- Transcript BART1_0-u41655.012
- Transcript IDBART1_0-u41655.012
- Gene IDBART1_0-u41655
Barley RTD
Exon Structure of BART1_0-u41655.012
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 707435 | 707325 | + |
| chr6H | 2 | 707678 | 707609 | + |
| chr6H | 3 | 708353 | 708300 | + |
| chr6H | 4 | 709652 | 708511 | + |
| chr6H | 5 | 710469 | 710381 | + |
| chr6H | 6 | 711410 | 710916 | + |
| chr6H | 7 | 711989 | 711546 | + |
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 | 2.17122 | 4.7461 | 2.64523 |
| morex | ETI | 0.000126408 | 0.00000230648 | 0.0000112468 |
| morex | LEA | 2.86564 | 0 | 0.0158284 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 2.34721 | 1.57966 |
| morex | ROO2 | 0 | 0 | 0.0388213 |
| morex | NOD | 3.30839 | 1.31755 | 2.57697 |
| morex | RAC | 0 | 0 | 0.283061 |
| morex | INF1 | 21.5937 | 17.7456 | 21.4047 |
| morex | INF2 | 24.8065 | 27.1522 | 35.6357 |
| morex | CAR5 | 9.82543 | 8.79907 | 11.8574 |
| morex | CAR15 | 7.96964 | 5.33581 | 6.61091 |
| morex | LEM | 0.00000236844 | 0 | 0 |
| morex | LOD | 1.05472 | 0 | 0.00000405 |
| morex | PAL | 0 | 0 | 0.418058 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os10g04700.1 | +3 | 2e-63 | 219 | 152/372 (41%) | protein|OsFBX361 - F-box domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi3g00580.1.p | +3 | 1e-88 | 286 | 173/382 (45%) | pacid=32819138 transcript=Bradi3g00580.1 locus=Bradi3g00580 ID=Bradi3g00580.1.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 (2405 bp)
>BART1_0-u41655.012 2405 150831_barley_pseudomolecules AGTCCCCACTCTACACTCCTCTCAGGAGCTCGCGGATGGACAGAAAGGAGGAGCGGCGCC GCCGGCGACCTCCCCTCACCCCGCCGCCCCGTCCCCGTCGGTCCGGTCGAGCGGCGCAGA GAGAGGGAGAGGAGCGGGTGGCGCCGACGGATCCCGCCGAGGCTCCCCAAGGCGGCCCAT GCAGTGGAGAGAGAGGAGGGCTGATGGGTCCTGCTGAGGTTCCCCAAATCCAATGGGCCG GCCCCATTCCCAGCTCGCCGCGCGTGTACGGCAGGAAGCTGTGGCGCTCCGTGTCCAAGG TGCTCGGCAACGACAATCTCCTTGCCGAGATCCTCGTCCGTCTCTCTTCGAAGCCGTCCT CGCTCCCCCGCGCGTCCGCCGTGTGCAAGCGCTGGCGCAACATCCTCTCCGACCCCGAGT TCCTCAAACGCTTCCGCAAGCACCACCGGAAGCCTCCTCTGCTCGGCTTCTTTGAAGGTT ATGCTAACCGCTTCACCCCTGTCATGGACTCGCCCGACCGTATCACTGCTGCCTGCTTCT CCATGCCCAAGAGAAACACACCCTACAACGACCATAGAGAATACATGGGCTGCCGCCATG GCCTTGCTGTCCTGGTCAACAAGCAAGAGCGCAAGACCTTCGTGTGGGACCCTCTCACTG GCCGACAGCACAGCGTGGCTTTTCCACCCGGGCTCGATGACGCCTTTACAGGGAATTTCT GTATGTGGCGCGGCGCGGTGTTGTGTGCTGATGCTGAAGATGGGCATGTGCACGGAGATT GCTTCTCGAGTCCGTTTAAATTGGTCTTGGTCTGCTGCGGTGGATACAATACACAGGCAT TTTGCTCTGTCTATGACTCGGTATCTGGTGTTTGGGGAGGTGTTTTCTCGACCGCGATAT CAAGTATAATTTCTATGTTAAGGCCCAGCATCCTAGTTGGTAATACAATTTGCTGGTTGA TTTCTGGAGGTGATATCCTTGTGTTTGACTTCGAATGTCAGAGCCTTCATGTGATCGAGA AGCCGGCATACTACTATGTTACCGACGGGTGTTTTCAGCTCTTACGGATGGAGGGTGGTG GACTTGGCCTTGCTGTTTTGTTGGGCCTGACCATCCAATTGTGGGAGAGGAAATCTAACT GTGATGGCGTCGTCGGGTGGGTGTTGCTGCAGAAAACCATTCCGCTGGAGGGGATGTTTC CAAAAATGGATTCTGTACGTTTCGTCGGGTATGATGAGGACACAAATGTGATTGTTCTCA CTTCAATGACTGGCAACTTCACACTCCAGCTTGACTCGATGCAGATCAAACATATTGTTA AAAGAAACAACATATGTTACGACCCGTTTTATCCCTACACCAATTTCTATACTACAGGCA AGGCAACTTGGCGGGAAGGGATGGATCTGGAACTAATTGTGATCGGACCAGATCTGCTAA CGTGCTACCTTGGTCGAATAATTTAGGTATTGAGAGTTAAATTCGGGTTGCTGAGACGCA GCCATGGCTAGTTGGCGCAGGGAAGTTCTTCTATTCTGCTGAGATGCAGACATGGCTAGT TGGTGCAGTGAAGTTCTTCTTCTATTTTGTATGGTGTGGTCGACGCTTAAAATGTCCTGC TATGTAGCCTGTTGGATCCTCTACTATGTATGCTGTGGCAGATGCGGTGGTCGATGCTGA GACGTCTCCTCTATGTTGTAGGGTCGTGGTCCGTGAATTGAATTTATCGGGTTTAATCAT CCGAACTCTTATATATTTGTGTGCCTAGTGACTTGTCGAGTTGGTTCGGTTAATGCTTTG CTCTGTGATGCGAGGTACTAGCAAGGTGGATGGACAAGAAGCAGTGGGCTCTGGCACTTT ACAGAGTTTCTTTGTGAAGTCCCTAACCGCGAGTCTTGCTAGTGATCTAACTGTGATAGT GCTGGTCACATCACCACTTGCAGCAGAGGCAGACAATGCTTTTGGATTTCCGGATTGCAA TGCTGGCTCTTTCTTGGAGGAGACAAGTTAAAAAATGTTGTCGGTTTTGGTTTCAACTTC AAAGAGTGTTGTGACTTGGCTCTTAATCAGAAGAGTTGTGAGATTTTATTTGAACTTTGT TTGACTGGATAGAATTACTGATTTTTCCTTAATTGCTTGTCCTATTCTGGGTCTGTCATA GAGAATTTTCTTGTCCTGAGTTACATTGAAGATATTTTCCAGATCTTGGACTTGCCATTC CCGATACTTGTCCAATAAGTCAGCCCTCCAGGAAAAACACAGACTACATTGGCCTGGCGA GAGAGCCAACCGGTGATTGCCACAGACCACATTGGTCTGGCGAGTTAGCCAACCGGTGAT TGCCACGACGTTTGTTTTTCTTGGGACCGCACCTTGGTTTCTTGGGACCGCACCTTGGCT CCTGG
Protein Sequence (487 aa)
>BART1_0-u41655.012 487 150831_barley_pseudomolecules SPLYTPLRSSRMDRKEERRRRRPPLTPPPRPRRSGRAAQREGEERVAPTDPAEAPQGGPC SGERGGLMGPAEVPQIQWAGPIPSSPRVYGRKLWRSVSKVLGNDNLLAEILVRLSSKPSS LPRASAVCKRWRNILSDPEFLKRFRKHHRKPPLLGFFEGYANRFTPVMDSPDRITAACFS MPKRNTPYNDHREYMGCRHGLAVLVNKQERKTFVWDPLTGRQHSVAFPPGLDDAFTGNFC MWRGAVLCADAEDGHVHGDCFSSPFKLVLVCCGGYNTQAFCSVYDSVSGVWGGVFSTAIS SIISMLRPSILVGNTICWLISGGDILVFDFECQSLHVIEKPAYYYVTDGCFQLLRMEGGG LGLAVLLGLTIQLWERKSNCDGVVGWVLLQKTIPLEGMFPKMDSVRFVGYDEDTNVIVLT SMTGNFTLQLDSMQIKHIVKRNNICYDPFYPYTNFYTTGKATWREGMDLELIVIGPDLLT CYLGRII