- Transcript BART1_0-u44413.007
- Transcript IDBART1_0-u44413.007
- Gene IDBART1_0-u44413
Barley RTD
Exon Structure of BART1_0-u44413.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 210489368 | 210488459 | - |
| chr6H | 2 | 210489823 | 210489746 | - |
| chr6H | 3 | 210490007 | 210489916 | - |
| chr6H | 4 | 210490160 | 210490092 | - |
| chr6H | 5 | 210490789 | 210490666 | - |
| chr6H | 6 | 210491070 | 210490947 | - |
| chr6H | 7 | 210492067 | 210491949 | - |
| chr6H | 8 | 210493332 | 210493241 | - |
| chr6H | 9 | 210493711 | 210493505 | - |
| chr6H | 10 | 210494944 | 210494825 | - |
| chr6H | 11 | 210495512 | 210495417 | - |
| chr6H | 12 | 210495803 | 210495591 | - |
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 | 1.72205 | 4.24419 | 1.91349 |
| morex | ETI | 0.315338 | 0.306725 | 0.931974 |
| morex | LEA | 0.881459 | 1.51199 | 1.35832 |
| morex | EPI | 3.44943 | 3.6215 | 2.22751 |
| morex | ROO | 0.438467 | 0.510897 | 0.59576 |
| morex | ROO2 | 2.13441 | 1.53214 | 1.98434 |
| morex | NOD | 2.08311 | 0.777698 | 0 |
| morex | RAC | 1.76615 | 2.79506 | 1.70639 |
| morex | INF1 | 3.03414 | 3.92822 | 3.25969 |
| morex | INF2 | 2.25254 | 2.42132 | 3.19271 |
| morex | CAR5 | 3.02181 | 1.49828 | 2.623 |
| morex | CAR15 | 0.463327 | 0.262162 | 1.84542 |
| morex | LEM | 0.93709 | 1.04214 | 0.861087 |
| morex | LOD | 1.53312 | 1.41628 | 3.43395 |
| morex | PAL | 1.0329 | 1.55393 | 2.02545 |
| morex | SEN | 1.42486 | 1.84333 | 0.840976 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g13110.1 | +1 | 0.0 | 754 | 391/436 (90%) | protein|serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B, putative, expressed |
| TAIR PP10 | AT1G17720 @ ARAPORT AT1G17720.1 @ TAIR |
+1 | 0.0 | 671 | 335/436 (77%) | Symbols: ATB BETA | Protein phosphatase 2A, regulatory subunit PR55 | chr1:6093949-6098065 REVERSE LENGTH=501 |
| BRACH PP3 | Bradi3g08400.3.p | +1 | 0.0 | 802 | 412/435 (95%) | pacid=32816172 transcript=Bradi3g08400.3 locus=Bradi3g08400 ID=Bradi3g08400.3.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 (2244 bp)
>BART1_0-u44413.007 2244 150831_barley_pseudomolecules GTTCCATTCATTTAACTCGACGGTTTTGTCAATTGACTTTAATATGATTTCTTGGTTTAC TGTAGTCTGCCAAGTCATATTTATATTTTGACTAAATTTGTTGTTTCAGTTGACATCATC TCTGCGATCGAGTTTGACAAATCTGGTGATCATCTTGCCACTGGAGATAGGGGTGGACGT GTAGTTTTGTTTGAAAGAACTGATGCCAGGGGTAATGCCAGTCGGACAGAGCTTGAGAGA CAAGATTATTCGGTGCCCAGGCATCCTGAGTTCCGCTATAAAACTGAATTTCAGAGTCAT GAACCTGAGTTCGATTACCTAAAGAGTTTGGAAATAGAGGAGAAAATCAACAAGATCAAG TGGGGCCAAATAGCCAACAATGCACTCTTTATCTTGTCTACAAATGACAAAACAATCAAG TACTGGAAGGTGCAAGACAAAAAAGTGAAACGAATTTCAGTAATGAATTTGGATACTTCC CAGAGTGCAGACAATGGGACAACTTCTAGTTCGAGTACCAGTAGCTCTAGAGGCCTTCCT AATGGAGGATCCTCAGAAAAGTCATACAATTATGCAAACAACGATCTGCCATTCCCTCCT GGGGGATATGCATCATTGCGTTTGCCTGTGGTAGTTGTTACAGGCCAAGAGTTAAACCCT GTTGCTAGATGCCGGCGTGTATATGCACACGCCCATGATTACCATATCAATTCCATTTCA AATAATAGTGATGGTGAGACATTCATATCAGCAGATGATCTGCGAATTAATCTGTGGAAT TTGGAAATCAACAGTCAGAGCTTTAACATTGTTGATGTGAAGCCTGTAAACATGGAGGAT CTAACTGAGGTGATTACATGTGCGGAGTTCCATCCAACTCACTGTAATACACTAGCCTAT AGTAGCTCAAAGGGCGCTATCAGGCTTATTGACCTGCGGCAATCAGCACTGTGTGACAAC CATTCTAAGCTATTTGAGGAGCATGAAGCACCTGGATCAAAATCCTTTTTTACGGAGATA ATTGCATCCGTTTCAGATATAAAGTTTGCAAGGGATGGACGGCATATTCTTAGTCGTGAT TATATGACTCTCAAGTTATGGGATCTCAACATGGATTCAGGCCCAGTAGCAACTTTCCAA GTTCATGAACATTTAAGGCCTAAGCTTTGCGATCTATATGAAAATGATTCAATCTTTGAC AAATTTGAATGTTGTCTGAGTGGGGATGGTCATCGTGTTGCGACTGGCTCTTACAGTAAC TTATTTCGTGTTTTTGGTTGTACTCCTGGAAATACCGAGGCAACCACTTTAGAAGCAAGC AGAAACCCTATGAGGCGTCAGGTTGCTAATCCAACAAGGCCTACAAGAACACTGACCTCT TTGACCCGTGCTGTGAGGAGAGGTAAGTGTCTCTTGTATCATAGATCTGATTATTTCTGT CACATAGGTAGAGTAGATTGACGTACTTCTCCTTGTGCAAATGTTGCACAGGGGGTGAAA ATGCAGGAGCCGATGGCAATGGGAATTCTAATGACTTCTCAACAAAGTTACTCCATCTTG CGTGGCACCCAACTGAGAACTCCATTGCGTGTGCTGCTGGAAATAGCTTGTACATGTATT ATGCATAGGGAATGTGCTAGAGAAGATTCACTGTTTTTGGTTTGTGCAACGTGAAAGCTT CGGCCTTGCACATGCAACCAGAGAAATGGTGCAGAACATTGTCATCAATTCTGTGATTGG GGGTCGGAAGAGGCGGTTGGCACCCAGGGGATGGATATCCTCCAACTCCAAGCATAGCAG ACTATTTCCTTCTGATTCTTTAGTAAATGTGAAACACAAATTCTAATCGCACGATTGTAG CTGCATGTGTAGCCAAAACACCAGCAGTTGGAGGACAGAGCAGAAGATAGCAAGGCTGAT TCTAATTTCACTTGGTCCCAGGAAATATCTGCTTACGGTGGATGTAAGAAATTTTCTTTT CTCTTCATCAAGTGTAATGTAATGCCGCCTAGCCAGGTTTAACCATCTGCTGTCACCAAC GGTGAAACATCTGTGGACATAAATTATGACTTGTAGCCCCCCCCTCCCCCCTCTATTTGT TGGTGGTCGAAACTTACAATAAGTTTGCAGGTGTGACTCAACTCCTGCTGCATGTGATCG GCTATGACCTAAGTTGTATATGCTACATTTTGCCATGCAAAACTCACAACTAATGATATG GATTCTTGAGTATTCATGTCTGGC
Protein Sequence (332 aa)
>BART1_0-u44413.007 332 150831_barley_pseudomolecules MNLDTSQSADNGTTSSSSTSSSRGLPNGGSSEKSYNYANNDLPFPPGGYASLRLPVVVVT GQELNPVARCRRVYAHAHDYHINSISNNSDGETFISADDLRINLWNLEINSQSFNIVDVK PVNMEDLTEVITCAEFHPTHCNTLAYSSSKGAIRLIDLRQSALCDNHSKLFEEHEAPGSK SFFTEIIASVSDIKFARDGRHILSRDYMTLKLWDLNMDSGPVATFQVHEHLRPKLCDLYE NDSIFDKFECCLSGDGHRVATGSYSNLFRVFGCTPGNTEATTLEASRNPMRRQVANPTRP TRTLTSLTRAVRRGKCLLYHRSDYFCHIGRVD