- Transcript BART1_0-u52907.016
- Transcript IDBART1_0-u52907.016
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.016
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305302829 | 305302584 | - |
| chr7H | 2 | 305303888 | 305303817 | - |
| chr7H | 3 | 305304132 | 305303990 | - |
| chr7H | 4 | 305304585 | 305304317 | - |
| chr7H | 5 | 305305504 | 305305214 | - |
| chr7H | 6 | 305306709 | 305306483 | - |
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 | 0 | 0 |
| morex | ETI | 2.1417 | 0.895516 | 0.88973 |
| morex | LEA | 4.49897 | 0 | 0 |
| morex | EPI | 0.0614998 | 14.0693 | 22.0223 |
| morex | ROO | 1.01894 | 0 | 0.860109 |
| morex | ROO2 | 0 | 0.274059 | 0.566966 |
| morex | NOD | 1.34698 | 1.61578 | 0 |
| morex | RAC | 0 | 1.45042 | 4.03833 |
| morex | INF1 | 0 | 0 | 0.0000000117546 |
| morex | INF2 | 2.52921 | 4.11342 | 4.49248 |
| morex | CAR5 | 0.815266 | 0 | 2.46093 |
| morex | CAR15 | 0 | 0 | 2.02783 |
| morex | LEM | 0.917039 | 0.519498 | 3.13717 |
| morex | LOD | 1.6708 | 1.83356 | 0.846319 |
| morex | PAL | 4.60419 | 1.51628 | 1.63589 |
| morex | SEN | 2.12819 | 4.42887 | 0.913979 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g29370.1 | +1 | 2e-152 | 439 | 209/227 (92%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.1 @ TAIR |
+1 | 1e-143 | 416 | 196/225 (87%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437 |
| BRACH PP3 | Bradi3g34940.1.p | +1 | 6e-156 | 447 | 215/227 (95%) | pacid=32818759 transcript=Bradi3g34940.1 locus=Bradi3g34940 ID=Bradi3g34940.1.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 (1248 bp)
>BART1_0-u52907.016 1248 150831_barley_pseudomolecules CTCCTATGGCTCCATATTTTGTCCGGCCTTATCCACATCCCGAAACCACCACCAGCTCCT CCGCTTCCATCGTTTTTCCTACCACCAACGCCCGCTTCACCGGAACCGTACCCCCACCCA ACCGCATGGCCGCGGCGCTCGCCTCCTCCCGCTGCTGCCGCCGCCCTTCGCTTCTTAACA GTGATCGTCGCCGCCGCTCCGTCGTCCGGTGCGCGCTCTCCGGCGAGAAAGGAAACTCAT TTAGCTGGAACAAATGTGCAATTTCTATAGCATTGTCTGTTGGATTAATTACTTGCCCAC CAACATTTGGATGGTCGGCCCATGCTTTTCCGCTCGAACCTGTAATCCCTGATATTTCAG TTCTGATTTCTGGACCTCCCATTAAAGATCCAGGGGCTTTGTTGAGATATGCTTTGCCCA TAGATAATAAAGCTATTCGTGAAGTTCAAAAACCGTTAGAGGATATCACCGATAGTCTCA AAGTTTCTGGTGTTAGAGCGTTGGATTCAGTTGAAAGACTGAGATCTTCCTGGGACATTG CATTTCTGCAGTGTAGAAGAAGATATGGTCGATGGCTTCCCCTATGAAGTACCAGAAGAA TACAACAATATGCCTCTTCTTAAAGGAAGAGCTACTGTGGATATGACGGTTAAGATTAAA GATAATCCAAACGTAGAAGATTGTGTATTTCGGATAGTTCTGGATGGATATAATGCTCCT GTGACTTCTGGGAACTTCGTAGATCTGGTGGAACGGAAGTTCTATGATGGCATGGAAATC CAAAGAGCTGATGGTTTTGTTGTTCAGACGGGAGATCCTGAGGGGCCAGCCGACGGTTTT ATTGATCCCAGTACTGGCAAGAGTCGTACCATACCTCTTGAGATAATGGTTGATGGTGAC AAGGCGCCTATATACGGTGAAACACTTGAGGAACTTGGCCTTTACAAGGCTCAAACAAAG CTTCCTTTTAATGCATTTGGAACGATGGCAATGGCTAGAGAAGAATTTGATGACAACTCC GCTTCTAGTCAAGTCTTCTGGCTCTTGAAAGAAAGTGAGTTGACGCCAAGTAATTCCAAT ATATTGGATGGGCGGTATTCGGTGTTTGGATACGTAACCGAGAATGAGGATTTCTTGGCT GATCTCAAGGTGGGGGACGTTATTGAATCAATCCAGGTTGTCTCAGGCCTAGACAATCTT GTCAACCCGAGCTACAAGATTGTAGGGTAGCATGTTTCCGTATATAAG
Protein Sequence (221 aa)
>BART1_0-u52907.016 221 150831_barley_pseudomolecules MVDGFPYEVPEEYNNMPLLKGRATVDMTVKIKDNPNVEDCVFRIVLDGYNAPVTSGNFVD LVERKFYDGMEIQRADGFVVQTGDPEGPADGFIDPSTGKSRTIPLEIMVDGDKAPIYGET LEELGLYKAQTKLPFNAFGTMAMAREEFDDNSASSQVFWLLKESELTPSNSNILDGRYSV FGYVTENEDFLADLKVGDVIESIQVVSGLDNLVNPSYKIVG