- Transcript BART1_0-u33637.009
- Transcript IDBART1_0-u33637.009
- Gene IDBART1_0-u33637
Barley RTD
Exon Structure of BART1_0-u33637.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 84465569 | 84465563 | + |
| chr5H | 2 | 84473806 | 84473681 | + |
| chr5H | 3 | 84474019 | 84473884 | + |
| chr5H | 4 | 84476025 | 84475935 | + |
| chr5H | 5 | 84477710 | 84477550 | + |
| chr5H | 6 | 84478810 | 84478592 | + |
| chr5H | 7 | 84479142 | 84478916 | + |
| chr5H | 8 | 84480117 | 84479843 | + |
| chr5H | 9 | 84480655 | 84480237 | + |
| chr5H | 10 | 84480831 | 84480728 | + |
| chr5H | 11 | 84483365 | 84483169 | + |
| chr5H | 12 | 84483994 | 84483785 | + |
| chr5H | 13 | 84490180 | 84489767 | + |
| chr5H | 14 | 84491799 | 84491518 | + |
| chr5H | 15 | 84493228 | 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 | 0.545513 | 1.78309 | 0.641494 |
| morex | ETI | 0 | 1.77216 | 4.77681 |
| morex | LEA | 4.06001 | 0.000000359118 | 0.525682 |
| morex | EPI | 0.0000426534 | 0.000357127 | 1.0135 |
| morex | ROO | 0 | 2.38421 | 0.0280798 |
| morex | ROO2 | 0 | 1.67254 | 1.69722 |
| morex | NOD | 0 | 1.29536 | 0.00000166255 |
| morex | RAC | 0.00000022117 | 0.962293 | 0.000312942 |
| morex | INF1 | 5.62055 | 4.88394 | 0.974862 |
| morex | INF2 | 7.6883 | 3.59303 | 5.93588 |
| morex | CAR5 | 0.491135 | 2.78701 | 0.0179846 |
| morex | CAR15 | 0.00000000628074 | 0.00000134803 | 0.00103132 |
| morex | LEM | 2.9319 | 0.720098 | 0.0000571229 |
| morex | LOD | 0.0000629738 | 1.68652 | 1.2338 |
| morex | PAL | 0.000000347434 | 0.0605582 | 1.00831 |
| morex | SEN | 1.61426 | 0.00000000736163 | 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 | 1349 | 665/928 (72%) | protein|Dicer, putative, expressed |
| TAIR PP10 | AT3G03300 @ ARAPORT AT3G03300.3 @ TAIR |
+1 | 0.0 | 698 | 395/910 (43%) | Symbols: DCL2 | dicer-like 2 | chr3:768020-774833 REVERSE LENGTH=1388 |
| BRACH PP3 | Bradi1g15440.1.p | +1 | 0.0 | 1449 | 727/927 (78%) | pacid=32792173 transcript=Bradi1g15440.1 locus=Bradi1g15440 ID=Bradi1g15440.1.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 (3615 bp)
>BART1_0-u33637.009 3615 150831_barley_pseudomolecules ACCAAAGCATTTAAAAGTCCTCAAGGCAAATCTACATGGATCGTCTCGGAAAAATGCGAA GAAAGGGATATCAAAATTACACAAGGCATTCTTATATTGCACGGCTAATCTTGGAGTATG GCTAGCGGCAAAGGCTGCTGAGATACACTCAACAACTAACGAACAATTCTTATCTTTCTG GGGTGAAGAACTGGATAAGAATGTTGAAGGCTTTGTTAGAAGCTATAGTGAAGAAGTATA CAGGGAACTCTCATGTTTTTCAGAGAGAGGTCATATTGGTAAAGATTTTGAAGCTGATTT GCAAGATGGGTTATTGACACCTAAAGTTCATTGTCTTGTTCAGTTTCTTCTGGAATACAG GTACATATAATTGTGACCACACAAGTATTGGAGGAGGGGCTGAATGTGCCAGGTTGTCAC TTAGTAATTCGCTTTGATCCACCAACGACTGGGCGCAGCTTTATACAGTCACGTGGTCGA GCTCGGATGCCAAACTCTGAATATGTTTTACTTGTTAGAAGGGGGGATGCAGAGGCCCTC TCTAAGACAGTGAAGTTCCTTGCAAGCGGGCAAATGATGCGGGAAGCATCTCTGAAGCTT GCATCTACTATGTGTCAACCACTAGAAAACACCTTGTTGCAGGGAGAATATTACCGTGTT GAATCTACTGGAGCAACCGTGACTATGAACTCAAGTGTCCAGTTGATTTATTTTTTCTGC TCGAAGCTCCCATCTGATGAATACTTTACACCTCTTCCGAGATTCATTATTGACAAGGAA CTACGTACTTGCACCTTGTACCTTCCCAATAGCAGCCCTGTGCAGACTGTTAATGCAGAA GGAGAAGTTTCTGCCCTCAAAAAGGCAGTTTGTCTTAAGGCCTGCCGAGAATTACACGCT GTCGGCGCCCTAACAGATTATCTGTTACCAGAATTTGGTTTTCCATGTGAAGAAGAACCC GACATTGTTGTTGAGAAATACCAACACGAGCAGCCTGTGTACTTCCCAGAGGAATTTGTG TACAATTGGTCATCCTTTTCTCGTCTTGGAATATATTATTGCTATAAGATTTCAGTAGAA GGGTGCTTGAAAACAACTTATTGTCCAAATGACATACTTCTAGCTGTGAAATGTGATTTG GGACCAGAGTTTGTCTCTACCTCACTTCAATTGTTTGGTGCGCAAGATAATGCTAGTCTT GCCATGAAATATGTGGGAATCATTCATCTGAATCAAGAACAGGTAGTTATGGCCAGAAGG TTTCAGACTACTATTCTTTCTTTGCTTATTAATAAAGACCATTCTGAGGTCAGTAATGCT GTTAAATACTCCCATGAGATGCAAGTGTCCATTGGAATTGTCTACCTGCTGCTACCCTTA GTTTCTGGCAAAGTTGATTGGTGCAGTATCAAGTTCTCGACCTCGCAAGTGTATGTTGGC AGTAACAAGGATATCAGACATTGCCATTCTTGTAAACAAGTTGATTTACTGCAAACAAAA GATGGTCCTCTGTGCAGATGCATGCTTGAAAGTTCCATTGTTTGCACCCCTCATAATAGC AAATTCTATGCTGTTAATGGGTTCCTTGACTTAAATTCCAAATCTCTTCTGCACCTTCGT GATGGCAGTGCCCTTACCTACATAAACTATTTCAAGACTAGGCATGGACTCAGTCTAACA CATGAAAATCAACCCCTGTTGGCAGCCAGGAGTCCTGTTGAAGTGCGGAATTTCCTCCAC AAGCGCCATTATAAAAATAAAAAAGAATCGTGCACTTCACATGGTGTTGAGTTGCCACCT GAGCTCTGCAGACTAGTCATGTCACCAGTCTCTACTAATACTTTGTACAGCTTCTCGATT ATTCCTTCTGTAATGTACCGCATCCAGTGTCTGCTTCTTTCTGCAAAGTTGAAAGATCAA CTGGGCCCAATAATGCAGCAGTTTGCCATACCAGCTCTGAAGATTCTAGAAGCAGTAACA ACCAAGGAATGCCAAGAGGAATTTTCACAGGAATCATTAGAAACCCTTGGGGATTCTTTC CTCAAGTACATCGCCACGCAACATCTGTATGTCAAACACAAGCTTCAGCATGAGGGGACA TTAACCAAGATGAAGAAAAACTTAATCTCGAATGCAGCTCTATGCCAGCTGGCCTGCAAC AACAATCTTGTGGGTTACATTCAAGGGGAAGAGTTTAACCCAAAAGGTTGGATCATTCCA GGGCTTGGTTATGACATGTGTGGTAACAGCAAATTTTCCTTTTTAAGCTCCAATGATATG CACACTTTGAGGAAAATGTCTGTTAGAAGTAAGAGAATAGCAGATACAGTTGAGGCATTG ATTGGAGCCTACCTTGGTGCTGCGGGAGAACAGGCTGCATTTGTTTTCCTAAAATCATTA GGATTGGATATAGGATTTCACAGCACTATTCCACTTGAAAGGAAGATTGTATTAAAATCT GAAAAGTTCATCAACGTGAGAAGTTTGGAAATGATTCTTGGTTATGAGTTCAAGGATACT TCATTGTTGGTGGAAGCATTGACACATGGGTCATACCAGACTGCTGGCACTACTGCATGC TATCAGAGGCTTGAGTTTCTCGGAGACGCTGTGTTGGACCATCTCTTCACTATATATTTC TACAATAAGTACCCTGAATGTACTCCAGAATTGTTGACAGATCTTAGATCTGCTTCCGTT AACAACAATTGCTATGCGCATGCAGCTGCTAAAGCAGGACTAAACAAGCACATTCTTCAT TCGTCATTGCCATTGCACGGAAGGATGGCTTACTACTTTGAGAATTTTACTAAGCACCGA TTTACAGGTCCATCACATGGTTGGGAAGCTGGCATTGGTCTACCCAAGGTTCTTGGGGAT GTTATTGAATCATTAGCCGGTGCCATTTATCTTGACAGCAAGTATGACAAAGAGGTGGTT TGGAGAAGCATGAAAAAGCTATTGGAGCCTCTTGCGACACCGGAGACGGTTGAGCGTGAC CCAGTGAAACTGCTGCAGGAATTTTGTGATCGCAGGTCTTATAGCAGGTCTTACACAAAG GTCCAGAAAGATGGAGTGTCTTCGGTGGTTGGGGAGGTACAGGTAGAAGGGACTACCTAC TCAGCAACTGGAACTGGCCCTGATAAGGTTGTCGCAAAAAAGCTTGCAGCGAAGTTGCTG CTAGAAGATCTGAAGGCTATAGTACCATGACACGCTTGCATTTGCAGATGATGCAATACT GTATAGCTCCTTCCGACTTCACTTGTATTGTGACTAGCCTGTAGGTAGCCTTTTGAAGTT TTTGTGGGAGTATGCGTGTACTTGACAAATGTGCAGCTCAATCATTGCTTGTGAATATTC AGACTATTGAACTGCACATCTGTGAAGTACGGGCATCGTCTCTCAGAACCATGGTACAGA CGATAATGCTACAGTATCCTTAGACTTCTACTTGTACAGTTGTAAGCACAATCTTGAGTG GAAAGCTGGAATATCTTTTTCTCTCCATCGGGCAGTGCAGTGCATGTATCTTTTATTTTT TGAGCGGGGGTACCTTTTGTAGGGCTGGTAATTGTTTTTTTTAAATGGCAGGATGCATTG TTAAGAAGAAAAGAT
Protein Sequence (907 aa)
>BART1_0-u33637.009 907 150831_barley_pseudomolecules MPNSEYVLLVRRGDAEALSKTVKFLASGQMMREASLKLASTMCQPLENTLLQGEYYRVES TGATVTMNSSVQLIYFFCSKLPSDEYFTPLPRFIIDKELRTCTLYLPNSSPVQTVNAEGE VSALKKAVCLKACRELHAVGALTDYLLPEFGFPCEEEPDIVVEKYQHEQPVYFPEEFVYN WSSFSRLGIYYCYKISVEGCLKTTYCPNDILLAVKCDLGPEFVSTSLQLFGAQDNASLAM KYVGIIHLNQEQVVMARRFQTTILSLLINKDHSEVSNAVKYSHEMQVSIGIVYLLLPLVS GKVDWCSIKFSTSQVYVGSNKDIRHCHSCKQVDLLQTKDGPLCRCMLESSIVCTPHNSKF YAVNGFLDLNSKSLLHLRDGSALTYINYFKTRHGLSLTHENQPLLAARSPVEVRNFLHKR HYKNKKESCTSHGVELPPELCRLVMSPVSTNTLYSFSIIPSVMYRIQCLLLSAKLKDQLG PIMQQFAIPALKILEAVTTKECQEEFSQESLETLGDSFLKYIATQHLYVKHKLQHEGTLT KMKKNLISNAALCQLACNNNLVGYIQGEEFNPKGWIIPGLGYDMCGNSKFSFLSSNDMHT LRKMSVRSKRIADTVEALIGAYLGAAGEQAAFVFLKSLGLDIGFHSTIPLERKIVLKSEK FINVRSLEMILGYEFKDTSLLVEALTHGSYQTAGTTACYQRLEFLGDAVLDHLFTIYFYN KYPECTPELLTDLRSASVNNNCYAHAAAKAGLNKHILHSSLPLHGRMAYYFENFTKHRFT GPSHGWEAGIGLPKVLGDVIESLAGAIYLDSKYDKEVVWRSMKKLLEPLATPETVERDPV KLLQEFCDRRSYSRSYTKVQKDGVSSVVGEVQVEGTTYSATGTGPDKVVAKKLAAKLLLE DLKAIVP