- Transcript BART1_0-u33637.020
- Transcript IDBART1_0-u33637.020
- Gene IDBART1_0-u33637
Barley RTD
Exon Structure of BART1_0-u33637.020
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 84473806 | 84473677 | + |
| chr5H | 2 | 84474019 | 84473884 | + |
| chr5H | 3 | 84477467 | 84477275 | + |
| chr5H | 4 | 84477710 | 84477550 | + |
| chr5H | 5 | 84478810 | 84478592 | + |
| chr5H | 6 | 84479142 | 84478916 | + |
| chr5H | 7 | 84480117 | 84479843 | + |
| chr5H | 8 | 84480655 | 84480237 | + |
| chr5H | 9 | 84480831 | 84480728 | + |
| chr5H | 10 | 84483365 | 84483169 | + |
| chr5H | 11 | 84483994 | 84483785 | + |
| chr5H | 12 | 84491799 | 84491518 | + |
| chr5H | 13 | 84493157 | 84492482 | + |
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 | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 1.30414 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0.00000000506522 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 1.0387 | 0.388642 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0.169399 | 0 | 0 |
| morex | LEM | 0.00016233 | 0 | 0.326752 |
| morex | LOD | 0 | 0.0242669 | 0 |
| morex | PAL | 0.000000008484 | 0.68467 | 0.490619 |
| morex | SEN | 0 | 0.589956 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g38740.1 | +1 | 0.0 | 968 | 463/655 (71%) | protein|Dicer, putative, expressed |
| TAIR PP10 | AT3G03300 @ ARAPORT AT3G03300.2 @ TAIR |
+1 | 2e-156 | 500 | 282/664 (42%) | Symbols: DCL2 | dicer-like 2 | chr3:768020-774525 REVERSE LENGTH=1374 |
| BRACH PP3 | Bradi1g15440.3.p | +1 | 0.0 | 1018 | 491/655 (75%) | pacid=32792175 transcript=Bradi1g15440.3 locus=Bradi1g15440 ID=Bradi1g15440.3.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 (3229 bp)
>BART1_0-u33637.020 3229 150831_barley_pseudomolecules TTAGCATTTAAAAGTCCTCAAGGCAAATCTACATGGATCGTCTCGGAAAAATGCGAAGAA AGGGATATCAAAATTACACAAGGCATTCTTATATTGCACGGCTAATCTTGGAGTATGGCT AGCGGCAAAGGCTGCTGAGATACACTCAACAACTAACGAACAATTCTTATCTTTCTGGGG TGAAGAACTGGATAAGAATGTTGAAGGCTTTGTTAGAAGCTATAGTGAAGAAGTATACAG GGAACTCTCATGTTTTTCAGAGAGAGGCACATGCAAGACATAAGATGCATTGTATTTGTC GAGAGAGTTGTTACAAGCATTGTGTTGGAGTCTCTCCTGTCCATTATCAATCAAATGCCT GGGTGGATTATTAAACACATTGCAGGAAACAGACCTATGTTGCACAACCAGAGTAGAAAT AAACAAACGGAAATTGTTGACGCCTTTAAAGGAGGAAAGGTACATATAATTGTGACCACA CAAGTATTGGAGGAGGGGCTGAATGTGCCAGGTTGTCACTTAGTAATTCGCTTTGATCCA CCAACGACTGGGCGCAGCTTTATACAGTCACGTGGTCGAGCTCGGATGCCAAACTCTGAA TATGTTTTACTTGTTAGAAGGGGGGATGCAGAGGCCCTCTCTAAGACAGTGAAGTTCCTT GCAAGCGGGCAAATGATGCGGGAAGCATCTCTGAAGCTTGCATCTACTATGTGTCAACCA CTAGAAAACACCTTGTTGCAGGGAGAATATTACCGTGTTGAATCTACTGGAGCAACCGTG ACTATGAACTCAAGTGTCCAGTTGATTTATTTTTTCTGCTCGAAGCTCCCATCTGATGAA TACTTTACACCTCTTCCGAGATTCATTATTGACAAGGAACTACGTACTTGCACCTTGTAC CTTCCCAATAGCAGCCCTGTGCAGACTGTTAATGCAGAAGGAGAAGTTTCTGCCCTCAAA AAGGCAGTTTGTCTTAAGGCCTGCCGAGAATTACACGCTGTCGGCGCCCTAACAGATTAT CTGTTACCAGAATTTGGTTTTCCATGTGAAGAAGAACCCGACATTGTTGTTGAGAAATAC CAACACGAGCAGCCTGTGTACTTCCCAGAGGAATTTGTGTACAATTGGTCATCCTTTTCT CGTCTTGGAATATATTATTGCTATAAGATTTCAGTAGAAGGGTGCTTGAAAACAACTTAT TGTCCAAATGACATACTTCTAGCTGTGAAATGTGATTTGGGACCAGAGTTTGTCTCTACC TCACTTCAATTGTTTGGTGCGCAAGATAATGCTAGTCTTGCCATGAAATATGTGGGAATC ATTCATCTGAATCAAGAACAGGTAGTTATGGCCAGAAGGTTTCAGACTACTATTCTTTCT TTGCTTATTAATAAAGACCATTCTGAGGTCAGTAATGCTGTTAAATACTCCCATGAGATG CAAGTGTCCATTGGAATTGTCTACCTGCTGCTACCCTTAGTTTCTGGCAAAGTTGATTGG TGCAGTATCAAGTTCTCGACCTCGCAAGTGTATGTTGGCAGTAACAAGGATATCAGACAT TGCCATTCTTGTAAACAAGTTGATTTACTGCAAACAAAAGATGGTCCTCTGTGCAGATGC ATGCTTGAAAGTTCCATTGTTTGCACCCCTCATAATAGCAAATTCTATGCTGTTAATGGG TTCCTTGACTTAAATTCCAAATCTCTTCTGCACCTTCGTGATGGCAGTGCCCTTACCTAC ATAAACTATTTCAAGACTAGGCATGGACTCAGTCTAACACATGAAAATCAACCCCTGTTG GCAGCCAGGAGTCCTGTTGAAGTGCGGAATTTCCTCCACAAGCGCCATTATAAAAATAAA AAAGAATCGTGCACTTCACATGGTGTTGAGTTGCCACCTGAGCTCTGCAGACTAGTCATG TCACCAGTCTCTACTAATACTTTGTACAGCTTCTCGATTATTCCTTCTGTAATGTACCGC ATCCAGTGTCTGCTTCTTTCTGCAAAGTTGAAAGATCAACTGGGCCCAATAATGCAGCAG TTTGCCATACCAGCTCTGAAGATTCTAGAAGCAGTAACAACCAAGGAATGCCAAGAGGAA TTTTCACAGGAATCATTAGAAACCCTTGGGGATTCTTTCCTCAAGTACATCGCCACGCAA CATCTGTATGTCAAACACAAGCTTCAGCATGAGGGGACATTAACCAAGATGAAGAAAAAC TTAATCTCGAATGCAGCTCTATGCCAGCTGGCCTGCAACAACAATCTTGTGAGGCTTGAG TTTCTCGGAGACGCTGTGTTGGACCATCTCTTCACTATATATTTCTACAATAAGTACCCT GAATGTACTCCAGAATTGTTGACAGATCTTAGATCTGCTTCCGTTAACAACAATTGCTAT GCGCATGCAGCTGCTAAAGCAGGACTAAACAAGCACATTCTTCATTCGTCATTGCCATTG CACGGAAGGATGGCTTACTACTTTGAGAATTTTACTAAGCACCGATTTACAGGTCCATCA CATGGTTGGGAAGCTGGCATTGGTCTACCCAAGGTTCTTGGGGATGTTATTGAATCATTA GCCGGTGCCATTTATCTTGACAGCAAGTATGACAAAGAGGTGGTTTGGAGAAGCATGAAA AAGCTATTGGAGCCTCTTGCGACACCGGAGACGGTTGAGCGTGACCCAGTGAAACTGCTG CAGGAATTTTGTGATCGCAGGTCTTATAGCAGGTCTTACACAAAGGTCCAGAAAGATGGA GTGTCTTCGGTGGTTGGGGAGGTACAGGTAGAAGGGACTACCTACTCAGCAACTGGAACT GGCCCTGATAAGGTTGTCGCAAAAAAGCTTGCAGCGAAGTTGCTGCTAGAAGATCTGAAG GCTATAGTACCATGACACGCTTGCATTTGCAGATGATGCAATACTGTATAGCTCCTTCCG ACTTCACTTGTATTGTGACTAGCCTGTAGGTAGCCTTTTGAAGTTTTTGTGGGAGTATGC GTGTACTTGACAAATGTGCAGCTCAATCATTGCTTGTGAATATTCAGACTATTGAACTGC ACATCTGTGAAGTACGGGCATCGTCTCTCAGAACCATGGTACAGACGATAATGCTACAGT ATCCTTAGACTTCTACTTGTACAGTTGTAAGCACAATCTTGAGTGGAAAGCTGGAATATC TTTTTCTCTCCATCGGGCAGTGCAGTGCATGTATCTTTTATTTTTTGAG
Protein Sequence (881 aa)
>BART1_0-u33637.020 881 150831_barley_pseudomolecules MFFRERHMQDIRCIVFVERVVTSIVLESLLSIINQMPGWIIKHIAGNRPMLHNQSRNKQT EIVDAFKGGKVHIIVTTQVLEEGLNVPGCHLVIRFDPPTTGRSFIQSRGRARMPNSEYVL LVRRGDAEALSKTVKFLASGQMMREASLKLASTMCQPLENTLLQGEYYRVESTGATVTMN SSVQLIYFFCSKLPSDEYFTPLPRFIIDKELRTCTLYLPNSSPVQTVNAEGEVSALKKAV CLKACRELHAVGALTDYLLPEFGFPCEEEPDIVVEKYQHEQPVYFPEEFVYNWSSFSRLG IYYCYKISVEGCLKTTYCPNDILLAVKCDLGPEFVSTSLQLFGAQDNASLAMKYVGIIHL NQEQVVMARRFQTTILSLLINKDHSEVSNAVKYSHEMQVSIGIVYLLLPLVSGKVDWCSI KFSTSQVYVGSNKDIRHCHSCKQVDLLQTKDGPLCRCMLESSIVCTPHNSKFYAVNGFLD LNSKSLLHLRDGSALTYINYFKTRHGLSLTHENQPLLAARSPVEVRNFLHKRHYKNKKES CTSHGVELPPELCRLVMSPVSTNTLYSFSIIPSVMYRIQCLLLSAKLKDQLGPIMQQFAI PALKILEAVTTKECQEEFSQESLETLGDSFLKYIATQHLYVKHKLQHEGTLTKMKKNLIS NAALCQLACNNNLVRLEFLGDAVLDHLFTIYFYNKYPECTPELLTDLRSASVNNNCYAHA AAKAGLNKHILHSSLPLHGRMAYYFENFTKHRFTGPSHGWEAGIGLPKVLGDVIESLAGA IYLDSKYDKEVVWRSMKKLLEPLATPETVERDPVKLLQEFCDRRSYSRSYTKVQKDGVSS VVGEVQVEGTTYSATGTGPDKVVAKKLAAKLLLEDLKAIVP