- Transcript BART1_0-u30923.006
- Transcript IDBART1_0-u30923.006
- Gene IDBART1_0-u30923
Barley RTD
Exon Structure of BART1_0-u30923.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 594110003 | 594109261 | - |
| chr4H | 2 | 594111156 | 594110116 | - |
| chr4H | 3 | 594111612 | 594111468 | - |
| chr4H | 4 | 594112446 | 594112174 | - |
| chr4H | 5 | 594112801 | 594112592 | - |
| chr4H | 6 | 594113869 | 594112873 | - |
| chr4H | 7 | 594115363 | 594115181 | - |
| chr4H | 8 | 594116068 | 594115458 | - |
| chr4H | 9 | 594116646 | 594116575 | - |
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 | 1.89594 | 2.76549 | 2.5263 |
| morex | ETI | 1.25566 | 1.70536 | 2.0055 |
| morex | LEA | 1.08841 | 1.91357 | 1.06413 |
| morex | EPI | 2.30661 | 2.31826 | 1.76337 |
| morex | ROO | 1.18084 | 2.96338 | 1.66483 |
| morex | ROO2 | 0.598916 | 1.05052 | 0.965633 |
| morex | NOD | 2.74513 | 1.50165 | 1.65326 |
| morex | RAC | 1.8954 | 2.00495 | 1.82653 |
| morex | INF1 | 4.3109 | 4.22198 | 3.52291 |
| morex | INF2 | 4.24856 | 3.93929 | 6.23031 |
| morex | CAR5 | 8.29795 | 15.8055 | 6.95177 |
| morex | CAR15 | 0.983681 | 1.52655 | 0.879218 |
| morex | LEM | 1.53788 | 1.99917 | 1.64688 |
| morex | LOD | 2.84332 | 1.53283 | 2.45983 |
| morex | PAL | 1.64756 | 1.47023 | 1.96814 |
| morex | SEN | 0.99878 | 1.2208 | 1.26462 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g06950.1 | +1 | 3e-135 | 456 | 226/285 (79%) | protein|ubiquitin carboxyl-terminal hydrolase domain containing protein, expressed |
| TAIR PP10 | AT3G47910 @ ARAPORT AT3G47910.1 @ TAIR |
+1 | 5e-108 | 377 | 183/287 (64%) | Symbols: | Ubiquitin carboxyl-terminal hydrolase-related protein | chr3:17674737-17681444 REVERSE LENGTH=1606 |
| BRACH PP3 | Bradi1g74000.4.p | +1 | 2e-171 | 554 | 260/284 (92%) | pacid=32803973 transcript=Bradi1g74000.4 locus=Bradi1g74000 ID=Bradi1g74000.4.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 (4275 bp)
>BART1_0-u30923.006 4275 150831_barley_pseudomolecules CTAGGATTTGAGCTGGAGTGATCAATACATTGTTCGCCAGGACAGTGCAGATGAGGAAAC ATCAGAGCAAGCTCAGACTCTTGTTGATTGTGATGACTTTGACGGCAAACTTTCACTAAG TGATGAGTACTCAAATGAGCAAGAGGAAGAGCTTAGGCATAGAGTACAACTTGAAGCAGA GGAAAGAAAACTGGAGGAAACATTGGAGTACCAAAGGCGGATAGAGGAGGAGGCAAAGCA GAAGCATCTTGCCGAACAGTCCAGAAGTACTTCGTCAGCTCCTGATATTGGGACAAATGG TTATTCAACTGATGTAAATTCAAGCGTGCATCAGGATAACCATCAAAGTGCACCCAATAA TGTCTCACCTGCTTATCTTGAAGGGATAAAGTTTGGTGATTTTCGCTTTCCTAAAGTTCC CTCGCGGGAAAAGAATTCTAGTTCCGATTTTTGTGGTGTGGACCTGCCACAAAAGACTGA GAACAATCGCAGGGAGAAACCAAATGGACTGTGCTCTCCTGGAGCACATGCATTAACCAG CAACAATGTGGACTTCACTAAGCCAGCACTGAAAATGAACGGAGTTGGGAAATATGCTCA GAATACAAAACTTGCAACTAATCCTCTCATCCAAAGGTCTAAGAGCAGCACTAGCCAACC ACATAAGAAATACATCCAAGGTTGTGCTGTTCATAATGGTGATGATAGTGCATCTAGTCG ACAAAATGGTACAGCAGCTCTAAGATGGAGCAGTTCTGGCAAAGCAGCTGACTATTCTAG TAACAGTTATCAGGATGGAAGACAAAATGAGTTGCCACCTGTGCTTTCTTCGGATGATCC ATGGAATGCCAACAAAGCTGAGAAAGCTGACAAGGGGGCAATCTCACCTGCAATTGTATG TATCGAGGATGATTCTGACAAAAGGTTCGAAGAAGACCTCAGAAAAGCAGTGCACCAAAG CCTCGGTACATCAATGCTGTTCTCTTCCTCTCTTCACAATCTCTTGTCTTGGGCCTTGAA AGCCCATGGATATATCTATTCCACAACTAGTCAGCATCATTAATAAGCTCTTGTATTGTT TTAAGGTGTTCTTAAATTTTACAAGTGTGTAGTTGTGATTTATGTTGCACAGAACATTCT TTCCTTGTATATACTGTTTGACTTGAATTGGAGCATATGCATGGTGACATCTAGTTTGAC TTTAGCACCGACACAACTTAGATGGTTTGTGAGATAGAATTGTAGGGTTCAAATGTAATT CTGATAAGATCTATAATTTTACATGGCTATGCATTAAATATTACCTTACCTATAAGAGCT GCAGTTTTGAGGGATCTATGCTTGGTTAGGACTTCTCCCTCCTTTCCTAAATATAAGTCA TTTTAGAGATTCCACTACGAAATGCATACGAATGTATATAGACATACTTTAGAGTGTAAA TTCACTTATTTTGCTTCGTATGTAGTCCATAGTGGAATCTCTAAAAAGACTTGCGCTCCG TATTCAAGAATGGAGGGAGTAGAAGAGTATGCCTTTTGTCATTTTCCTGTGGGTTCATTA TCATTATAGATTTCTGGATTGTATGCTGGTGCTACTACATGATCAGTTTCATCCTGTAAA CACGACACTCCGATATTAATTCTCTGTGGTCCCTGCCCCACTTCCATTTCCAGCATGATC TACTACTGCTAATATTATCATTTATGTCTGTTATGTTGTCCTTTGTAATTTGGAATTATA CTTTAAGCTTATTCTTCCACTAATGATGATGCAGCAGGCACTTCAAATGGGAAAGAAGTG TATGGGGCTGGCCTTAAAAATGCTGCTGGAGAATACAACTGTTTCCTGAATGTGATTATC CAGTCATTATGGCATTTGAAGCGGTTTCGACACGAGTTCCTTAAAACATCATCACTGCAT AAGCATATTGAAGATCCTTGTGCTGTCTGTGCATTATATAATATATTCGTTGACTTGAGC AAAGCATCTGAGGGGCAAGGAGAAGCTGTTGCACCTACTTCTTTGAGGATAGCTTTGAGC AAATCCTATCCTAACAACAGGTTCTTTCAGGAGGGACAAATGAATGATGCATCTGAGGTA TTGGGTGTGATCTTTGAGTGCTTGCATAAGTCGTACACTTCTCGGGCTGAGTGCCATGCT AAATCTCACGAGGGCAATTCTATCGGCTCATGGGACTGTGCAAGCGATTTTTGCATTGCA CATTGTCTTTTTGGAATGGATGTCTATGAACGGATGAACTGCCACAATTGCGGATTAGAG TCTAGACGACTTAAGTATACCTCATTCTTCCACAATATCAATGCTAGTTCACTTCGAACT GCAAAGATGATGTGCCTAGATCCATTTGATGATCTTTTGAAGACTGTGATAATGAATGAT CAGCTAGCTTGTGATCCTGACGTTGGCGGTTGCGGAAAACCGAATCATATACACCACATT CTTTCTAGTTCCCCTCATGTTTTTACAGTTGTTTTGGGATGGCAGAACAGCAAAGAGAGT GTTGATGACATAGCTGCAACCTTGGCTGGTATTTCGACTGAGATAGACATCAGTGTTTTC TACCGTGGTCTAGATCGAGGAAGCAAACATTTTCTTGTGTCAGTGGTATGGCTACTAATT CCTGTTATGTTCTTTCCCATTTTGAATGGACATCTGATGGTACTGTTAGTTGCTGCTTCC TTAAACCTGCAGTAAATGTGTTCTGCTTATGGTGCAAGTCAGACATGTAGCTCTAAAAGA TTTCTAGTGTTCCTGTTGTATTTGCACTATGCACTACAGGATGGACTTAAGTTACAAAAA ATGTAAATATGTATGGGTAGTTATTATTTTACCCTCAGAGCTCGCTGTATCATATGTGTA TGTGTTACTGCATATTGCTGAGTTATTGAGAAGGCTAAGCTATGCCTGTCAGTACAAAGA GCAAGCAGTGAGCATATTCTGTTGGGATTCCTTTCTATTGCAGTAGAGGCAGTATATCTA GTACCCCCTCTGTAAAGAAATATAAGAGCGTTTAGATCACTATTTTAGTGATCTAAACAC TTGTATTTCTTTACGGAGGGAGTACCACTTAAGTAGCTATAATATGCTGCTACTACTGCT AAACAACTCATATTTTACAAATCAGTTTCTGTGAATCACATGAGGCAGTTCAATGTCATG TTTGTGTACCACATTACCTGCAGTAGCCAGCTACCCAAGTCAGTTCCTGTTATTCTGCAT TTTGTGGTAAGACGGAGCATCCATTCAAGTTAGATTTTGAATAGGAACTGATATTTGCTT GGTCATCTCTAAACCATTGTATCAGGACACGTAATTGTAGCAGGCATGAACTATCACTGT ATTTCTGTATATCCAGTAATTCAAGAGTATTGAAACGTATCAGCTAAAGCATCTAACGTG AGTTGTATTTTGATATTTCTTACACATGCAGGTTTGTTACTATGGGCAGCATTATCATTG CTTTGCTTTCGAGGATGAGCACTGGGTCATGTATGATGACCAGACTGTTAAGGTTATTGG TAGCTGGGATGATGTGGTCATTATGTGTGAGAAAGGTCATTTACAACCTCAAGTGCTCTT CTTTGAAGCTGCAAATTAATTTTCTTCAAAGTTCAAGGGTGCTGTGCTGTGCTGTGCTGT GCCGTGGTGTGGTTAACATGTCTTCCGAGATATAGGTTTTCCCGGTGACTGAGAAGGTTA GCGATAGAATACAAAATTCGTTTTGAGCTATGGGGGATAATGGTGGTAATTTCAGCAGTT GCACTTGCCTGTCGGTTTTGTCGAGCCCTGCCTTAAATAAATGGTCGTCCGAGCCTTTAC TAAAAGGAGAGAAGTGGTGATATATATATTTTCCTTTTGGACTTTGGATATAGCCTGACC CCATATCCTGTCGAATGCGATTTTGCCGTGGAGGACTGTAGCGGGGATAACTCTACTCGA TCATGTGCTGCCCCAGAGAAATTATTCATGAGTGCTGCTGAATTTGCTAGAAGCTTATCA ATATATACGGTTTTTTTGTGCTTACGATGTGGAGGAATGTTGTACTGTGTGTGACGAAGG GCGGGGGGTATCAAAGAAAATGGATGCTGTCATTTTTCTTTTTGTTGCAAATTCCTGGGA GGGGGTTTCTTATCATCTGTAGTGACAAAGTTGTATTATCTCAGAATGTTGTGAAGCCTG TTTTCGCTGGCCATGACGAACACGTAAAGTTATTGCTCCTGGACCTCCTGTCGCTTGTTA TCTTGCTGTTTGGTG
Protein Sequence (211 aa)
>BART1_0-u30923.006 211 150831_barley_pseudomolecules MNDASEVLGVIFECLHKSYTSRAECHAKSHEGNSIGSWDCASDFCIAHCLFGMDVYERMN CHNCGLESRRLKYTSFFHNINASSLRTAKMMCLDPFDDLLKTVIMNDQLACDPDVGGCGK PNHIHHILSSSPHVFTVVLGWQNSKESVDDIAATLAGISTEIDISVFYRGLDRGSKHFLV SVVWLLIPVMFFPILNGHLMVLLVAASLNLQ