- Transcript BART1_0-u44413.011
- Transcript IDBART1_0-u44413.011
- Gene IDBART1_0-u44413
Barley RTD
Exon Structure of BART1_0-u44413.011
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 210489211 | 210488496 | - |
| chr6H | 2 | 210489368 | 210489301 | - |
| chr6H | 3 | 210489823 | 210489746 | - |
| chr6H | 4 | 210490007 | 210489916 | - |
| chr6H | 5 | 210490160 | 210490092 | - |
| chr6H | 6 | 210490789 | 210490666 | - |
| chr6H | 7 | 210491070 | 210490947 | - |
| chr6H | 8 | 210492067 | 210491949 | - |
| chr6H | 9 | 210492687 | 210492629 | - |
| chr6H | 10 | 210493332 | 210493241 | - |
| chr6H | 11 | 210493711 | 210493508 | - |
| chr6H | 12 | 210494944 | 210494825 | - |
| chr6H | 13 | 210495518 | 210495417 | - |
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 | 0.531248 | 1.9166 | 1.18107 |
| morex | ETI | 1.49325 | 0.588242 | 1.61263 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 2.27924 | 2.80363 | 1.19253 |
| morex | ROO | 0.727819 | 0.213272 | 0 |
| morex | ROO2 | 0.713996 | 0.894475 | 1.49796 |
| morex | NOD | 1.2023 | 0 | 0 |
| morex | RAC | 2.37202 | 1.30429 | 2.82071 |
| morex | INF1 | 2.46727 | 1.15119 | 0 |
| morex | INF2 | 0.99839 | 1.9717 | 0.939746 |
| morex | CAR5 | 2.89951 | 1.03225 | 1.87715 |
| morex | CAR15 | 0 | 0.765858 | 0.490617 |
| morex | LEM | 0.84625 | 0.520743 | 0.878728 |
| morex | LOD | 4.02605 | 1.65641 | 0.843188 |
| morex | PAL | 0.439307 | 0.279781 | 1.06559 |
| morex | SEN | 0 | 1.53905 | 0.658364 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g13110.1 | +3 | 0.0 | 473 | 251/271 (93%) | protein|serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B, putative, expressed |
| TAIR PP10 | AT1G17720 @ ARAPORT AT1G17720.1 @ TAIR |
+3 | 0.0 | 441 | 220/270 (81%) | Symbols: ATB BETA | Protein phosphatase 2A, regulatory subunit PR55 | chr1:6093949-6098065 REVERSE LENGTH=501 |
| BRACH PP3 | Bradi3g08400.4.p | +3 | 0.0 | 487 | 263/271 (97%) | pacid=32816173 transcript=Bradi3g08400.4 locus=Bradi3g08400 ID=Bradi3g08400.4.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 (1967 bp)
>BART1_0-u44413.011 1967 150831_barley_pseudomolecules ATGCAGAATGCCAGTCGGACAGAGCTTGAGAGACAAGATTATTCGGTGCCCAGGCATCCT GAGTTCCGCTATAAAACTGAATTTCAGAGTCATGAACCTGAGTTCGATTACCTAAAGAGT TTGGAAATAGAGGAGAAAATCAACAAGATCAAGTGGGGCCAAATAGCCAACAATGCACTC TTTATCTTGTCTACAAATGACAAAACAATCAAGTACTGGAAGGTGCAAGACAAAAAAGTG AAACGAATTTCAGTAATGAATTTGGATACTTCCCAGAGTGCAGACAATGGGACAACTTCT AGTTCGAGTACCAGTAGCTCTAGAGGCCTTCCTAATGGAGGATCCTCAGAAAAGTCATAC AATTATGCAAACAACGATCTGCCATTCCCTCCTGGGGGATATGCATCATTGCGTTTGCCT GTGGTAGTTACAGGCCAAGAGTTAAACCCTGTTGCTAGATGCCGGCGTGTATATGCACAC GCCCATGATTACCATATCAATTCCATTTCAAATAATAGGTAATGTTGTTGCATACTAGGG CTAGGGAGAGGCTCTCGCCCCTGAAGGCAAGATAGAATGATGGTGAGACATTCATATCAG CAGATGATCTGCGAATTAATCTGTGGAATTTGGAAATCAACAGTCAGAGCTTTAACATTG TTGATGTGAAGCCTGTAAACATGGAGGATCTAACTGAGGTGATTACATGTGCGGAGTTCC ATCCAACTCACTGTAATACACTAGCCTATAGTAGCTCAAAGGGCGCTATCAGGCTTATTG ACCTGCGGCAATCAGCACTGTGTGACAACCATTCTAAGCTATTTGAGGAGCATGAAGCAC CTGGATCAAAATCCTTTTTTACGGAGATAATTGCATCCGTTTCAGATATAAAGTTTGCAA GGGATGGACGGCATATTCTTAGTCGTGATTATATGACTCTCAAGTTATGGGATCTCAACA TGGATTCAGGCCCAGTAGCAACTTTCCAAGTTCATGAACATTTAAGGCCTAAGCTTTGCG ATCTATATGAAAATGATTCAATCTTTGACAAATTTGAATGTTGTCTGAGTGGGGATGGTC ATCGTGTTGCGACTGGCTCTTACAGTAACTTATTTCGTGTTTTTGGTTGTACTCCTGGAA ATACCGAGGCAACCACTTTAGAAGCAAGCAGAAACCCTATGAGGCGTCAGGTTGCTAATC CAACAAGGCCTACAAGAACACTGACCTCTTTGACCCGTGCTGTGAGGAGAGGGGGTGAAA ATGCAGGAGCCGATGGCAATGGGAATTCTAATGACTTCTCAACAAAGTTACTCCATCTTG CGTGGCACCCAACTGAGAACTCCATTGCGTGTGCTGCTGGAAATAGCTTGTACATGTATT ATGCATAGGGAATGTGCTAGAGAAGATTCACTGTTTTTGGTTTGTGCAACGTGAAAGCTT CGGCCTTGCACATGCAACCAGAGAAATGGTGCAGAACATTGTCATCAATTCTGTGATTGG GGGTCGGAAGAGGCGGTTGGCACCCAGGGGATGGATATCCTCCAACTCCAAGCATAGCAG ACTATTTCCTTCTGATTCTTTAGTAAATGTGAAACACAAATTCTAATCGCACGATTGTAG CTGCATGTGTAGCCAAAACACCAGCAGTTGGAGGACAGAGCAGAAGATAGCAAGGCTGAT TCTAATTTCACTTGGTCCCAGGAAATATCTGCTTACGGTGGATGTAAGAAATTTTCTTTT CTCTTCATCAAGTGTAATGTAATGCCGCCTAGCCAGGTTTAACCATCTGCTGTCACCAAC GGTGAAACATCTGTGGACATAAATTATGACTTGTAGCCCCCCCCTCCCCCCTCTATTTGT TGGTGGTCGAAACTTACAATAAGTTTGCAGGTGTGACTCAACTCCTGCTGCATGTGATCG GCTATGACCTAAGTTGTATATGCTACATTTTGCCATGCAAAACTCAC
Protein Sequence (235 aa)
>BART1_0-u44413.011 235 150831_barley_pseudomolecules MEDLTEVITCAEFHPTHCNTLAYSSSKGAIRLIDLRQSALCDNHSKLFEEHEAPGSKSFF TEIIASVSDIKFARDGRHILSRDYMTLKLWDLNMDSGPVATFQVHEHLRPKLCDLYENDS IFDKFECCLSGDGHRVATGSYSNLFRVFGCTPGNTEATTLEASRNPMRRQVANPTRPTRT LTSLTRAVRRGGENAGADGNGNSNDFSTKLLHLAWHPTENSIACAAGNSLYMYYA