVLDCIDNIDTKVSLLAACVRRGLRVLSAMGAGARADPTRIRVA DLRESSNDPLSRAVRHRLKKDHGIEGGIPVVFSMEKPKAKLLPFQGSKEEETPSDYQIVP GFRVRIIPVLGTIPAIFGQVMASYVVTQLAQFDFQTEPIVNLDLDHYRVLHHRLLEHEEL IYGSAEQVLVDAEEVMYIVKELWRGRSARDQNMKDTGRKMWRSVNELMLVRWDKTKPAGV SNLILLKFSEADAHESTTLDQLKDEEPEFYAMVSRVLKRAETEFAL