- Transcript BART1_0-u33637.001
- Transcript IDBART1_0-u33637.001
- Gene IDBART1_0-u33637
Barley RTD
Exon Structure of BART1_0-u33637.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 84465369 | 84463961 | + |
| chr5H | 2 | 84465569 | 84465478 | + |
| chr5H | 3 | 84473806 | 84473681 | + |
| chr5H | 4 | 84474019 | 84473884 | + |
| chr5H | 5 | 84476025 | 84475935 | + |
| chr5H | 6 | 84477467 | 84477275 | + |
| chr5H | 7 | 84477710 | 84477550 | + |
| chr5H | 8 | 84479142 | 84478592 | + |
| chr5H | 9 | 84480117 | 84479843 | + |
| chr5H | 10 | 84480655 | 84480237 | + |
| chr5H | 11 | 84480831 | 84480728 | + |
| chr5H | 12 | 84483365 | 84483169 | + |
| chr5H | 13 | 84483994 | 84483785 | + |
| chr5H | 14 | 84490180 | 84489767 | + |
| chr5H | 15 | 84491799 | 84491518 | + |
| chr5H | 16 | 84493352 | 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 | 0.677052 | 0.125639 |
| morex | ETI | 0.423279 | 0.478468 | 0.519077 |
| morex | LEA | 0.377052 | 0 | 0 |
| morex | EPI | 0 | 0.497688 | 0.206688 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0.0984678 | 0.00000000248382 |
| morex | NOD | 0.0426705 | 0.00000000434692 | 0.0691972 |
| morex | RAC | 0.777932 | 0.256073 | 0.703626 |
| morex | INF1 | 0.724656 | 0.418981 | 0.349181 |
| morex | INF2 | 0.681727 | 0.899934 | 0.715737 |
| morex | CAR5 | 0.124574 | 0.437227 | 0.149194 |
| morex | CAR15 | 0.232391 | 0.209901 | 0.198525 |
| morex | LEM | 0.600553 | 0.628326 | 0.261349 |
| morex | LOD | 0.0000221239 | 0 | 0 |
| morex | PAL | 0.372643 | 0.16405 | 0 |
| morex | SEN | 0.00000124613 | 0.192365 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g38740.1 | +2 | 0.0 | 1587 | 790/1145 (69%) | protein|Dicer, putative, expressed |
| TAIR PP10 | AT3G03300 @ ARAPORT AT3G03300.3 @ TAIR |
+2 | 0.0 | 786 | 461/1124 (41%) | Symbols: DCL2 | dicer-like 2 | chr3:768020-774833 REVERSE LENGTH=1388 |
| BRACH PP3 | Bradi1g15440.2.p | +2 | 0.0 | 1699 | 855/1144 (75%) | pacid=32792174 transcript=Bradi1g15440.2 locus=Bradi1g15440 ID=Bradi1g15440.2.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 (5531 bp)
>BART1_0-u33637.001 5531 150831_barley_pseudomolecules CGTGGACCGGCAAATGTTAGTTGTAATGTAGGGCGAGGGAACTCGGGCCTCCTGCCCGAT GATCTGAGGCCCCACACCAACGGATTGCTGGATAGGAGATCGAAGCAATTCCTGACGCCT GCTGCGCACCAGCGTCGGCGGAGTACCTGGATGACGGGCCTCCTGCTCGCTGCCCACCGG CGTCACCGGAACACCACTGCTGGCCGGTAGCATCTGAAGACCCGGCTGGCGGACCTCCTG TCCGCCGAGCTGGTCCACGCGGACCTGCCCCCTGCCCGCTGGCGTCATCGAAGTACCACT ACTGGTCGGCGTCACTTGAAGACCCGGCTGGCGGTCCTCCTGTCCATCAAGCTGCTCCAC GCGGACCGGCGAGTCCACATCGTAATGACGTGCCAACATGCTCGGCCGCGCAACAAGAGA GTGGGGGGACTCATGTCCATAACCGGTGGCTGGTTCTTCATGTGTCTCCTTCACACCATA TTCCCCTCATAGGTGACTCGGCGTAGATATCACCTCAAACGATCCGAACCGGAGGGTGGC CATGGGAGTAGTCGTAGGTGCAGCCCCGCCATTAACGGTTTATCAGTAGAAGTAGATGAT GAAGGGTTTCTGTCCTCCTTGGACCTCTCCGAGTGCTCATCCTGATTCGCATCTCCCTGG TCCCCATCACGATCATCTCCATCAGCCATGTGAACATCACCATCATGTGACTGTGGTTGG GTTACCTCCTCCACCTCCACGTTGAGATCATAATGCACACCGTCATATGACCATGGTGCG AAATTAGGTATATACTCAACATCCAGCACAGTCACAAGCAATCTGGCGATCCCCCGTTTG CGCGTGAAAGGCATGTCTACTTTCTCGGTCTTACCAACCAGTGAGCCAAGGCTCCAGACA ATAAGGAAGTCATTGAGCAGAATCTCTGGAATGCCTGAAAATCTGATCCAAACCTTCTCT AACCGTGTACCCTGTGGTTTCGGTTTTTTACATTCCTCAAACTTTAACAAGCATTTGCTC CCACTCACCTTGCTGACCCGGAATGTCAACAAACGTGGAAGATCCTCTCTTCTAGGAAAC TCCACTCAATAGATCTGCTCATCTACTCTAGCCGGGGCCCATTGGTAAGTCTTAGACACA AGTCTTCTCAGTTGCTGAGAAACTTGCTCAGCTGTCAGCGTACCATTTGTGACTTTTACC AGTCCCGTTCTTGAACTCTCAAGATTGTGGGGGTACAAGGACTGATGTAAATCATGGTGT CTCGAAGAACATAAGTCTATTCTGGTAGACACCATATATGTTGAGCACCGGTTTGGGAGC TAACAGAAGTGGATAAGCTGCCTCGTCGTGTCCTGGTTTCTGACAAATATCACATAGTGC CGTGGTGCAATCCACGACAAAGTGGCCAGGCAAAGTAGAACTGGCAGTGTTAACCGCCAC CACATCAGTTGTCGTCGGTGTTACTTCCTTCCACTTCGGAACAGAGTTATTCTGACCAAA GCATTTAAAAGTCCTCAAGGCAAATCTACATGGATCGTCTCGGAAAAATGCGAAGAAAGG GATATCAAAATTACACAAGGCATTCTTATATTGCACGGCTAATCTTGGAGTATGGCTAGC GGCAAAGGCTGCTGAGATACACTCAACAACTAACGAACAATTCTTATCTTTCTGGGGTGA AGAACTGGATAAGAATGTTGAAGGCTTTGTTAGAAGCTATAGTGAAGAAGTATACAGGGA ACTCTCATGTTTTTCAGAGAGAGGTCATATTGGTAAAGATTTTGAAGCTGATTTGCAAGA TGGGTTATTGACACCTAAAGTTCATTGTCTTGTTCAGTTTCTTCTGGAATACAGGCACAT GCAAGACATAAGATGCATTGTATTTGTCGAGAGAGTTGTTACAAGCATTGTGTTGGAGTC TCTCCTGTCCATTATCAATCAAATGCCTGGGTGGATTATTAAACACATTGCAGGAAACAG ACCTATGTTGCACAACCAGAGTAGAAATAAACAAACGGAAATTGTTGACGCCTTTAAAGG AGGAAAGGTACATATAATTGTGACCACACAAGTATTGGAGGAGGGGCTGAATGTGCCAGG TTGTCACTTAGTAATTCGCTTTGATCCACCAACGACTGGGCGCAGCTTTATACAGTCACG TGGTCGAGCTCGGATGCCAAACTCTGAATATGTTTTACTTGTTAGAAGGGGGGATGCAGA GGCCCTCTCTAAGACAGTGAAGTTCCTTGCAAGCGGGCAAATGATGCGGGAAGCATCTCT GAAGCTTGCATCTACTATGTGTCAACCACTAGAAAACACCTTGTTGCAGGGAGAATATTA CCGTGTTGAATCTACTGGAGCAACCGTGACTATGAACTCAAGTGTCCAGTTGATTTATTT TTTCTGCTCGAAGCTCCCATCTGATGAGTCTGTTTTATGTACCTTAAATTATGGTTTCCT TCTGTTTCATATCACAAATCATTTTCTGGCACAAGTATCTTATGTTTCTCACGGATAATA TCTCTGTCTCAGATACTTTACACCTCTTCCGAGATTCATTATTGACAAGGAACTACGTAC TTGCACCTTGTACCTTCCCAATAGCAGCCCTGTGCAGACTGTTAATGCAGAAGGAGAAGT TTCTGCCCTCAAAAAGGCAGTTTGTCTTAAGGCCTGCCGAGAATTACACGCTGTCGGCGC CCTAACAGATTATCTGTTACCAGAATTTGGTTTTCCATGTGAAGAAGAACCCGACATTGT TGTTGAGAAATACCAACACGAGCAGCCTGTGTACTTCCCAGAGGAATTTGTGTACAATTG GTCATCCTTTTCTCGTCTTGGAATATATTATTGCTATAAGATTTCAGTAGAAGGGTGCTT GAAAACAACTTATTGTCCAAATGACATACTTCTAGCTGTGAAATGTGATTTGGGACCAGA GTTTGTCTCTACCTCACTTCAATTGTTTGGTGCGCAAGATAATGCTAGTCTTGCCATGAA ATATGTGGGAATCATTCATCTGAATCAAGAACAGGTAGTTATGGCCAGAAGGTTTCAGAC TACTATTCTTTCTTTGCTTATTAATAAAGACCATTCTGAGGTCAGTAATGCTGTTAAATA CTCCCATGAGATGCAAGTGTCCATTGGAATTGTCTACCTGCTGCTACCCTTAGTTTCTGG CAAAGTTGATTGGTGCAGTATCAAGTTCTCGACCTCGCAAGTGTATGTTGGCAGTAACAA GGATATCAGACATTGCCATTCTTGTAAACAAGTTGATTTACTGCAAACAAAAGATGGTCC TCTGTGCAGATGCATGCTTGAAAGTTCCATTGTTTGCACCCCTCATAATAGCAAATTCTA TGCTGTTAATGGGTTCCTTGACTTAAATTCCAAATCTCTTCTGCACCTTCGTGATGGCAG TGCCCTTACCTACATAAACTATTTCAAGACTAGGCATGGACTCAGTCTAACACATGAAAA TCAACCCCTGTTGGCAGCCAGGAGTCCTGTTGAAGTGCGGAATTTCCTCCACAAGCGCCA TTATAAAAATAAAAAAGAATCGTGCACTTCACATGGTGTTGAGTTGCCACCTGAGCTCTG CAGACTAGTCATGTCACCAGTCTCTACTAATACTTTGTACAGCTTCTCGATTATTCCTTC TGTAATGTACCGCATCCAGTGTCTGCTTCTTTCTGCAAAGTTGAAAGATCAACTGGGCCC AATAATGCAGCAGTTTGCCATACCAGCTCTGAAGATTCTAGAAGCAGTAACAACCAAGGA ATGCCAAGAGGAATTTTCACAGGAATCATTAGAAACCCTTGGGGATTCTTTCCTCAAGTA CATCGCCACGCAACATCTGTATGTCAAACACAAGCTTCAGCATGAGGGGACATTAACCAA GATGAAGAAAAACTTAATCTCGAATGCAGCTCTATGCCAGCTGGCCTGCAACAACAATCT TGTGGGTTACATTCAAGGGGAAGAGTTTAACCCAAAAGGTTGGATCATTCCAGGGCTTGG TTATGACATGTGTGGTAACAGCAAATTTTCCTTTTTAAGCTCCAATGATATGCACACTTT GAGGAAAATGTCTGTTAGAAGTAAGAGAATAGCAGATACAGTTGAGGCATTGATTGGAGC CTACCTTGGTGCTGCGGGAGAACAGGCTGCATTTGTTTTCCTAAAATCATTAGGATTGGA TATAGGATTTCACAGCACTATTCCACTTGAAAGGAAGATTGTATTAAAATCTGAAAAGTT CATCAACGTGAGAAGTTTGGAAATGATTCTTGGTTATGAGTTCAAGGATACTTCATTGTT GGTGGAAGCATTGACACATGGGTCATACCAGACTGCTGGCACTACTGCATGCTATCAGAG GCTTGAGTTTCTCGGAGACGCTGTGTTGGACCATCTCTTCACTATATATTTCTACAATAA GTACCCTGAATGTACTCCAGAATTGTTGACAGATCTTAGATCTGCTTCCGTTAACAACAA TTGCTATGCGCATGCAGCTGCTAAAGCAGGACTAAACAAGCACATTCTTCATTCGTCATT GCCATTGCACGGAAGGATGGCTTACTACTTTGAGAATTTTACTAAGCACCGATTTACAGG TCCATCACATGGTTGGGAAGCTGGCATTGGTCTACCCAAGGTTCTTGGGGATGTTATTGA ATCATTAGCCGGTGCCATTTATCTTGACAGCAAGTATGACAAAGAGGTGGTTTGGAGAAG CATGAAAAAGCTATTGGAGCCTCTTGCGACACCGGAGACGGTTGAGCGTGACCCAGTGAA ACTGCTGCAGGAATTTTGTGATCGCAGGTCTTATAGCAGGTCTTACACAAAGGTCCAGAA AGATGGAGTGTCTTCGGTGGTTGGGGAGGTACAGGTAGAAGGGACTACCTACTCAGCAAC TGGAACTGGCCCTGATAAGGTTGTCGCAAAAAAGCTTGCAGCGAAGTTGCTGCTAGAAGA TCTGAAGGCTATAGTACCATGACACGCTTGCATTTGCAGATGATGCAATACTGTATAGCT CCTTCCGACTTCACTTGTATTGTGACTAGCCTGTAGGTAGCCTTTTGAAGTTTTTGTGGG AGTATGCGTGTACTTGACAAATGTGCAGCTCAATCATTGCTTGTGAATATTCAGACTATT GAACTGCACATCTGTGAAGTACGGGCATCGTCTCTCAGAACCATGGTACAGACGATAATG CTACAGTATCCTTAGACTTCTACTTGTACAGTTGTAAGCACAATCTTGAGTGGAAAGCTG GAATATCTTTTTCTCTCCATCGGGCAGTGCAGTGCATGTATCTTTTATTTTTTGAGCGGG GGTACCTTTTGTAGGGCTGGTAATTGTTTTTTTTAAATGGCAGGATGCATTGTTAAGAAG AAAAGATCTGTTTGGTTAATTGTGAAAAACCAAGCGAGAACCAGATTGCCCAGTTAATTT TGATAAACCTGGTGAAGAACCTTCACAACTGTGGAGAGGCACACAAGATACCACTCACAT CACTGCAAGGA
Protein Sequence (668 aa)
>BART1_0-u33637.001 668 150831_barley_pseudomolecules MKYVGIIHLNQEQVVMARRFQTTILSLLINKDHSEVSNAVKYSHEMQVSIGIVYLLLPLV SGKVDWCSIKFSTSQVYVGSNKDIRHCHSCKQVDLLQTKDGPLCRCMLESSIVCTPHNSK FYAVNGFLDLNSKSLLHLRDGSALTYINYFKTRHGLSLTHENQPLLAARSPVEVRNFLHK RHYKNKKESCTSHGVELPPELCRLVMSPVSTNTLYSFSIIPSVMYRIQCLLLSAKLKDQL GPIMQQFAIPALKILEAVTTKECQEEFSQESLETLGDSFLKYIATQHLYVKHKLQHEGTL TKMKKNLISNAALCQLACNNNLVGYIQGEEFNPKGWIIPGLGYDMCGNSKFSFLSSNDMH TLRKMSVRSKRIADTVEALIGAYLGAAGEQAAFVFLKSLGLDIGFHSTIPLERKIVLKSE KFINVRSLEMILGYEFKDTSLLVEALTHGSYQTAGTTACYQRLEFLGDAVLDHLFTIYFY NKYPECTPELLTDLRSASVNNNCYAHAAAKAGLNKHILHSSLPLHGRMAYYFENFTKHRF TGPSHGWEAGIGLPKVLGDVIESLAGAIYLDSKYDKEVVWRSMKKLLEPLATPETVERDP VKLLQEFCDRRSYSRSYTKVQKDGVSSVVGEVQVEGTTYSATGTGPDKVVAKKLAAKLLL EDLKAIVP