- Transcript BART1_0-u30148.006
- Transcript IDBART1_0-u30148.006
- Gene IDBART1_0-u30148
Barley RTD
Exon Structure of BART1_0-u30148.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 534645025 | 534644637 | - |
| chr4H | 2 | 534645366 | 534645280 | - |
| 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 | 534648422 | - |
| chr4H | 10 | 534648750 | 534648637 | - |
| chr4H | 11 | 534649015 | 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 | 20.9066 | 51.7758 | 62.0117 |
| morex | ETI | 12.4426 | 19.4336 | 13.0793 |
| morex | LEA | 43.3904 | 37.2082 | 9.43447 |
| morex | EPI | 4.41544 | 7.45383 | 5.44949 |
| morex | ROO | 9.9606 | 34.7997 | 23.4435 |
| morex | ROO2 | 12.4935 | 13.9014 | 17.9168 |
| morex | NOD | 74.1782 | 12.8252 | 28.4471 |
| morex | RAC | 19.1047 | 24.5564 | 21.9843 |
| morex | INF1 | 113.784 | 77.8027 | 78.0415 |
| morex | INF2 | 79.5914 | 81.5234 | 98.8757 |
| morex | CAR5 | 98.9854 | 99.3203 | 99.9916 |
| morex | CAR15 | 29.1727 | 22.9922 | 27.1115 |
| morex | LEM | 19.1015 | 27.7846 | 11.0673 |
| morex | LOD | 30.3363 | 8.83846 | 31.4391 |
| morex | PAL | 26.6357 | 20.7754 | 16.1253 |
| morex | SEN | 14.7341 | 16.0089 | 15.9371 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g13970.2 | +1 | 4e-180 | 515 | 359/407 (88%) | protein|26S proteasome non-ATPase regulatory subunit 4, putative, expressed |
| TAIR PP10 | AT4G38630 @ ARAPORT AT4G38630.1 @ TAIR |
+1 | 1e-113 | 344 | 184/242 (76%) | Symbols: RPN10, MCB1, ATMCB1, MBP1 | regulatory particle non-ATPase 10 | chr4:18057357-18059459 REVERSE LENGTH=386 |
| BRACH PP3 | Bradi1g68290.1.p | +1 | 0.0 | 532 | 367/407 (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 (1781 bp)
>BART1_0-u30148.006 1781 150831_barley_pseudomolecules CAAGTCTCGAATCGGTTTCCTCCACAGAAAGCAATCCACGTCCACCAAGGCGACGCCGCA AATAAGAACTCCAGCCCTCTCCTCCCCCTTGGATCAGTTTGTTCCCCTTGTTCCCCAACC CGAACCCTCGACTGCAGCGCGACCCACAGCGGCGCAACCATGGTGCTCGAGTCGACGATG ATCTGCATAGACAACTCGGAGTGGATGCGGAACGGCGACTACTCGCCGTCCCGCTTCCAG GCGCAGGCCGACGCCGTCAACCTCATCTGCGGCGCCAAGACCCAGTCGAACCCGGAGAAT ACGGTGGGCGTCATGACGATGGCCGGCAAGGGCGTGCGCGTGCTTGTCACCCCCACCAGC GACCTCGGCAAGATCCTCGCCTGTATGCACGGGCTGGAAGTTGGAGCTGAAGCAAACTTG GCTGCAGCTATTCAGGTTGCTCAGCTGGCTCTCAAGCATCGCCAGAATAAGAGGCAACAA CAGAGAATTATTGTTTTCATTGGAAGCCCTGTGAAATACGACAAGAAAGTTTTGGAGACA ATAGGGAAGAAGCTGAAGAAGAATAATGTTGCCCTTGACGTTGTTGATTTTGGTGAAACT GATGATGAAAAGCCTGAGAAACTGGAAGCGCTGATCGCTGCTGTGAACAGCAGTGATAGC AGCCACATTGTCCATGTCCCTCCGGGTGATCATGCCCTTTCTGATGTTCTTATAAGCACT CCTATCTTCACCGGTGAAGAAGGTGGAAGTGGCTTTGCTGCTTCTGCAGCTGCTGCTGCA GCCACTGGAGCTACTGGGTATGATTTTGGCGTGGACCCAAATGTGGATCCAGAGTTGGCA CTTGCCCTACGGTTGTCTATGGAGGAAGAGCGAGCTAGGCAAGAGGCTATCGCGAAAAAA GCTGCAGAAGACAACAAGGATCAGGCCTCAAGCTCTACTGATGCTATTATGGCTGAAGCG GAACTTACCTTAAATGCTCCTGCTGATGTTGACGCAGATCTACTGAAGGATGATGATGAT GCTCAGCTATTACAGCAAGCACTTGCTATGTCAATGGATGAGGGAGCTTCAGGAGCTGCA GCCGTGGCTGATGCTGCTATGGCAGAAGCTGCTGCAGATGACCAGGATTTGGCATTGGCT CTTCAAATGTCTGTTCAGGACGCAGAGGCGTCTGGTCAATCTGATATGAGCAAAGTGTTT GAAGACAGATCATTTGTGACATCCATCCTTAATTCGCTTCCTGGTGTTGACCCCAATGAC CCATCTGTGAAAGATCTACTGGCATCTTTGCATGGCCAAGGAGAGCAGGAGAAGAAAGAT GAGGCGGACAAGACAGACAAGCCTGAAGATGGGAAGAACTAAAGTCCCTTTGTTGCTTCA TGTAAGACTCCAGCACATGAAGAAGGGAAGAAGATTGCCTGCATTAGCTGCTTTTACACT TGGGCTATGAATTTACTTGATCCTCTTGTAACTGCGTTGACGATAACTCAAATGCCGAGA GAATTTGTATTATGTCTGCTCTCACGAACGCTCCTCCATGTTTGTCTTAAGTGATTACAT GTTGCAAATTTTTTGTACACTTATGTTTGTTGAAGGTGAAACTGATAAGTTGACAGCGTG CTGCGAGTATTGTTGAAATAGGGCATATCTGCACCACTATCGTAGCATGGGACATACACA TATTAGAATATCTACAACCAGAACGTCATGCCTGTGTCCAGTCTCTCGTCTGCAAACCCC TGAATCCTTCAAAAGGATTCTATGTACATAAGAAAGGACGG
Protein Sequence (400 aa)
>BART1_0-u30148.006 400 150831_barley_pseudomolecules MVLESTMICIDNSEWMRNGDYSPSRFQAQADAVNLICGAKTQSNPENTVGVMTMAGKGVR VLVTPTSDLGKILACMHGLEVGAEANLAAAIQVAQLALKHRQNKRQQQRIIVFIGSPVKY DKKVLETIGKKLKKNNVALDVVDFGETDDEKPEKLEALIAAVNSSDSSHIVHVPPGDHAL SDVLISTPIFTGEEGGSGFAASAAAAAATGATGYDFGVDPNVDPELALALRLSMEEERAR QEAIAKKAAEDNKDQASSSTDAIMAEAELTLNAPADVDADLLKDDDDAQLLQQALAMSMD EGASGAAAVADAAMAEAAADDQDLALALQMSVQDAEASGQSDMSKVFEDRSFVTSILNSL PGVDPNDPSVKDLLASLHGQGEQEKKDEADKTDKPEDGKN