- Transcript BART1_0-u30598.008
- Transcript IDBART1_0-u30598.008
- Gene IDBART1_0-u30598
Barley RTD
Exon Structure of BART1_0-u30598.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 574820351 | 574820285 | + |
| chr4H | 2 | 574820541 | 574820449 | + |
| chr4H | 3 | 574820930 | 574820755 | + |
| chr4H | 4 | 574821065 | 574821019 | + |
| chr4H | 5 | 574822272 | 574822203 | + |
| chr4H | 6 | 574822810 | 574822584 | + |
| chr4H | 7 | 574822997 | 574822908 | + |
| chr4H | 8 | 574823189 | 574823114 | + |
| chr4H | 9 | 574823585 | 574823332 | + |
| chr4H | 10 | 574829183 | 574828840 | + |
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 | 3.56908 | 2.87708 | 0.000000835083 |
| morex | ETI | 4.97779 | 3.30553 | 4.9095 |
| morex | LEA | 0.665568 | 1.68759 | 2.23483 |
| morex | EPI | 0 | 0.744954 | 1.39868 |
| morex | ROO | 4.19708 | 2.11306 | 1.04324 |
| morex | ROO2 | 4.72577 | 5.46075 | 4.13225 |
| morex | NOD | 2.02352 | 0.711384 | 0.829705 |
| morex | RAC | 3.91295 | 3.32315 | 1.27664 |
| morex | INF1 | 1.49732 | 8.34378 | 3.7267 |
| morex | INF2 | 6.96755 | 5.64584 | 3.46999 |
| morex | CAR5 | 3.45723 | 2.94243 | 4.82877 |
| morex | CAR15 | 0 | 0.420484 | 1.61698 |
| morex | LEM | 4.19222 | 1.31847 | 0 |
| morex | LOD | 2.80141 | 0.00934326 | 0.156127 |
| morex | PAL | 0 | 3.52746 | 1.58861 |
| morex | SEN | 0 | 2.88046 | 1.88848 |
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-168 | 479 | 241/307 (79%) | protein|expressed protein |
| TAIR PP10 | AT2G18410 @ ARAPORT AT2G18410.1 @ TAIR |
+3 | 4e-70 | 228 | 128/309 (41%) | 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 | 0.0 | 531 | 261/307 (85%) | 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 (1444 bp)
>BART1_0-u30598.008 1444 150831_barley_pseudomolecules CGCGCGCCATGCTCCACGTCGCCGCCGCCGTCGCCTCCAACGCGGCCGCGGGGAAGGCGC AGGCCAGGGGACTTGTGGTTGTGGCGTTTGACCGGAGCCCGGAAGTTTACCTGGATGCCA TGCTTCGGCACGGCCTTGATTCGAATGCACTGAGTCGATGTGTTCGGATATTGGATTGCT ACTCAGACCCACTCGGGTGGAAGAAAAATATCCGAAGTCAGCAGCATCATGAGGACAGTG GAACACCGTGCTCATCAAACAAAGGCAACATCACAATTTTCAGAAGCGTGAAGGATGTTG ATAAGTTATCGTGCTCCATAATTGATCTTGGAAGAGGGTTTGAAGGAGAAGGCAAGACCT ATTTTTCTGTTGCTCTCGATTCAATTAGCTCTATGTTAAGGCATGCTTCAGTGCAATCAA TTTCAGGCCTTCTTAGTAATCTTCGGAGCCATGATCAGATATCATCAATCTTCTGGCTAA TGCATTCAGATCTCCATGAAACCAAGTTTTCCCGAGCTTTTGAATGCCTTTCTACCATGG TTGCTTGTGTAGAGCCAGAAGTTGTAGATTCTGTATATGGAGAAGAACGTAGGGGGGACA TGTCTTTCCTTGAGCATAACTATTCGAAAGCAAAGTTCCATGTGCGCCTGAAACGAAGGA ATGGACGGGTGAAGCATCTGCATGAGGAGTTATGTGTTGAGGGATATGATGTAAAATTTG TTTCTGCTACTTCTGTAAGTATGGAAGTGAACCAAAGTCTACTACCTAAGGTTCAGTTCA ATCTTGAGCTGTCAGAAAAGGAACGGAGTGACAGGGCAAATGTTGTTCTTCCTTTCGAAC ATCAAGGAAAGGGCGAGCCAATCCGTATATATGATGGACGGCGATCTCTCCCGGAGGCTC GTCAAGATCTCAATTTTACTACGGCAGCTCTCCTGGATGAAACAGAAGCTCTTAAATCTG CAGACACGAAGGGTGAAATTCATTACCTTCGTGATTCTGATGATGAGCGACCTGACTCGG ATGAAGACCCCGATGATGATTTGGATATTTAGCCACAATGTGAGCTCTGTTTATCCTAGT GGTCAGCTATCAAGTCAAAGGCGCTTGCGAAAATTCTAGGAGGCGTTCACTTTGCGTGGG CGGCTGGAGCTACTGCATAGTTATGGTTGAACAATTTAAGCACCTGTATTATGTATAGCT TCGTGAGCATTGGAAGGCAACCTTTGCAAATCACTGGGTTTGAAATTTCTTGGATGCTCA AGACTAATGTGTTGATGGTAGCATATCGAATGAAAGGTCATATGCCCCAATGCGATTTTG TAGTTTTGTTTCGACGTGGATGAATGTTGGCTAGTGTGTCAGTCGCTGAAATGGGTCCAG AACAAGAGGATGCGACATGTAACACTGTTTTTTCAGTTATATGAGAATATACACCGGGCT ATTT
Protein Sequence (349 aa)
>BART1_0-u30598.008 349 150831_barley_pseudomolecules RAMLHVAAAVASNAAAGKAQARGLVVVAFDRSPEVYLDAMLRHGLDSNALSRCVRILDCY SDPLGWKKNIRSQQHHEDSGTPCSSNKGNITIFRSVKDVDKLSCSIIDLGRGFEGEGKTY FSVALDSISSMLRHASVQSISGLLSNLRSHDQISSIFWLMHSDLHETKFSRAFECLSTMV ACVEPEVVDSVYGEERRGDMSFLEHNYSKAKFHVRLKRRNGRVKHLHEELCVEGYDVKFV SATSVSMEVNQSLLPKVQFNLELSEKERSDRANVVLPFEHQGKGEPIRIYDGRRSLPEAR QDLNFTTAALLDETEALKSADTKGEIHYLRDSDDERPDSDEDPDDDLDI