- Transcript BART1_0-u52907.015
- Transcript IDBART1_0-u52907.015
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.015
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305302829 | 305302517 | - |
| chr7H | 2 | 305304132 | 305303990 | - |
| chr7H | 3 | 305304552 | 305304317 | - |
| chr7H | 4 | 305305059 | 305304860 | - |
| chr7H | 5 | 305305704 | 305305214 | - |
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 | 8.50613 | 6.93712 | 8.88104 |
| morex | LEA | 0 | 4.77075 | 11.6761 |
| morex | EPI | 7.30496 | 9.5938 | 12.9727 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0.204379 | 0.329441 | 0.302922 |
| morex | NOD | 1.99751 | 3.79011 | 4.38963 |
| morex | RAC | 2.92579 | 4.27784 | 2.17265 |
| morex | INF1 | 2.87604 | 0.0676206 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0.347518 | 0.000000365056 |
| morex | LEM | 3.22449 | 4.90899 | 3.35539 |
| morex | LOD | 0.198121 | 0.247632 | 0.985241 |
| morex | PAL | 2.30784 | 2.87243 | 1.77366 |
| morex | SEN | 4.51754 | 6.17418 | 3.40581 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g29370.1 | +3 | 0.0 | 656 | 324/388 (84%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.1 @ TAIR |
+3 | 0.0 | 573 | 283/391 (72%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437 |
| BRACH PP3 | Bradi3g34940.1.p | +3 | 0.0 | 684 | 339/390 (87%) | 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 (1383 bp)
>BART1_0-u52907.015 1383 150831_barley_pseudomolecules GGTACAACTTATGTTGAGGATATGTATTATCTGTATCTATTAACTTATATTTGTTTCATG ATTTTGCTGTTTTAATTGTCTTCTTTGAAAGGCTTGGTTGTTGTTGTAATTGTCTTCTTT GAGATTAGTTATTGCAACTGACTATAGGTTTATTCTATGAGCTGCTCTTCTCTAATTTCT AGCTACTTCAATCTCTGCAGAAAGGAAACTCATTTAGCTGGAACAAATGTGCAATTTCTA TAGCATTGTCTGTTGGATTAATTACTTGCCCACCAACATTTGGATGGTCGGCCCATGCTT TTCCGCTCGAACCTGTAATCCCTGATATTTCAGTTCTGATTTCTGGACCTCCCATTAAAG ATCCAGGGGCTTTGTTGAGATATGCTTTGCCCATAGATAATAAAGCTATTCGTGAAGTTC AAAAACCGTTAGAGGATATCACCGATAGTCTCAAAGTTTCTGGTGTTAGAGCGTTGGATT CAGTTGAAAGAAATGTGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAGTTTAATAC TTACTGGTCTTGCTGAATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAAATTAGCTG TTGGACTTGAAGAGCTTCAACGAATTATTGAGGATAGAAACAGGAATGCGGTAGCTCCAA AGCAGAAAGAGCTTCTCAATTATGTTGGAATTGTAGAAGAAGATATGGTCGATGGCTTCC CCTATGAAGTACCAGAAGAATACAACAATATGCCTCTTCTTAAAGGAAGAGCTACTGTGG ATATGACGGTTAAGATTAAAGATAATCCAAACGTAGAAGATTGTGTATTTCGGATAGTTC TGGATGGATATAATGCTCCTGTGACTTCTGGGAACTTCGTAGATCTGGTGGAACGGAAGT TCTATGATGGCATGGAAATCCAAAGAGCTGATGGTTTTGTTGTTCAGACGGGAGATCCTG AGGGGCCAGCCGACGGTTTTATTGATCCCAGTACTGGCAAGAGTCGTACCATACCTCTTG AGATAATGGTTGATGGTGACAAGGCGCCTATATACGGTGAAACACTTGAGGAATTTGATG ACAACTCCGCTTCTAGTCAAGTCTTCTGGCTCTTGAAAGAAAGTGAGTTGACGCCAAGTA ATTCCAATATATTGGATGGGCGGTATTCGGTGTTTGGATACGTAACCGAGAATGAGGATT TCTTGGCTGATCTCAAGGTGGGGGACGTTATTGAATCAATCCAGGTTGTCTCAGGCCTAG ACAATCTTGTCAACCCGAGCTACAAGATTGTAGGGTAGCATGTTTCCGTATATAAGAATT CCTTGACATGCAATTATTTTACGGTATTAAAACCGATGTCTTGTGCTGGAATTTCTAACC TTG
Protein Sequence (197 aa)
>BART1_0-u52907.015 197 150831_barley_pseudomolecules MVDGFPYEVPEEYNNMPLLKGRATVDMTVKIKDNPNVEDCVFRIVLDGYNAPVTSGNFVD LVERKFYDGMEIQRADGFVVQTGDPEGPADGFIDPSTGKSRTIPLEIMVDGDKAPIYGET LEEFDDNSASSQVFWLLKESELTPSNSNILDGRYSVFGYVTENEDFLADLKVGDVIESIQ VVSGLDNLVNPSYKIVG