- Transcript BART1_0-u30148.007
- Transcript IDBART1_0-u30148.007
- Gene IDBART1_0-u30148
Barley RTD
Exon Structure of BART1_0-u30148.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 534645025 | 534644763 | - |
| chr4H | 2 | 534645363 | 534645291 | - |
| chr4H | 3 | 534645936 | 534645868 | - |
| chr4H | 4 | 534646135 | 534646038 | - |
| chr4H | 5 | 534646858 | 534646729 | - |
| chr4H | 6 | 534647659 | 534647368 | - |
| chr4H | 7 | 534647959 | 534647750 | - |
| chr4H | 8 | 534648157 | 534648043 | - |
| chr4H | 9 | 534648527 | 534648431 | - |
| chr4H | 10 | 534648750 | 534648637 | - |
| chr4H | 11 | 534648965 | 534648845 | - |
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 | 116.264 | 123.95 | 118.066 |
| morex | ETI | 93.0303 | 101.216 | 111.695 |
| morex | LEA | 65.9038 | 64.1291 | 70.4314 |
| morex | EPI | 90.9647 | 120.191 | 103.308 |
| morex | ROO | 78.757 | 78.3693 | 36.0423 |
| morex | ROO2 | 165.542 | 167.232 | 164.524 |
| morex | NOD | 149.838 | 154.815 | 142.187 |
| morex | RAC | 141.765 | 138.797 | 135.956 |
| morex | INF1 | 113.774 | 128.236 | 126.482 |
| morex | INF2 | 110.822 | 120.011 | 112.566 |
| morex | CAR5 | 114.571 | 118.924 | 109.119 |
| morex | CAR15 | 20.0188 | 21.3238 | 21.0186 |
| morex | LEM | 130.091 | 120.89 | 120.484 |
| morex | LOD | 200.936 | 178.654 | 205.318 |
| morex | PAL | 135.854 | 133.47 | 125.197 |
| morex | SEN | 97.9124 | 104.265 | 105.974 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g13970.2 | +2 | 9e-166 | 476 | 341/387 (88%) | protein|26S proteasome non-ATPase regulatory subunit 4, putative, expressed |
| TAIR PP10 | AT4G38630 @ ARAPORT AT4G38630.1 @ TAIR |
+2 | 1e-107 | 327 | 180/242 (74%) | Symbols: RPN10, MCB1, ATMCB1, MBP1 | regulatory particle non-ATPase 10 | chr4:18057357-18059459 REVERSE LENGTH=386 |
| BRACH PP3 | Bradi1g68290.1.p | +2 | 1e-171 | 491 | 348/386 (90%) | pacid=32803746 transcript=Bradi1g68290.1 locus=Bradi1g68290 ID=Bradi1g68290.1.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 (1582 bp)
>BART1_0-u30148.007 1582 150831_barley_pseudomolecules CGACGCCGCAAATAAGAACTCCAGCCCTCTCCTCCCCCTTGGATCAGTTTGTTCCCCTTG TTCCCCAACCCGAACCCTCGACTGCAGCGCGACCCACAGCGGCGCAACCATGGTGCTCGA GTCGACGATGATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTACTCGCCGTC CCGCTTCCAGGCGCAGGCCGACGCCGTCAACCTCATCTGCGGCGCCAAGACCCAGTCGAA CCCGGAGAATACGGTGGGCGTCATGACGATGGCCGGCAAGGGCGTGCGCGTGCTTGTCAC CCCCACCAGCGACCTCGGCAAGATCCTCGCCTGGCTGGAAGTTGGAGCTGAAGCAAACTT GGCTGCAGCTATTCAGGTTGCTCAGCTGGCTCTCAAGCATCGCCAGAATAAGAGGCAACA ACAGAGAATTATTGTTTTCATTGGAAGCCCTGTGAAATACGACAAGAAAGTTTTGGAGAC AATAGGGAAGAAGCTGAAGAAGAATAATGTTGCCCTTGACGTTGTTGATTTTGGTGAAAC TGATGATGAAAAGCCTGAGAAACTGGAAGCGCTGATCGCTGCTGTGAACAGCAGTGATAG CAGCCACATTGTCCATGTCCCTCCGGGTGATCATGCCCTTTCTGATGTTCTTATAAGCAC TCCTATCTTCACCGGTGAAGAAGGTGGAAGTGGCTTTGCTGCTTCTGCAGCTGCTGCTGC AGCCACTGGAGCTACTGGGTATGATTTTGGCGTGGACCCAAATGTGGATCCAGAGTTGGC ACTTGCCCTACGGTTGTCTATGGAGGAAGAGCGAGCTAGGCAAGAGGCTATCGCGAAAAA AGCTGCAGAAGACAACAAGGATCAGGCCTCAAGCTCTACTGATGCTATTATGGCTGAAGC GGAACTTACCTTAAATGCTCCTGCTGATGTTGACGCAGATCTACTGAAGGATGATGATGA TGCTCAGCTATTACAGCAAGCACTTGCTATGTCAATGGATGAGGGAGCTTCAGGAGCTGC AGCCGTGGCTGATGCTGCTATGGCAGAAGCTGCTGCAGATGACCAGGATTTGGCATTGGC TCTTCAAATGTCTGTTCAGGACGCAGAGGCGTCTGGTCAATCTGATATGAGCAAAGTGTT TGAAGACAGATCATTTGTGACATCCATCCTTAATTCGCTTCCTGGTGTTGACCCCAATGA CCCATCTGTGAAAGATCTACTGGCATCTTTGCATGGCCAAGGAGAGGAGAAGAAAGATGA GGCGGACAAGACAGACAAGCCTGAAGATGGGAAGAACTAAAGTCCCTTTGTTGCTTCATG CACATGAAGAAGGGAAGAAGATTGCCTGCATTAGCTGCTTTTACACTTGGGCTATGAATT TACTTGATCCTCTTGTAACTGCGTTGACGATAACTCAAATGCCGAGAGAATTTGTATTAT GTCTGCTCTCACGAACGCTCCTCCATGTTTGTCTTAAGTGATTACATGTTGCAAATTTTT TGTACACTTATGTTTGTTGAAGGTGAAACTGATAAGTTGACAGCGTGCTGCGAGTATTGT TGAAATAGGGCATATCTGCACC
Protein Sequence (396 aa)
>BART1_0-u30148.007 396 150831_barley_pseudomolecules MVLESTMICIDNSEWMRNGDYSPSRFQAQADAVNLICGAKTQSNPENTVGVMTMAGKGVR VLVTPTSDLGKILAWLEVGAEANLAAAIQVAQLALKHRQNKRQQQRIIVFIGSPVKYDKK VLETIGKKLKKNNVALDVVDFGETDDEKPEKLEALIAAVNSSDSSHIVHVPPGDHALSDV LISTPIFTGEEGGSGFAASAAAAAATGATGYDFGVDPNVDPELALALRLSMEEERARQEA IAKKAAEDNKDQASSSTDAIMAEAELTLNAPADVDADLLKDDDDAQLLQQALAMSMDEGA SGAAAVADAAMAEAAADDQDLALALQMSVQDAEASGQSDMSKVFEDRSFVTSILNSLPGV DPNDPSVKDLLASLHGQGEEKKDEADKTDKPEDGKN