- Transcript BART1_0-u33637.026
- Transcript IDBART1_0-u33637.026
- Gene IDBART1_0-u33637
Barley RTD
Exon Structure of BART1_0-u33637.026
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 84480117 | 84479984 | + |
| chr5H | 2 | 84480302 | 84480237 | + |
| chr5H | 3 | 84480655 | 84480388 | + |
| chr5H | 4 | 84480831 | 84480728 | + |
| chr5H | 5 | 84483365 | 84483169 | + |
| chr5H | 6 | 84483994 | 84483785 | + |
| chr5H | 7 | 84490180 | 84489767 | + |
| chr5H | 8 | 84491799 | 84491518 | + |
| chr5H | 9 | 84492947 | 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 | 0.49824 | 0 | 0 |
| morex | ETI | 2.09436 | 2.03519 | 1.19362 |
| morex | LEA | 0 | 0 | 1.28009 |
| morex | EPI | 4.09891 | 4.63678 | 8.02496 |
| morex | ROO | 0.432999 | 0 | 0 |
| morex | ROO2 | 2.12887 | 0.433196 | 0.635055 |
| morex | NOD | 0 | 2.25544 | 1.93117 |
| morex | RAC | 0.0192146 | 0 | 2.06905 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 1.88508 | 0.00000000608799 | 0.86128 |
| morex | LOD | 2.34982 | 4.14182 | 1.02582 |
| morex | PAL | 3.53129 | 0 | 0 |
| morex | SEN | 0 | 1.16954 | 0.193677 |
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 | 835 | 411/583 (70%) | protein|Dicer, putative, expressed |
| TAIR PP10 | AT3G03300 @ ARAPORT AT3G03300.2 @ TAIR |
+2 | 2e-136 | 434 | 238/536 (44%) | Symbols: DCL2 | dicer-like 2 | chr3:768020-774525 REVERSE LENGTH=1374 |
| BRACH PP3 | Bradi1g21030.3.p | +2 | 0.0 | 930 | 472/582 (81%) | pacid=32804149 transcript=Bradi1g21030.3 locus=Bradi1g21030 ID=Bradi1g21030.3.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 (2141 bp)
>BART1_0-u33637.026 2141 150831_barley_pseudomolecules ATGACATACTTCTAGCTGTGAAATGTGATTTGGGACCAGAGTTTGTCTCTACCTCACTTC AATTGTTTGGTGCGCAAGATAATGCTAGTCTTGCCATGAAATATGTGGGAATCATTCATC TGAATCAAGAACAGGTAGTTATGGCCAGAAGGTTTCAGACTACTATTCTTTCTTTGCTTA TTAATAAAGACCATTCTGAGTTGATTGGTGCAGTATCAAGTTCTCGACCTCGCAAGTGTA TGTTGGCAGTAACAAGGATATCAGACATTGCCATTCTTGTAAACAAGTTGATTTACTGCA AACAAAAGATGGTCCTCTGTGCAGATGCATGCTTGAAAGTTCCATTGTTTGCACCCCTCA TAATAGCAAATTCTATGCTGTTAATGGGTTCCTTGACTTAAATTCCAAATCTCTTCTGCA CCTTCGTGATGGCAGTGCCCTTACCTACATAAACTATTTCAAGACTAGGCATGGACTCAG TCTAACACATGAAAATCAACCCCTGTTGGCAGCCAGGAGTCCTGTTGAAGTGCGGAATTT CCTCCACAAGCGCCATTATAAAAATAAAAAAGAATCGTGCACTTCACATGGTGTTGAGTT GCCACCTGAGCTCTGCAGACTAGTCATGTCACCAGTCTCTACTAATACTTTGTACAGCTT CTCGATTATTCCTTCTGTAATGTACCGCATCCAGTGTCTGCTTCTTTCTGCAAAGTTGAA AGATCAACTGGGCCCAATAATGCAGCAGTTTGCCATACCAGCTCTGAAGATTCTAGAAGC AGTAACAACCAAGGAATGCCAAGAGGAATTTTCACAGGAATCATTAGAAACCCTTGGGGA TTCTTTCCTCAAGTACATCGCCACGCAACATCTGTATGTCAAACACAAGCTTCAGCATGA GGGGACATTAACCAAGATGAAGAAAAACTTAATCTCGAATGCAGCTCTATGCCAGCTGGC CTGCAACAACAATCTTGTGGGTTACATTCAAGGGGAAGAGTTTAACCCAAAAGGTTGGAT CATTCCAGGGCTTGGTTATGACATGTGTGGTAACAGCAAATTTTCCTTTTTAAGCTCCAA TGATATGCACACTTTGAGGAAAATGTCTGTTAGAAGTAAGAGAATAGCAGATACAGTTGA GGCATTGATTGGAGCCTACCTTGGTGCTGCGGGAGAACAGGCTGCATTTGTTTTCCTAAA ATCATTAGGATTGGATATAGGATTTCACAGCACTATTCCACTTGAAAGGAAGATTGTATT AAAATCTGAAAAGTTCATCAACGTGAGAAGTTTGGAAATGATTCTTGGTTATGAGTTCAA GGATACTTCATTGTTGGTGGAAGCATTGACACATGGGTCATACCAGACTGCTGGCACTAC TGCATGCTATCAGAGGCTTGAGTTTCTCGGAGACGCTGTGTTGGACCATCTCTTCACTAT ATATTTCTACAATAAGTACCCTGAATGTACTCCAGAATTGTTGACAGATCTTAGATCTGC TTCCGTTAACAACAATTGCTATGCGCATGCAGCTGCTAAAGCAGGACTAAACAAGCACAT TCTTCATTCGTCATTGCCATTGCACGGAAGGATGGCTTACTACTTTGAGAATTTTACTAA GCACCGATTTACAGGTCCATCACATGGTTGGGAAGCTGGCATTGGTCTACCCAAGGTTCT TGGGGATGTTATTGAATCATTAGCCGGTGCCATTTATCTTGACAGCAAGTATGACAAAGA GGTGGTTTGGAGAAGCATGAAAAAGCTATTGGAGCCTCTTGCGACACCGGAGACGGTTGA GCGTGACCCAGTGAAACTGCTGCAGGAATTTTGTGATCGCAGGTCTTATAGCAGGTCTTA CACAAAGGTCCAGAAAGATGGAGTGTCTTCGGTGGTTGGGGAGGTACAGGTAGAAGGGAC TACCTACTCAGCAACTGGAACTGGCCCTGATAAGGTTGTCGCAAAAAAGCTTGCAGCGAA GTTGCTGCTAGAAGATCTGAAGGCTATAGTACCATGACACGCTTGCATTTGCAGATGATG CAATACTGTATAGCTCCTTCCGACTTCACTTGTATTGTGACTAGCCTGTAGGTAGCCTTT TGAAGTTTTTGTGGGAGTATGCGTGTACTTGACAAATGTGC
Protein Sequence (562 aa)
>BART1_0-u33637.026 562 150831_barley_pseudomolecules MLESSIVCTPHNSKFYAVNGFLDLNSKSLLHLRDGSALTYINYFKTRHGLSLTHENQPLL AARSPVEVRNFLHKRHYKNKKESCTSHGVELPPELCRLVMSPVSTNTLYSFSIIPSVMYR IQCLLLSAKLKDQLGPIMQQFAIPALKILEAVTTKECQEEFSQESLETLGDSFLKYIATQ HLYVKHKLQHEGTLTKMKKNLISNAALCQLACNNNLVGYIQGEEFNPKGWIIPGLGYDMC GNSKFSFLSSNDMHTLRKMSVRSKRIADTVEALIGAYLGAAGEQAAFVFLKSLGLDIGFH STIPLERKIVLKSEKFINVRSLEMILGYEFKDTSLLVEALTHGSYQTAGTTACYQRLEFL GDAVLDHLFTIYFYNKYPECTPELLTDLRSASVNNNCYAHAAAKAGLNKHILHSSLPLHG RMAYYFENFTKHRFTGPSHGWEAGIGLPKVLGDVIESLAGAIYLDSKYDKEVVWRSMKKL LEPLATPETVERDPVKLLQEFCDRRSYSRSYTKVQKDGVSSVVGEVQVEGTTYSATGTGP DKVVAKKLAAKLLLEDLKAIVP