- Transcript BART1_0-u33637.011
- Transcript IDBART1_0-u33637.011
- Gene IDBART1_0-u33637
Barley RTD
Exon Structure of BART1_0-u33637.011
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 84473806 | 84473208 | + |
| chr5H | 2 | 84474019 | 84473884 | + |
| chr5H | 3 | 84476028 | 84475935 | + |
| chr5H | 4 | 84477467 | 84477275 | + |
| 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 | 84493207 | 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 | 3.1181 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0.907766 | 0.964596 | 0.587992 |
| morex | EPI | 0.836754 | 0 | 0.197718 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0.000000000161109 | 0.00000195289 |
| morex | NOD | 0.925868 | 0 | 0.000000467409 |
| morex | RAC | 0 | 0.000024209 | 0 |
| morex | INF1 | 0.974287 | 1.1987 | 0.875528 |
| morex | INF2 | 0.0000031976 | 1.48596 | 0.00000801642 |
| morex | CAR5 | 1.73074 | 1.19095 | 5.10402 |
| morex | CAR15 | 0.00000605873 | 1.55627 | 0.891458 |
| morex | LEM | 0 | 0 | 0.00000000334918 |
| morex | LOD | 0 | 0.305834 | 0.0845366 |
| morex | PAL | 0 | 0.00000182594 | 0.00000000120332 |
| morex | SEN | 0 | 0.103472 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g38740.1 | +3 | 0.0 | 1602 | 789/1110 (71%) | protein|Dicer, putative, expressed |
| TAIR PP10 | AT3G03300 @ ARAPORT AT3G03300.3 @ TAIR |
+3 | 0.0 | 799 | 464/1094 (42%) | Symbols: DCL2 | dicer-like 2 | chr3:768020-774833 REVERSE LENGTH=1388 |
| BRACH PP3 | Bradi1g15440.1.p | +3 | 0.0 | 1712 | 854/1109 (77%) | 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 (4256 bp)
>BART1_0-u33637.011 4256 150831_barley_pseudomolecules AATTGCGGCCTGCCCCTGCTTCCGCTGCCCACGTCATAAACTCCAAAGGAGCATAGACGT GAGTGGGAGTGTTGGATTATAATGTCCGGCTCTCTCCCACAGTTCGGACTTTTGGAGCAA CTGACTGGAGCATGAATTCAATAGACAGCTCACGTACCTAAAGTAGGTTTTTTCTTAAAT AATATGGGCATAAGTTGCTCTATTTATGTAACATAATAAACTATGATGAAATTTAGCATC TATATTTAGTCCAAGTGGAAGTTGAAGTAATAATAATATCGTACGATTTGCTTTTCTTAT TAAATACAGCCATGTCTGCACAGTTGGAAAGTTGCTATACAATTGTTTTCACATTTTGTT TTTCCCTGGCCTTCTGTTTGTGTTGGTGCGATATAGTAGTTTTTTGGATATGCATGGCCT TGTCTTCTAAGTTTTAACACCTTCAATAACCTAACATATTTACATTCTCTTAGCATTTAA AAGTCCTCAAGGCAAATCTACATGGATCGTCTCGGAAAAATGCGAAGAAAGGGATATCAA AATTACACAAGGCATTCTTATATTGCACGGCTAATCTTGGAGTATGGCTAGCGGCAAAGG CTGCTGAGATACACTCAACAACTAACGAACAATTCTTATCTTTCTGGGGTGAAGAACTGG ATAAGAATGTTGAAGGCTTTGTTAGAAGCTATAGTGAAGAAGTATACAGGGAACTCTCAT GTTTTTCAGAGAGAGGTCATATTGGTAAAGATTTTGAAGCTGATTTGCAAGATGGGTTAT TGACACCTAAAGTTCATTGTCTTGTTCAGTTTCTTCTGGAATACAGGTGGCACATGCAAG ACATAAGATGCATTGTATTTGTCGAGAGAGTTGTTACAAGCATTGTGTTGGAGTCTCTCC TGTCCATTATCAATCAAATGCCTGGGTGGATTATTAAACACATTGCAGGAAACAGACCTA TGTTGCACAACCAGAGTAGAAATAAACAAACGGAAATTGTTGACGCCTTTAAAGGAGGAA AGGTACATATAATTGTGACCACACAAGTATTGGAGGAGGGGCTGAATGTGCCAGGTTGTC ACTTAGTAATTCGCTTTGATCCACCAACGACTGGGCGCAGCTTTATACAGTCACGTGGTC GAGCTCGGATGCCAAACTCTGAATATGTTTTACTTGTTAGAAGGGGGGATGCAGAGGCCC TCTCTAAGACAGTGAAGTTCCTTGCAAGCGGGCAAATGATGCGGGAAGCATCTCTGAAGC TTGCATCTACTATGTGTCAACCACTAGAAAACACCTTGTTGCAGGGAGAATATTACCGTG TTGAATCTACTGGAGCAACCGTGACTATGAACTCAAGTGTCCAGTTGATTTATTTTTTCT GCTCGAAGCTCCCATCTGATGAATACTTTACACCTCTTCCGAGATTCATTATTGACAAGG AACTACGTACTTGCACCTTGTACCTTCCCAATAGCAGCCCTGTGCAGACTGTTAATGCAG AAGGAGAAGTTTCTGCCCTCAAAAAGGCAGTTTGTCTTAAGGCCTGCCGAGAATTACACG CTGTCGGCGCCCTAACAGATTATCTGTTACCAGAATTTGGTTTTCCATGTGAAGAAGAAC CCGACATTGTTGTTGAGAAATACCAACACGAGCAGCCTGTGTACTTCCCAGAGGAATTTG TGTACAATTGGTCATCCTTTTCTCGTCTTGGAATATATTATTGCTATAAGATTTCAGTAG AAGGGTGCTTGAAAACAACTTATTGTCCAAATGACATACTTCTAGCTGTGAAATGTGATT TGGGACCAGAGTTTGTCTCTACCTCACTTCAATTGTTTGGTGCGCAAGATAATGCTAGTC TTGCCATGAAATATGTGGGAATCATTCATCTGAATCAAGAACAGGTAGTTATGGCCAGAA GGTTTCAGACTACTATTCTTTCTTTGCTTATTAATAAAGACCATTCTGAGGTCAGTAATG CTGTTAAATACTCCCATGAGATGCAAGTGTCCATTGGAATTGTCTACCTGCTGCTACCCT TAGTTTCTGGCAAAGTTGATTGGTGCAGTATCAAGTTCTCGACCTCGCAAGTGTATGTTG GCAGTAACAAGGATATCAGACATTGCCATTCTTGTAAACAAGTTGATTTACTGCAAACAA AAGATGGTCCTCTGTGCAGATGCATGCTTGAAAGTTCCATTGTTTGCACCCCTCATAATA GCAAATTCTATGCTGTTAATGGGTTCCTTGACTTAAATTCCAAATCTCTTCTGCACCTTC GTGATGGCAGTGCCCTTACCTACATAAACTATTTCAAGACTAGGCATGGACTCAGTCTAA CACATGAAAATCAACCCCTGTTGGCAGCCAGGAGTCCTGTTGAAGTGCGGAATTTCCTCC ACAAGCGCCATTATAAAAATAAAAAAGAATCGTGCACTTCACATGGTGTTGAGTTGCCAC CTGAGCTCTGCAGACTAGTCATGTCACCAGTCTCTACTAATACTTTGTACAGCTTCTCGA TTATTCCTTCTGTAATGTACCGCATCCAGTGTCTGCTTCTTTCTGCAAAGTTGAAAGATC AACTGGGCCCAATAATGCAGCAGTTTGCCATACCAGCTCTGAAGATTCTAGAAGCAGTAA CAACCAAGGAATGCCAAGAGGAATTTTCACAGGAATCATTAGAAACCCTTGGGGATTCTT TCCTCAAGTACATCGCCACGCAACATCTGTATGTCAAACACAAGCTTCAGCATGAGGGGA CATTAACCAAGATGAAGAAAAACTTAATCTCGAATGCAGCTCTATGCCAGCTGGCCTGCA ACAACAATCTTGTGGGTTACATTCAAGGGGAAGAGTTTAACCCAAAAGGTTGGATCATTC CAGGGCTTGGTTATGACATGTGTGGTAACAGCAAATTTTCCTTTTTAAGCTCCAATGATA TGCACACTTTGAGGAAAATGTCTGTTAGAAGTAAGAGAATAGCAGATACAGTTGAGGCAT TGATTGGAGCCTACCTTGGTGCTGCGGGAGAACAGGCTGCATTTGTTTTCCTAAAATCAT TAGGATTGGATATAGGATTTCACAGCACTATTCCACTTGAAAGGAAGATTGTATTAAAAT CTGAAAAGTTCATCAACGTGAGAAGTTTGGAAATGATTCTTGGTTATGAGTTCAAGGATA CTTCATTGTTGGTGGAAGCATTGACACATGGGTCATACCAGACTGCTGGCACTACTGCAT GCTATCAGAGGCTTGAGTTTCTCGGAGACGCTGTGTTGGACCATCTCTTCACTATATATT TCTACAATAAGTACCCTGAATGTACTCCAGAATTGTTGACAGATCTTAGATCTGCTTCCG TTAACAACAATTGCTATGCGCATGCAGCTGCTAAAGCAGGACTAAACAAGCACATTCTTC ATTCGTCATTGCCATTGCACGGAAGGATGGCTTACTACTTTGAGAATTTTACTAAGCACC GATTTACAGGTCCATCACATGGTTGGGAAGCTGGCATTGGTCTACCCAAGGTTCTTGGGG ATGTTATTGAATCATTAGCCGGTGCCATTTATCTTGACAGCAAGTATGACAAAGAGGTGG TTTGGAGAAGCATGAAAAAGCTATTGGAGCCTCTTGCGACACCGGAGACGGTTGAGCGTG ACCCAGTGAAACTGCTGCAGGAATTTTGTGATCGCAGGTCTTATAGCAGGTCTTACACAA AGGTCCAGAAAGATGGAGTGTCTTCGGTGGTTGGGGAGGTACAGGTAGAAGGGACTACCT ACTCAGCAACTGGAACTGGCCCTGATAAGGTTGTCGCAAAAAAGCTTGCAGCGAAGTTGC TGCTAGAAGATCTGAAGGCTATAGTACCATGACACGCTTGCATTTGCAGATGATGCAATA CTGTATAGCTCCTTCCGACTTCACTTGTATTGTGACTAGCCTGTAGGTAGCCTTTTGAAG TTTTTGTGGGAGTATGCGTGTACTTGACAAATGTGCAGCTCAATCATTGCTTGTGAATAT TCAGACTATTGAACTGCACATCTGTGAAGTACGGGCATCGTCTCTCAGAACCATGGTACA GACGATAATGCTACAGTATCCTTAGACTTCTACTTGTACAGTTGTAAGCACAATCTTGAG TGGAAAGCTGGAATATCTTTTTCTCTCCATCGGGCAGTGCAGTGCATGTATCTTTTATTT TTTGAGCGGGGGTACCTTTTGTAGGGCTGGTAATTGTTTTTTTTAAATGGCAGGAT
Protein Sequence (1012 aa)
>BART1_0-u33637.011 1012 150831_barley_pseudomolecules MQDIRCIVFVERVVTSIVLESLLSIINQMPGWIIKHIAGNRPMLHNQSRNKQTEIVDAFK GGKVHIIVTTQVLEEGLNVPGCHLVIRFDPPTTGRSFIQSRGRARMPNSEYVLLVRRGDA EALSKTVKFLASGQMMREASLKLASTMCQPLENTLLQGEYYRVESTGATVTMNSSVQLIY FFCSKLPSDEYFTPLPRFIIDKELRTCTLYLPNSSPVQTVNAEGEVSALKKAVCLKACRE LHAVGALTDYLLPEFGFPCEEEPDIVVEKYQHEQPVYFPEEFVYNWSSFSRLGIYYCYKI SVEGCLKTTYCPNDILLAVKCDLGPEFVSTSLQLFGAQDNASLAMKYVGIIHLNQEQVVM ARRFQTTILSLLINKDHSEVSNAVKYSHEMQVSIGIVYLLLPLVSGKVDWCSIKFSTSQV YVGSNKDIRHCHSCKQVDLLQTKDGPLCRCMLESSIVCTPHNSKFYAVNGFLDLNSKSLL HLRDGSALTYINYFKTRHGLSLTHENQPLLAARSPVEVRNFLHKRHYKNKKESCTSHGVE LPPELCRLVMSPVSTNTLYSFSIIPSVMYRIQCLLLSAKLKDQLGPIMQQFAIPALKILE AVTTKECQEEFSQESLETLGDSFLKYIATQHLYVKHKLQHEGTLTKMKKNLISNAALCQL ACNNNLVGYIQGEEFNPKGWIIPGLGYDMCGNSKFSFLSSNDMHTLRKMSVRSKRIADTV EALIGAYLGAAGEQAAFVFLKSLGLDIGFHSTIPLERKIVLKSEKFINVRSLEMILGYEF KDTSLLVEALTHGSYQTAGTTACYQRLEFLGDAVLDHLFTIYFYNKYPECTPELLTDLRS ASVNNNCYAHAAAKAGLNKHILHSSLPLHGRMAYYFENFTKHRFTGPSHGWEAGIGLPKV LGDVIESLAGAIYLDSKYDKEVVWRSMKKLLEPLATPETVERDPVKLLQEFCDRRSYSRS YTKVQKDGVSSVVGEVQVEGTTYSATGTGPDKVVAKKLAAKLLLEDLKAIVP