- Transcript BART1_0-u30598.003
- Transcript IDBART1_0-u30598.003
- Gene IDBART1_0-u30598
Barley RTD
Exon Structure of BART1_0-u30598.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 574820351 | 574820091 | + |
| chr4H | 2 | 574820930 | 574820449 | + |
| chr4H | 3 | 574822272 | 574822203 | + |
| chr4H | 4 | 574822810 | 574822584 | + |
| chr4H | 5 | 574822997 | 574822908 | + |
| chr4H | 6 | 574823189 | 574823114 | + |
| chr4H | 7 | 574824006 | 574823332 | + |
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 | 0.221098 | 0 |
| morex | ETI | 0.227108 | 0 | 0 |
| morex | LEA | 0 | 0.129443 | 0 |
| morex | EPI | 0 | 0 | 0.0473403 |
| morex | ROO | 0 | 0.29686 | 0 |
| morex | ROO2 | 0.383666 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0.0688389 | 0.167857 |
| morex | INF1 | 0.348835 | 0 | 0 |
| morex | INF2 | 0.996382 | 0.779539 | 0.875461 |
| morex | CAR5 | 0 | 0.318557 | 0.369692 |
| morex | CAR15 | 0 | 0.0933011 | 0 |
| morex | LEM | 0.148139 | 0.136887 | 0.116534 |
| morex | LOD | 0.141065 | 0 | 0 |
| morex | PAL | 0 | 0.106986 | 0.0582063 |
| morex | SEN | 0.0844785 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g10460.1 | +3 | 8e-105 | 311 | 163/206 (79%) | protein|expressed protein |
| TAIR PP10 | AT2G18410 @ ARAPORT AT2G18410.1 @ TAIR |
+3 | 2e-42 | 157 | 87/207 (42%) | Symbols: | FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Histone acetylation protein 2 (InterPro:IPR019519); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink). | chr2:7990768-7992588 FORWARD LENGTH=374 |
| BRACH PP3 | Bradi1g71057.2.p | +3 | 3e-119 | 348 | 172/204 (84%) | pacid=32795801 transcript=Bradi1g71057.2 locus=Bradi1g71057 ID=Bradi1g71057.2.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 (1881 bp)
>BART1_0-u30598.003 1881 150831_barley_pseudomolecules GGGGCTCTTGTGCAAAAGCTCCACCCTCTCGCGCTAGGGTTTAAGGTTCTGAGTCGGGAG GCGCCGCCGGCGACGACGACGGGGAGCTGAGATGGCGGACGCGGCCGTGAGGTGCCTCCG GGACGGCCGCCTCGACGGCGAGCACGCGCCAGCGCTGGCCGTGGAGGGCTCCCTCCAGTG CTGCCCCCTCGCGGCGCGCGCCATGCTCCACGTCGCCGCCGCCGTCGCCTCCAACGCGGC CGCGGGGAAGGCGCAGGCCAGGGGACTTGTGGTTGTGGCGTTTGACCGGAGCCCGGAAGT TTACCTGGATGCCATGCTTCGGCACGGCCTTGATTCGAATGCACTGAGTCGATGGTAAGA TCTAGCAGATCAATAATTTTTAACAGGGAAACGAACCAGAGCTTTAGCGTAACCGACAAT TCGCAGAGATTGTTTTGTGTGGAATGTTCTGCTGTGAACCGCACATAGCATTTCCTTCAT GCAGGCCAGAGTTTAAATGTTCATGATGATAGAATTTACATGAATGTGCAATACCTATGT TTCAGAATTTTTGCATTGTTGCAACAGTGTTCGGATATTGGATTGCTACTCAGACCCACT CGGGTGGAAGAAAAATATCCGAAGTCAGCAGCATCATGAGGACAGTGGAACACCGTGCTC ATCAAACAAAGGCAACATCACAATTTTCAGAAGCGTGAAGGATGTTGATAAGTTATCGTG CTCCATAATTGATCTTGGAAGAGATTAGCTCTATGTTAAGGCATGCTTCAGTGCAATCAA TTTCAGGCCTTCTTAGTAATCTTCGGAGCCATGATCAGATATCATCAATCTTCTGGCTAA TGCATTCAGATCTCCATGAAACCAAGTTTTCCCGAGCTTTTGAATGCCTTTCTACCATGG TTGCTTGTGTAGAGCCAGAAGTTGTAGATTCTGTATATGGAGAAGAACGTAGGGGGGACA TGTCTTTCCTTGAGCATAACTATTCGAAAGCAAAGTTCCATGTGCGCCTGAAACGAAGGA ATGGACGGGTGAAGCATCTGCATGAGGAGTTATGTGTTGAGGGATATGATGTAAAATTTG TTTCTGCTACTTCTGTAAGTATGGAAGTGAACCAAAGTCTACTACCTAAGGTTCAGTTCA ATCTTGAGCTGTCAGAAAAGGAACGGAGTGACAGGGCAAATGTTGTTCTTCCTTTCGAAC ATCAAGGAAAGGGCGAGCCAATCCGTATATATGATGGACGGCGATCTCTCCCGGAGGCTC GTCAAGATCTCAATTTTACTACGGCAGCTCTCCTGGATGAAACAGAAGCTCTTAAATCTG CAGACACGAAGGGTGAAATTCATTACCTTCGTGATTCTGATGATGAGCGACCTGACTCGG ATGAAGACCCCGATGATGATTTGGATATTTAGCCACAATGTGAGCTCTGTTTATCCTAGT GGTCAGCTATCAAGTCAAAGGTAACACTTACTGAGAACTGCCGACTTCTGTTATTAGTCT TCTCCATTCGTTATTCCTTATGCCGATCACAAATGTTTAGTGTTCACGGTGCTAGACTGA GGGAGTATGTCTTCTGTTGTTGGTTACATAGAGGCTACTTTTTCTCACAAAAGAGAACTC CCTGTTCTATCAAAAGAATATTACCCACACTCCCAATGGCGGAGTGTATTGGAGACCAAA CCAGGCCATGGCTAGTCCTTATCGTTGTATTTCATCTTAGGAGTTGGTACTATTTGGCCC AAGAACCACTGATGCCCACTGAGGAAGCAGTTGACACCTTCAATTTGTTTCATGCTCCGC CACTGCGCACTCTTACAGTCTTACTGTTTTGAATTGTGAGTAAAAGTGTGCATCTAGTTC CTTCTCTAAAAGAGAAACACC
Protein Sequence (219 aa)
>BART1_0-u30598.003 219 150831_barley_pseudomolecules MLRHASVQSISGLLSNLRSHDQISSIFWLMHSDLHETKFSRAFECLSTMVACVEPEVVDS VYGEERRGDMSFLEHNYSKAKFHVRLKRRNGRVKHLHEELCVEGYDVKFVSATSVSMEVN QSLLPKVQFNLELSEKERSDRANVVLPFEHQGKGEPIRIYDGRRSLPEARQDLNFTTAAL LDETEALKSADTKGEIHYLRDSDDERPDSDEDPDDDLDI