- Transcript BART1_0-u33637.025
- Transcript IDBART1_0-u33637.025
- Gene IDBART1_0-u33637
Barley RTD
Exon Structure of BART1_0-u33637.025
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 84479142 | 84478959 | + |
| chr5H | 2 | 84480117 | 84479843 | + |
| chr5H | 3 | 84480655 | 84480237 | + |
| chr5H | 4 | 84480831 | 84480728 | + |
| chr5H | 5 | 84483994 | 84483785 | + |
| chr5H | 6 | 84490180 | 84489767 | + |
| chr5H | 7 | 84491799 | 84491518 | + |
| chr5H | 8 | 84493214 | 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 | 1.77862 | 0 | 0 |
| morex | ETI | 0 | 1.30421 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 4.33427 | 5.00231 | 2.531 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0.493907 |
| morex | RAC | 0.817586 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0.228 | 0 |
| morex | CAR15 | 0 | 0 | 0.22159 |
| morex | LEM | 0 | 0.392751 | 0.286641 |
| morex | LOD | 0.964571 | 0.388339 | 0.481464 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0.806713 | 0.568059 | 0.365242 |
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 | 570 | 291/392 (74%) | protein|Dicer, putative, expressed |
| TAIR PP10 | AT3G03300 @ ARAPORT AT3G03300.3 @ TAIR |
+2 | 3e-95 | 327 | 176/365 (48%) | Symbols: DCL2 | dicer-like 2 | chr3:768020-774833 REVERSE LENGTH=1388 |
| BRACH PP3 | Bradi1g15440.1.p | +2 | 0.0 | 622 | 325/391 (83%) | 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 (2621 bp)
>BART1_0-u33637.025 2621 150831_barley_pseudomolecules CGTACTTGCACCTTGTACCTTCCCAATAGCAGCCCTGTGCAGACTGTTAATGCAGAAGGA GAAGTTTCTGCCCTCAAAAAGGCAGTTTGTCTTAAGGCCTGCCGAGAATTACACGCTGTC GGCGCCCTAACAGATTATCTGTTACCAGAATTTGGTTTTCCATGTGAAGAAGAACCCGAC ATTGTTGTTGAGAAATACCAACACGAGCAGCCTGTGTACTTCCCAGAGGAATTTGTGTAC AATTGGTCATCCTTTTCTCGTCTTGGAATATATTATTGCTATAAGATTTCAGTAGAAGGG TGCTTGAAAACAACTTATTGTCCAAATGACATACTTCTAGCTGTGAAATGTGATTTGGGA CCAGAGTTTGTCTCTACCTCACTTCAATTGTTTGGTGCGCAAGATAATGCTAGTCTTGCC ATGAAATATGTGGGAATCATTCATCTGAATCAAGAACAGGTAGTTATGGCCAGAAGGTTT CAGACTACTATTCTTTCTTTGCTTATTAATAAAGACCATTCTGAGGTCAGTAATGCTGTT AAATACTCCCATGAGATGCAAGTGTCCATTGGAATTGTCTACCTGCTGCTACCCTTAGTT TCTGGCAAAGTTGATTGGTGCAGTATCAAGTTCTCGACCTCGCAAGTGTATGTTGGCAGT AACAAGGATATCAGACATTGCCATTCTTGTAAACAAGTTGATTTACTGCAAACAAAAGAT GGTCCTCTGTGCAGATGCATGCTTGAAAGTTCCATTGTTTGCACCCCTCATAATAGCAAA TTCTATGCTGTTAATGGGTTCCTTGACTTAAATTCCAAATCTCTTCTGCACCTTCGTGAT GGCAGTGCCCTTACCTACATAAACTATTTCAAGACTAGGCATGGACTCAGTCTAACACAT GAAAATCAACCCCTGTTGGCAGCCAGGAGTCCTGTTGAAGTGCGGAATTTCCTCCACAAG CGCCATTATAAAAATAAAAAAGATTCTAGAAGCAGTAACAACCAAGGAATGCCAAGAGGA ATTTTCACAGGAATCATTAGAAACCCTTGGGGATTCTTTCCTCAAGTACATCGCCACGCA ACATCTGTATGTCAAACACAAGCTTCAGCATGAGGGGACATTAACCAAGATGAAGAAAAA CTTAATCTCGAATGCAGCTCTATGCCAGCTGGCCTGCAACAACAATCTTGTGGGTTACAT TCAAGGGGAAGAGTTTAACCCAAAAGGTTGGATCATTCCAGGGCTTGGTTATGACATGTG TGGTAACAGCAAATTTTCCTTTTTAAGCTCCAATGATATGCACACTTTGAGGAAAATGTC TGTTAGAAGTAAGAGAATAGCAGATACAGTTGAGGCATTGATTGGAGCCTACCTTGGTGC TGCGGGAGAACAGGCTGCATTTGTTTTCCTAAAATCATTAGGATTGGATATAGGATTTCA CAGCACTATTCCACTTGAAAGGAAGATTGTATTAAAATCTGAAAAGTTCATCAACGTGAG AAGTTTGGAAATGATTCTTGGTTATGAGTTCAAGGATACTTCATTGTTGGTGGAAGCATT GACACATGGGTCATACCAGACTGCTGGCACTACTGCATGCTATCAGAGGCTTGAGTTTCT CGGAGACGCTGTGTTGGACCATCTCTTCACTATATATTTCTACAATAAGTACCCTGAATG TACTCCAGAATTGTTGACAGATCTTAGATCTGCTTCCGTTAACAACAATTGCTATGCGCA TGCAGCTGCTAAAGCAGGACTAAACAAGCACATTCTTCATTCGTCATTGCCATTGCACGG AAGGATGGCTTACTACTTTGAGAATTTTACTAAGCACCGATTTACAGGTCCATCACATGG TTGGGAAGCTGGCATTGGTCTACCCAAGGTTCTTGGGGATGTTATTGAATCATTAGCCGG TGCCATTTATCTTGACAGCAAGTATGACAAAGAGGTGGTTTGGAGAAGCATGAAAAAGCT ATTGGAGCCTCTTGCGACACCGGAGACGGTTGAGCGTGACCCAGTGAAACTGCTGCAGGA ATTTTGTGATCGCAGGTCTTATAGCAGGTCTTACACAAAGGTCCAGAAAGATGGAGTGTC TTCGGTGGTTGGGGAGGTACAGGTAGAAGGGACTACCTACTCAGCAACTGGAACTGGCCC TGATAAGGTTGTCGCAAAAAAGCTTGCAGCGAAGTTGCTGCTAGAAGATCTGAAGGCTAT AGTACCATGACACGCTTGCATTTGCAGATGATGCAATACTGTATAGCTCCTTCCGACTTC ACTTGTATTGTGACTAGCCTGTAGGTAGCCTTTTGAAGTTTTTGTGGGAGTATGCGTGTA CTTGACAAATGTGCAGCTCAATCATTGCTTGTGAATATTCAGACTATTGAACTGCACATC TGTGAAGTACGGGCATCGTCTCTCAGAACCATGGTACAGACGATAATGCTACAGTATCCT TAGACTTCTACTTGTACAGTTGTAAGCACAATCTTGAGTGGAAAGCTGGAATATCTTTTT CTCTCCATCGGGCAGTGCAGTGCATGTATCTTTTATTTTTTGAGCGGGGGTACCTTTTGT AGGGCTGGTAATTGTTTTTTTTAAATGGCAGGATGCATTGT
Protein Sequence (443 aa)
>BART1_0-u33637.025 443 150831_barley_pseudomolecules MKINPCWQPGVLLKCGISSTSAIIKIKKILEAVTTKECQEEFSQESLETLGDSFLKYIAT QHLYVKHKLQHEGTLTKMKKNLISNAALCQLACNNNLVGYIQGEEFNPKGWIIPGLGYDM CGNSKFSFLSSNDMHTLRKMSVRSKRIADTVEALIGAYLGAAGEQAAFVFLKSLGLDIGF HSTIPLERKIVLKSEKFINVRSLEMILGYEFKDTSLLVEALTHGSYQTAGTTACYQRLEF LGDAVLDHLFTIYFYNKYPECTPELLTDLRSASVNNNCYAHAAAKAGLNKHILHSSLPLH GRMAYYFENFTKHRFTGPSHGWEAGIGLPKVLGDVIESLAGAIYLDSKYDKEVVWRSMKK LLEPLATPETVERDPVKLLQEFCDRRSYSRSYTKVQKDGVSSVVGEVQVEGTTYSATGTG PDKVVAKKLAAKLLLEDLKAIVP