- Transcript BART1_0-u52907.020
- Transcript IDBART1_0-u52907.020
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.020
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305304132 | 305303326 | - |
| chr7H | 2 | 305304585 | 305304300 | - |
| chr7H | 3 | 305306732 | 305304860 | - |
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 | 3.26834 | 3.3722 |
| morex | ETI | 11.3041 | 9.45915 | 6.89495 |
| morex | LEA | 5.56616 | 5.36284 | 3.69629 |
| morex | EPI | 11.1825 | 5.37167 | 11.6929 |
| morex | ROO | 0.112307 | 0.838377 | 0.750738 |
| morex | ROO2 | 0.180139 | 0.337102 | 0.189448 |
| morex | NOD | 4.49346 | 2.38275 | 1.64259 |
| morex | RAC | 1.76483 | 1.52637 | 1.60213 |
| morex | INF1 | 7.40308 | 6.78091 | 7.58173 |
| morex | INF2 | 26.6356 | 12.5241 | 16.5052 |
| morex | CAR5 | 8.59739 | 7.4871 | 8.29328 |
| morex | CAR15 | 0.524663 | 0.661565 | 0.589225 |
| morex | LEM | 1.40514 | 1.36181 | 2.32927 |
| morex | LOD | 0.923587 | 0.723349 | 0.887686 |
| morex | PAL | 1.75237 | 2.4344 | 2.64946 |
| morex | SEN | 6.03689 | 5.63677 | 4.0008 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g29370.1 | +3 | 5e-102 | 260 | 128/158 (81%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.1 @ TAIR |
+3 | 2e-89 | 231 | 108/158 (68%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437 |
| BRACH PP3 | Bradi3g34940.1.p | +3 | 1e-105 | 269 | 133/158 (84%) | 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 (2966 bp)
>BART1_0-u52907.020 2966 150831_barley_pseudomolecules CACCAATCGCAACCCGCCCCCCGCTCCTATGGCTCCATATTTTGTCCGGCCTTATCCACA TCCCGAAACCACCACCAGCTCCTCCGCTTCCATCGTTTTTCCTACCACCAACGCCCGCTT CACCGGAACCGTACCCCCACCCAACCGCATGGCCGCGGCGCTCGCCTCCTCCCGCTGCTG CCGCCGCCCTTCGCTTCTTAACAGTGATCGTCGCCGCCGCTCCGTCGTCCGGTGCGCGCT CTCCGGCGAGGTTAGGATCTTACAACTCATTACGGTGGCTCCTGGAAGATAGCTCCTGGT GGACATTCTGCTTTTGGATGATGCATGCCAATGTGGCTCAGTATTGCTGCATTTCTAAAT ACAGTTGTGCCCGGGTATTTATTGATGCGATGGGATTGTTTTTAATTATGTGGTGAATGT AGATCTTGGGTGGGTGGGTATAACTATGCAATTTGGCCTGAAAGTGAAAGATGGTACCGA ATGTTGGTGCACAAACACAACCAATGTTACTGTTTTCTTGGATGACAAAAAGTTGAATAT TACTTTAAAATGAAAGTTAGAAGAAATCATGTGTAAATTTAGTTAATGTTGCTGATGAAT TAGGGATGTATGTTATATGCACTAAATATAGTTTGAGAAAATGGGGGATTTTCGGAAAAC ATGAATCTGGGGGCAGGAGGGGTAGCAATTCAGCTTCTTCTGGACATCAATATCTTCGGG TCTTGCTTGATATTATAATTTGAAGTTCATGTGAAAATGGAATAACTGTAACCAAATGAT AATTTTGTGTAATTCATGAAAATGGTTCGAGTACTGAGTTCTTCGGAAGGATTGGAACGT GTAGAATTGATTTTTTTTGTCTTCCCAAAGTAGCTTCTTTGGTTATCAGATTTCTCCGTT TCTGCCCTTGGATATTTGCGCTGATATTAGATATTGTAGCGCATATGGAACCACCCAGTA AGGCAGTTTACATATATGACCCTTAATTTTCTTTCCTGGATATATTTTGAAGAATGCATG CTTTGGAAGGTACAACTTATGTTGAGGATATGTATTATCTGTATCTATTAACTTATATTT GTTTCATGATTTTGCTGTTTTAATTGTCTTCTTTGAAAGGCTTGGTTGTTGTTGTAATTG TCTTCTTTGAGATTAGTTATTGCAACTGACTATAGGTTTATTCTATGAGCTGCTCTTCTC TAATTTCTAGCTACTTCAATCTCTGCAGAAAGGAAACTCATTTAGCTGGAACAAATGTGC AATTTCTATAGCATTGTCTGTTGGATTAATTACTTGCCCACCAACATTTGGATGGTCGGC CCATGCTTTTCCGCTCGAACCTGTAATCCCTGATATTTCAGTTCTGATTTCTGGACCTCC CATTAAAGATCCAGGGGCTTTGTTGAGATATGCTTTGCCCATAGATAATAAAGCTATTCG TGAAGTTCAAAAACCGTTAGAGGATATCACCGATAGTCTCAAAGTTTCTGGTGTTAGAGC GTTGGATTCAGTTGAAAGAGTAAGTCATCCATTCAAGATGCCTAGTAACAAAGATCTATA TTTTCGCTCTTTCTTTAAAGAAGTAGGAAGCAGCTATATATTGTCTCAGGTTTCTTCAAT CTACTTTATGCATATGGATCCTGGGATTTTTTTAATCTTTCTTCAAATTGTAGAATGTGA GGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAGTTTAATACTTACTGGTCTTGCTGAAT CAAAAAGAGAAAATGGAGAAAAAATATTGGATAAATTAGCTGTTGGACTTGAAGAGCTTC AACGAATTATTGAGGATAGAAACAGGAATGCGGTAGCTCCAAAGCAGAAAGAGCTTCTCA ATTATGTTGGAATCTGAGATCTTCCTGGGACATTGCATTTCTGCAGTGTAGAAGAAGATA TGGTCGATGGCTTCCCCTATGAAGTACCAGAAGAATACAACAATATGCCTCTTCTTAAAG GAAGAGCTACTGTGGATATGACGGTTAAGATTAAAGATAATCCAAACGTAGAAGATTGTG TATTTCGGATAGTTCTGGATGGATATAATGCTCCTGTGACTTCTGGGAACTTCGTAGATC TGGTGGAACGGAAGTTCTATGATGGCATGGAAATCCAAAGAGGTAATCCAATATCTGAGC TGATGGTTTTGTTGTTCAGACGGGAGATCCTGAGGGGCCAGCCGACGGTTTTATTGATCC CAGTACTGGCAAGAGTCGTACCATACCTCTTGAGATAATGGTTGATGGTGACAAGGCGCC TATATACGGTGAAACACTTGAGGTATGCAACCAGCAGTTTTTTTATTTTTATTTCATGGC TGCTGGGAATTCTGGCTGCTTCGGATTGAATGTTCTTACAGTTTGTATGGCCATGCATTT CAGGAACTTGGCCTTTACAAGGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAACGATG GCAATGGCTAGAGAAGTAAGGCTCACCTAGACTCTTTAGTTTTAACATATCAAGGATATG CCAAAATAATTATTACATCCTCCAGAAATATAAAGTGCACATGCTTCCCCAAATTTATCG TTGATCACGAATTTGTTCAGCAATATGTGATACAAAGTTGATACTCCCTCTGTCCCATAA TATAAGATGTTAATACAACCATATTGGTTCATTTATAGTTGGATTATTCTTCGGAGGTTA AACTTCAATAACGGGTACGTCTTATGTTTCTGGATGGAGGGAGTAACATTTTCTTAGTTG TAACCAAGGTTTTTTCTTCTTCTTCTTCTCGATAATGTTTTTTTGGATGGGCTAGAAGAA TTGGTTTCTGGAAAATATCAGTATTCAGACAAAATTTGAAATCATTTTGTTTTGGGACAA AATATAAGTTTGCAGCCTGACCTACATATAGCTGCGCGTGTCCAAGCAGTTAGTACAATT CATCTGTTCCTCAAAGTAAGTCTCGG
Protein Sequence (112 aa)
>BART1_0-u52907.020 112 150831_barley_pseudomolecules MVDGFPYEVPEEYNNMPLLKGRATVDMTVKIKDNPNVEDCVFRIVLDGYNAPVTSGNFVD LVERKFYDGMEIQRGNPISELMVLLFRREILRGQPTVLLIPVLARVVPYLLR