- Transcript BART1_0-u33637.027
- Transcript IDBART1_0-u33637.027
- Gene IDBART1_0-u33637
Barley RTD
Exon Structure of BART1_0-u33637.027
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 84483365 | 84482935 | + |
| chr5H | 2 | 84483994 | 84483785 | + |
| chr5H | 3 | 84493136 | 84491518 | + |
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 | 0.995397 | 0.327373 | 0 |
| morex | ETI | 0 | 0.299656 | 0.213915 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0.896047 | 0.669343 |
| morex | ROO | 0 | 0.336071 | 0 |
| morex | ROO2 | 0 | 0.235451 | 0.165269 |
| morex | NOD | 0.0000000480125 | 0.130753 | 0.303456 |
| morex | RAC | 1.12224 | 0.239517 | 0 |
| morex | INF1 | 1.03813 | 0.342613 | 0 |
| morex | INF2 | 0.264247 | 1.48348 | 1.23653 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0.0959228 | 0.0000191517 | 0.142712 |
| morex | LEM | 0.369244 | 0.2064 | 0 |
| morex | LOD | 0.695887 | 0.445826 | 0.195047 |
| morex | PAL | 0.464202 | 0 | 0.411231 |
| morex | SEN | 0 | 0 | 0.0701253 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g14610.2 | +3 | 2e-50 | 187 | 87/122 (71%) | protein|DCL2, putative, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g21030.3.p | +3 | 1e-57 | 214 | 104/122 (85%) | 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 (2260 bp)
>BART1_0-u33637.027 2260 150831_barley_pseudomolecules CCAGAGATTGGTTGTTACAGCTGCGACCATGAGATCATACTTTGTTACAGAATCTTGCCG TTCATGCTTAAGCCCTCCCAAAATAGGGGCCTTAGGAAGCATGTATATTTTGCATAACCA TCGATTGAATATGCATAATGAGTTAGTACTTACTTTGAACATATTTCAATTAGAAGAGCT TGTTTATGACAGCTGCGCCCACGACTGACTTGACCATACCTTTCCTTGTTGTAGAATCGT GCACTTCACATGGTGTTGAGTTGCCACCTGAGCTCTGCAGACTAGTCATGTCACCAGTCT CTACTAATACTTTGTACAGCTTCTCGATTATTCCTTCTGTAATGTACCGCATCCAGTGTC TGCTTCTTTCTGCAAAGTTGAAAGATCAACTGGGCCCAATAATGCAGCAGTTTGCCATAC CAGCTCTGAAGATTCTAGAAGCAGTAACAACCAAGGAATGCCAAGAGGAATTTTCACAGG AATCATTAGAAACCCTTGGGGATTCTTTCCTCAAGTACATCGCCACGCAACATCTGTATG TCAAACACAAGCTTCAGCATGAGGGGACATTAACCAAGATGAAGAAAAACTTAATCTCGA ATGCAGCTCTATGCCAGCTGGCCTGCAACAACAATCTTGTGAGGCTTGAGTTTCTCGGAG ACGCTGTGTTGGACCATCTCTTCACTATATATTTCTACAATAAGTACCCTGAATGTACTC CAGAATTGTTGACAGATCTTAGATCTGCTTCCGTTAACAACAATTGCTATGCGCATGCAG CTGCTAAAGCAGGACTAAACAAGCACATTCTTCATTCGTCATTGCCATTGCACGGAAGGA TGGCTTACTACTTTGAGAATTTTACTAAGCACCGATTTACAGGTCCATCACATGGTTGGG AAGCTGGCATTGGTCTACCCAAGGTGCCTCTTCTTCTGTTTGATGATTTTGATTTGATCC GTATAGTTATTATTCATTACATGCTTTCTTGCACTTCTGTTTTTGCTTGGTCTGGTATTT GCCTGTACTCTTTCAGAAACCCCTCAAAACGCATGTACTACCAGTCATTCCATGGTTGCA AGGATACAAAATCACCAGACTGGCAGACTCACAACCAACCTAGGCTGGTACTGGTCGCTG TGCAGTTCCTTATTTTAATCAGTAAAATATCACCTTTAAAATTTTGAGTACTACTGTAGG CGACCTGTTACCGATCCAAATTTGCCGTGTGGCTTACATCTTTGTTTATGCAAATACACA TAATTGCCTGGATAACAAATATTCGATTCAGATTATTGAATCACCTACCCTAATAGGGAT AAGGCAATGGCTGATACAAAACTATCATCTATTCCCCTTCAACATGCTCTTTGTTCACTA GCTTTGGACTAGAATATGAATTTAAATACAAATTCAAGTTCTTAAACTGTGCAGGGTGTG AACAACTATTGTTGAGTCTTGAGACGTGGTTGCTCTATTTGTTTTCTAAAGTGGATATAG TTTCTAGATTTTCATAAGCATCCTATGTTTTGTCCACTTGTGGATTCTTTTCAATTCTGT CACATAACTGACGTTTTGCCTGCTGCTTATTTGCAAACGAAACAGGTTCTTGGGGATGTT ATTGAATCATTAGCCGGTGCCATTTATCTTGACAGCAAGTATGACAAAGAGGTGGTTTGG AGAAGCATGAAAAAGCTATTGGAGCCTCTTGCGACACCGGAGACGGTTGAGCGTGACCCA GTGAAACTGCTGCAGGAATTTTGTGATCGCAGGTCTTATAGCAGGTCTTACACAAAGGTC CAGAAAGATGGAGTGTCTTCGGTGGTTGGGGAGGTACAGGTAGAAGGGACTACCTACTCA GCAACTGGAACTGGCCCTGATAAGGTTGTCGCAAAAAAGCTTGCAGCGAAGTTGCTGCTA GAAGATCTGAAGGCTATAGTACCATGACACGCTTGCATTTGCAGATGATGCAATACTGTA TAGCTCCTTCCGACTTCACTTGTATTGTGACTAGCCTGTAGGTAGCCTTTTGAAGTTTTT GTGGGAGTATGCGTGTACTTGACAAATGTGCAGCTCAATCATTGCTTGTGAATATTCAGA CTATTGAACTGCACATCTGTGAAGTACGGGCATCGTCTCTCAGAACCATGGTACAGACGA TAATGCTACAGTATCCTTAGACTTCTACTTGTACAGTTGTAAGCACAATCTTGAGTGGAA AGCTGGAATATCTTTTTCTCTCCATCGGGCAGTGCAGTGC
Protein Sequence (333 aa)
>BART1_0-u33637.027 333 150831_barley_pseudomolecules MTAAPTTDLTIPFLVVESCTSHGVELPPELCRLVMSPVSTNTLYSFSIIPSVMYRIQCLL LSAKLKDQLGPIMQQFAIPALKILEAVTTKECQEEFSQESLETLGDSFLKYIATQHLYVK HKLQHEGTLTKMKKNLISNAALCQLACNNNLVRLEFLGDAVLDHLFTIYFYNKYPECTPE LLTDLRSASVNNNCYAHAAAKAGLNKHILHSSLPLHGRMAYYFENFTKHRFTGPSHGWEA GIGLPKVPLLLFDDFDLIRIVIIHYMLSCTSVFAWSGICLYSFRNPSKRMYYQSFHGCKD TKSPDWQTHNQPRLVLVAVQFLILISKISPLKF