- Transcript BART1_0-u41655.003
- Transcript IDBART1_0-u41655.003
- Gene IDBART1_0-u41655
Barley RTD
Exon Structure of BART1_0-u41655.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 707435 | 707284 | + |
| chr6H | 2 | 707678 | 707609 | + |
| chr6H | 3 | 708353 | 708303 | + |
| chr6H | 4 | 709652 | 708511 | + |
| chr6H | 5 | 710469 | 710381 | + |
| chr6H | 6 | 711410 | 710916 | + |
| chr6H | 7 | 712404 | 711540 | + |
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 | 0.229124 | 0 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0.00000875135 |
| morex | RAC | 0 | 0 | 0.193999 |
| morex | INF1 | 0.45478 | 0.431378 | 0.647443 |
| morex | INF2 | 0.604471 | 0 | 1.14379 |
| morex | CAR5 | 0.0000108305 | 0.614868 | 0.0000320888 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| 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 | +2 | 1e-62 | 219 | 152/372 (41%) | protein|OsFBX361 - F-box domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi3g00580.1.p | +2 | 2e-87 | 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 (2864 bp)
>BART1_0-u41655.003 2864 150831_barley_pseudomolecules TTCACAGCCCGCCTACTACCTCGGCTCTCCCCTCACTCCTCAGTCCCCACTCTACACTCC TCTCAGGAGCTCGCGGATGGACAGAAAGGAGGAGCGGCGCCGCCGGCGACCTCCCCTCAC CCCGCCGCCCCGTCCCCGTCGGTCCGGTCGAGCGGCGCAGAGAGAGGGAGAGGAGCGGGT GGCGCCGACGGATCCCGCCGAGGCTCCCCAAGGCGGCCCATGTGGAGAGAGAGGAGGGCT GATGGGTCCTGCTGAGGTTCCCCAAATCCAATGGGCCGGCCCCATTCCCAGCTCGCCGCG CGTGTACGGCAGGAAGCTGTGGCGCTCCGTGTCCAAGGTGCTCGGCAACGACAATCTCCT TGCCGAGATCCTCGTCCGTCTCTCTTCGAAGCCGTCCTCGCTCCCCCGCGCGTCCGCCGT GTGCAAGCGCTGGCGCAACATCCTCTCCGACCCCGAGTTCCTCAAACGCTTCCGCAAGCA CCACCGGAAGCCTCCTCTGCTCGGCTTCTTTGAAGGTTATGCTAACCGCTTCACCCCTGT CATGGACTCGCCCGACCGTATCACTGCTGCCTGCTTCTCCATGCCCAAGAGAAACACACC CTACAACGACCATAGAGAATACATGGGCTGCCGCCATGGCCTTGCTGTCCTGGTCAACAA GCAAGAGCGCAAGACCTTCGTGTGGGACCCTCTCACTGGCCGACAGCACAGCGTGGCTTT TCCACCCGGGCTCGATGACGCCTTTACAGGGAATTTCTGTATGTGGCGCGGCGCGGTGTT GTGTGCTGATGCTGAAGATGGGCATGTGCACGGAGATTGCTTCTCGAGTCCGTTTAAATT GGTCTTGGTCTGCTGCGGTGGATACAATACACAGGCATTTTGCTCTGTCTATGACTCGGT ATCTGGTGTTTGGGGAGGTGTTTTCTCGACCGCGATATCAAGTATAATTTCTATGTTAAG GCCCAGCATCCTAGTTGGTAATACAATTTGCTGGTTGATTTCTGGAGGTGATATCCTTGT GTTTGACTTCGAATGTCAGAGCCTTCATGTGATCGAGAAGCCGGCATACTACTATGTTAC CGACGGGTGTTTTCAGCTCTTACGGATGGAGGGTGGTGGACTTGGCCTTGCTGTTTTGTT GGGCCTGACCATCCAATTGTGGGAGAGGAAATCTAACTGTGATGGCGTCGTCGGGTGGGT GTTGCTGCAGAAAACCATTCCGCTGGAGGGGATGTTTCCAAAAATGGATTCTGTACGTTT CGTCGGGTATGATGAGGACACAAATGTGATTGTTCTCACTTCAATGACTGGCAACTTCAC ACTCCAGCTTGACTCGATGCAGATCAAACATATTGTTAAAAGAAACAACATATGTTACGA CCCGTTTTATCCCTACACCAATTTCTATACTACAGGCAAGGCAACTTGGCGGGAAGGGAT GGATCTGGAACTAATTGTGATCGGACCAGATCTGCTAACGTGCTACCTTGGTCGAATAAT TTAGGTATTGAGAGTTAAATTCGGGTTGCTGAGACGCAGCCATGGCTAGTTGGCGCAGGG AAGTTCTTCTATTCTGCTGAGATGCAGACATGGCTAGTTGGTGCAGTGAAGTTCTTCTTC TATTTTGTATGGTGTGGTCGACGCTTAAAATGTCCTGCTATGTAGCCTGTTGGATCCTCT ACTATGTATGCTGTGGCAGATGCGGTGGTCGATGCTGAGACGTCTCCTCTATGTTGTAGG GTCGTGGTCCGTGAATTGAATTTATCGGGTTTAATCATCCGAACTCTTATATATTTGTGT GCCTAGTGACTTGTCGAGTTGGTTCGGTTAATGCTTTGCTCTGTGATGCGAGGTACTAGC AAGGTGGATGGACAAGAAGCAGTGGGCTCTGGCACTTTACAGAGTTTCTTTGTGAAGTCC CTAACCGCGAGTCTTGCTAGTGATCTAACTGTGATAGTGCTGGTCACATCACCACTTGCA GCAGAGGCAGACAATGCTTCTTCAGTTGGATTTCCGGATTGCAATGCTGGCTCTTTCTTG GAGGAGACAAGTTAAAAAATGTTGTCGGTTTTGGTTTCAACTTCAAAGAGTGTTGTGACT TGGCTCTTAATCAGAAGAGTTGTGAGATTTTATTTGAACTTTGTTTGACTGGATAGAATT ACTGATTTTTCCTTAATTGCTTGTCCTATTCTGGGTCTGTCATAGAGAATTTTCTTGTCC TGAGTTACATTGAAGATATTTTCCAGATCTTGGACTTGCCATTCCCGATACTTGTCCAAT AAGTCAGCCCTCCAGGAAAAACACAGACTACATTGGCCTGGCGAGAGAGCCAACCGGTGA TTGCCACAGACCACATTGGTCTGGCGAGTTAGCCAACCGGTGATTGCCACGACGTTTGTT TTTCTTGGGACCGCACCTTGGTTTCTTGGGACCGCACCTTGGCTCCTGGGGCTACATGTG CATAGGGAAAATGCTGTCTTGGTGGTTGTTGCTGTCAAAACCGAAATGTTTGGCCATGAT ATTCAGTATTTTTAACATAGTTTCAGTTATCTTTGACACAGTTTCAGTTCTATACGTTTC CATGCTGCATTTGCTTCCAGTAGACATACATCACATTCACAATGTTGTGTCCTCCACTTG ACCTGACCTTATATATTACTTCTTTTTTTCTTGTTCAGTTCCAATTCAGCCTCAGTTCGT TCATAGCACCACTGTGTAAAAAAAAAAACCATGAATATAAGTAAAGCTGTTGAAACTCTA TACTGGTTAAGTAGTTTGTGAATCTTGTTGTGTTGCTGGTAGATGAATTGAAAGAAGCAC TATAACATGCCTGCCAGAAATAAAGAAATTAAAGAATGGTTCCG
Protein Sequence (500 aa)
>BART1_0-u41655.003 500 150831_barley_pseudomolecules SQPAYYLGSPLTPQSPLYTPLRSSRMDRKEERRRRRPPLTPPPRPRRSGRAAQREGEERV APTDPAEAPQGGPCGERGGLMGPAEVPQIQWAGPIPSSPRVYGRKLWRSVSKVLGNDNLL AEILVRLSSKPSSLPRASAVCKRWRNILSDPEFLKRFRKHHRKPPLLGFFEGYANRFTPV MDSPDRITAACFSMPKRNTPYNDHREYMGCRHGLAVLVNKQERKTFVWDPLTGRQHSVAF PPGLDDAFTGNFCMWRGAVLCADAEDGHVHGDCFSSPFKLVLVCCGGYNTQAFCSVYDSV SGVWGGVFSTAISSIISMLRPSILVGNTICWLISGGDILVFDFECQSLHVIEKPAYYYVT DGCFQLLRMEGGGLGLAVLLGLTIQLWERKSNCDGVVGWVLLQKTIPLEGMFPKMDSVRF VGYDEDTNVIVLTSMTGNFTLQLDSMQIKHIVKRNNICYDPFYPYTNFYTTGKATWREGM DLELIVIGPDLLTCYLGRII