- Transcript BART1_0-u30148.004
- Transcript IDBART1_0-u30148.004
- Gene IDBART1_0-u30148
Barley RTD
Exon Structure of BART1_0-u30148.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 534645025 | 534644505 | - |
| chr4H | 2 | 534645366 | 534645280 | - |
| chr4H | 3 | 534645936 | 534645868 | - |
| chr4H | 4 | 534646135 | 534646038 | - |
| chr4H | 5 | 534646858 | 534646729 | - |
| chr4H | 6 | 534647659 | 534647368 | - |
| chr4H | 7 | 534648157 | 534647750 | - |
| chr4H | 8 | 534648527 | 534648422 | - |
| chr4H | 9 | 534648750 | 534648637 | - |
| chr4H | 10 | 534648939 | 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 | 0 | 0 | 0 |
| morex | ETI | 0.159699 | 0 | 0.099028 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0.427328 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0.540748 |
| morex | RAC | 0 | 0.114716 | 0 |
| morex | INF1 | 0.337563 | 0 | 0.40706 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0.254813 | 0.231089 | 0.309283 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0.10153 | 0 |
| morex | PAL | 0.16809 | 0.13759 | 0 |
| morex | SEN | 0.206209 | 0 | 0 |
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-112 | 213 | 140/163 (86%) | protein|26S proteasome non-ATPase regulatory subunit 4, putative, expressed |
| TAIR PP10 | AT4G38630 @ ARAPORT AT4G38630.1 @ TAIR |
+3 | 1e-54 | 191 | 100/127 (79%) | Symbols: RPN10, MCB1, ATMCB1, MBP1 | regulatory particle non-ATPase 10 | chr4:18057357-18059459 REVERSE LENGTH=386 |
| BRACH PP3 | Bradi1g68290.1.p | +2 | 3e-144 | 320 | 252/291 (87%) | 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 (1920 bp)
>BART1_0-u30148.004 1920 150831_barley_pseudomolecules CTCTCCTCCCCCTTGGATCAGTTTGTTCCCCTTGTTCCCCAACCCGAACCCTCGACTGCA GCGCGACCCACAGCGGCGCAACCATGGTGCTCGAGTCGACGATGATCTGCATAGACAACT CGGAGTGGATGCGGAACGGCGACTACTCGCCGTCCCGCTTCCAGGCGCAGGCCGACGCCG TCAACCTCATCTGCGGCGCCAAGACCCAGTCGAACCCGGAGAATACGGTGGGCGTCATGA CGATGGCCGGCAAGGGCGTGCGCGTGCTTGTCACCCCCACCAGCGACCTCGGCAAGATCC TCGCCTGTATGCACGGGCTGGAAGTTGGAGCTGAAGCAAACTTGGCTGCAGCTATTCAGG TTGCTCAGCTGGCTCTCAAGCATCGCCAGAATAAGAGGCAACAACAGAGAATTATTGTTT TCATTGGAAGGTATGTTGAGCAAATGAGCAAGATAACTTCTGTTGACCCTGTTTTGTCTG AATTACGCTAATTTCATTGTCCTCATATCTCAGCCCTGTGAAATACGACAAGAAAGTTTT GGAGACAATAGGGAAGAAGCTGAAGAAGAATAATGTTGCCCTTGACGTTGTTGATTTTGG TGAAACTGATGATGAAAAGCCTGAGAAACTGGAAGCGCTGATCGCTGCTGTGAACAGCAG TGATAGCAGCCACATTGTCCATGTCCCTCCGGGTGATCATGCCCTTTCTGATGTTCTTAT AAGCACTCCTATCTTCACCGGTGAAGAAGGTGGAAGTGGCTTTGCTGCTTCTGCAGCTGC TGCTGCAGCCACTGGAGCTACTGGGTATGATTTTGGCGTGGACCCAAATGTGGATCCAGA GTTGGCACTTGCCCTACGGTTGTCTATGGAGGAAGAGCGAGCTAGGCAAGAGGCTATCGC GAAAAAAGCTGCAGAAGACAACAAGGATCAGGCCTCAAGCTCTACTGATGCTATTATGGC TGAAGCGGAACTTACCTTAAATGCTCCTGCTGATGTTGACGCAGATCTACTGAAGGATGA TGATGATGCTCAGCTATTACAGCAAGCACTTGCTATGTCAATGGATGAGGGAGCTTCAGG AGCTGCAGCCGTGGCTGATGCTGCTATGGCAGAAGCTGCTGCAGATGACCAGGATTTGGC ATTGGCTCTTCAAATGTCTGTTCAGGACGCAGAGGCGTCTGGTCAATCTGATATGAGCAA AGTGTTTGAAGACAGATCATTTGTGACATCCATCCTTAATTCGCTTCCTGGTGTTGACCC CAATGACCCATCTGTGAAAGATCTACTGGCATCTTTGCATGGCCAAGGAGAGCAGGAGAA GAAAGATGAGGCGGACAAGACAGACAAGCCTGAAGATGGGAAGAACTAAAGTCCCTTTGT TGCTTCATGTAAGACTCCAGCACATGAAGAAGGGAAGAAGATTGCCTGCATTAGCTGCTT TTACACTTGGGCTATGAATTTACTTGATCCTCTTGTAACTGCGTTGACGATAACTCAAAT GCCGAGAGAATTTGTATTATGTCTGCTCTCACGAACGCTCCTCCATGTTTGTCTTAAGTG ATTACATGTTGCAAATTTTTTGTACACTTATGTTTGTTGAAGGTGAAACTGATAAGTTGA CAGCGTGCTGCGAGTATTGTTGAAATAGGGCATATCTGCACCACTATCGTAGCATGGGAC ATACACATATTAGAATATCTACAACCAGAACGTCATGCCTGTGTCCAGTCTCTCGTCTGC AAACCCCTGAATCCTTCAAAAGGATTCTATGTACATAAGAAAGGACGGATCACCTGCCGA TCTTTTACAAAACTATGCCAGAAAGGATATACACAGCTTTACTGATTATGTTCTGACCAT TAGCAACCACAACCACTATGGGAATGAAGCAAGTAAAATGATCAATATGTAAAATCCAAG
Protein Sequence (167 aa)
>BART1_0-u30148.004 167 150831_barley_pseudomolecules MEEERARQEAIAKKAAEDNKDQASSSTDAIMAEAELTLNAPADVDADLLKDDDDAQLLQQ ALAMSMDEGASGAAAVADAAMAEAAADDQDLALALQMSVQDAEASGQSDMSKVFEDRSFV TSILNSLPGVDPNDPSVKDLLASLHGQGEQEKKDEADKTDKPEDGKN