- Transcript BART1_0-u52907.014
- Transcript IDBART1_0-u52907.014
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.014
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305302829 | 305302411 | - |
| chr7H | 2 | 305303888 | 305303817 | - |
| chr7H | 3 | 305304132 | 305303990 | - |
| chr7H | 4 | 305305059 | 305304317 | - |
| chr7H | 5 | 305306720 | 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 | 0.944926 | 1.28189 |
| morex | ETI | 3.13117 | 2.3503 | 3.55717 |
| morex | LEA | 3.66903 | 2.42762 | 5.42522 |
| morex | EPI | 25.0735 | 9.95692 | 24.2389 |
| morex | ROO | 0 | 0.536233 | 0 |
| morex | ROO2 | 0.282037 | 0.470008 | 0.444013 |
| morex | NOD | 0 | 1.09988 | 2.34511 |
| morex | RAC | 0.666537 | 2.37636 | 0.623986 |
| morex | INF1 | 1.00507 | 1.58944 | 3.46082 |
| morex | INF2 | 8.89702 | 4.20747 | 3.04459 |
| morex | CAR5 | 1.01568 | 1.86584 | 1.60085 |
| morex | CAR15 | 0.298397 | 0.223132 | 0 |
| morex | LEM | 0.236935 | 0.772823 | 2.0362 |
| morex | LOD | 0.385616 | 0.490308 | 1.29116 |
| morex | PAL | 0.846176 | 1.68567 | 1.18816 |
| morex | SEN | 2.82753 | 2.11748 | 4.90862 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g29370.1 | +3 | 2e-150 | 439 | 209/227 (92%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.1 @ TAIR |
+3 | 7e-142 | 416 | 196/225 (87%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437 |
| BRACH PP3 | Bradi3g34940.1.p | +3 | 6e-154 | 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 (1615 bp)
>BART1_0-u52907.014 1615 150831_barley_pseudomolecules CCCGCCCCCCGCTCCTATGGCTCCATATTTTGTCCGGCCTTATCCACATCCCGAAACCAC CACCAGCTCCTCCGCTTCCATCGTTTTTCCTACCACCAACGCCCGCTTCACCGGAACCGT ACCCCCACCCAACCGCATGGCCGCGGCGCTCGCCTCCTCCCGCTGCTGCCGCCGCCCTTC GCTTCTTAACAGTGATCGTCGCCGCCGCTCCGTCGTCCGGTGCGCGCTCTCCGGCGAGAA TGTGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAGTTTAATACTTACTGGTCTTGC TGAATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAAATTAGCTGTTGGACTTGAAGA GCTTCAACGAATTATTGAGGATAGAAACAGGAATGCGGTAGCTCCAAAGCAGAAAGAGCT TCTCAATTATGTTGGAATGTGAGTAAAATGATCGCCTTAAATTTAAATTGGATCTGCTTC CATAATTTTAGTCAGTTCTAATAACCAACTTTCGGGGGTCAGATTTGGTAGTTGTCTTTT TAGAAAATTATGGTTTCCATCTATAATATTCTCATTTCATCGAAACCAAGGTAACTGTTA CATATGATACCTTTGTAGCATTAGAGAACCGAATTGTATCTACCAGTAAAAAACTACTGA GAACTCTTATGAAAGAGCTCTTCTCATTTATACCTTGCCATTGACTCTGCAGCTGAGATC TTCCTGGGACATTGCATTTCTGCAGTGTAGAAGAAGATATGGTCGATGGCTTCCCCTATG AAGTACCAGAAGAATACAACAATATGCCTCTTCTTAAAGGAAGAGCTACTGTGGATATGA CGGTTAAGATTAAAGATAATCCAAACGTAGAAGATTGTGTATTTCGGATAGTTCTGGATG GATATAATGCTCCTGTGACTTCTGGGAACTTCGTAGATCTGGTGGAACGGAAGTTCTATG ATGGCATGGAAATCCAAAGAGCTGATGGTTTTGTTGTTCAGACGGGAGATCCTGAGGGGC CAGCCGACGGTTTTATTGATCCCAGTACTGGCAAGAGTCGTACCATACCTCTTGAGATAA TGGTTGATGGTGACAAGGCGCCTATATACGGTGAAACACTTGAGGAACTTGGCCTTTACA AGGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAACGATGGCAATGGCTAGAGAAGAAT TTGATGACAACTCCGCTTCTAGTCAAGTCTTCTGGCTCTTGAAAGAAAGTGAGTTGACGC CAAGTAATTCCAATATATTGGATGGGCGGTATTCGGTGTTTGGATACGTAACCGAGAATG AGGATTTCTTGGCTGATCTCAAGGTGGGGGACGTTATTGAATCAATCCAGGTTGTCTCAG GCCTAGACAATCTTGTCAACCCGAGCTACAAGATTGTAGGGTAGCATGTTTCCGTATATA AGAATTCCTTGACATGCAATTATTTTACGGTATTAAAACCGATGTCTTGTGCTGGAATTT CTAACCTTGTACCATTGTTTTGTTTTCCTTTTTGTGCTTACATATACTCCCTCCGATCCT AAATATAAGTCTTTTTAGAGATTTCACTAAAGGATTACATATGATGCAAAATGAG
Protein Sequence (221 aa)
>BART1_0-u52907.014 221 150831_barley_pseudomolecules MVDGFPYEVPEEYNNMPLLKGRATVDMTVKIKDNPNVEDCVFRIVLDGYNAPVTSGNFVD LVERKFYDGMEIQRADGFVVQTGDPEGPADGFIDPSTGKSRTIPLEIMVDGDKAPIYGET LEELGLYKAQTKLPFNAFGTMAMAREEFDDNSASSQVFWLLKESELTPSNSNILDGRYSV FGYVTENEDFLADLKVGDVIESIQVVSGLDNLVNPSYKIVG