- Transcript BART1_0-u30598.005
- Transcript IDBART1_0-u30598.005
- Gene IDBART1_0-u30598
Barley RTD
Exon Structure of BART1_0-u30598.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 574820351 | 574820263 | + |
| 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 | 574827612 | 574827520 | + |
| chr4H | 11 | 574829277 | 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 | 0.158486 | 0 | 3.08637 |
| morex | ETI | 0.0513815 | 0.342092 | 2.59817 |
| morex | LEA | 0 | 1.82584 | 0 |
| morex | EPI | 0.382395 | 0 | 0.589365 |
| morex | ROO | 0.788252 | 0.641318 | 0 |
| morex | ROO2 | 4.25266 | 1.14719 | 1.46427 |
| morex | NOD | 0.807656 | 1.7118 | 3.45469 |
| morex | RAC | 0.698027 | 2.35724 | 2.51671 |
| morex | INF1 | 2.07984 | 5.00761 | 5.83727 |
| morex | INF2 | 4.12182 | 1.5395 | 3.17757 |
| morex | CAR5 | 3.45203 | 2.35777 | 1.72402 |
| morex | CAR15 | 0 | 0.0552687 | 0 |
| morex | LEM | 0.000590785 | 1.59634 | 1.30151 |
| morex | LOD | 1.06063 | 4.76315 | 1.74223 |
| morex | PAL | 2.4886 | 0 | 1.46835 |
| morex | SEN | 2.8265 | 0.656186 | 1.00146 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g10460.1 | +1 | 5e-167 | 479 | 266/336 (79%) | protein|expressed protein |
| TAIR PP10 | AT2G18410 @ ARAPORT AT2G18410.1 @ TAIR |
+1 | 3e-69 | 227 | 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 | +1 | 0.0 | 539 | 285/336 (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 (1653 bp)
>BART1_0-u30598.005 1653 150831_barley_pseudomolecules CTCCAGTGCTGCCCCCTCGCGGCGCGCGCCATGCTCCACGTCGCCGCCGCCGTCGCCTCC AACGCGGCCGCGGGGAAGGCGCAGGCCAGGGGACTTGTGGTTGTGGCGTTTGACCGGAGC CCGGAAGTTTACCTGGATGCCATGCTTCGGCACGGCCTTGATTCGAATGCACTGAGTCGA TGTGTTCGGATATTGGATTGCTACTCAGACCCACTCGGGTGGAAGAAAAATATCCGAAGT CAGCAGCATCATGAGGACAGTGGAACACCGTGCTCATCAAACAAAGGCAACATCACAATT TTCAGAAGCGTGAAGGATGTTGATAAGTTATCGTGCTCCATAATTGATCTTGGAAGAGGG TTTGAAGGAGAAGGCAAGACCTATTTTTCTGTTGCTCTCGATTCAATTAGCTCTATGTTA AGGCATGCTTCAGTGCAATCAATTTCAGGCCTTCTTAGTAATCTTCGGAGCCATGATCAG ATATCATCAATCTTCTGGCTAATGCATTCAGATCTCCATGAAACCAAGTTTTCCCGAGCT TTTGAATGCCTTTCTACCATGGTTGCTTGTGTAGAGCCAGAAGTTGTAGATTCTGTATAT GGAGAAGAACGTAGGGGGGACATGTCTTTCCTTGAGCATAACTATTCGAAAGCAAAGTTC CATGTGCGCCTGAAACGAAGGAATGGACGGGTGAAGCATCTGCATGAGGAGTTATGTGTT GAGGGATATGATGTAAAATTTGTTTCTGCTACTTCTGTAAGTATGGAAGTGAACCAAAGT CTACTACCTAAGGTTCAGTTCAATCTTGAGCTGTCAGAAAAGGAACGGAGTGACAGGGCA AATGTTGTTCTTCCTTTCGAACATCAAGGAAAGGGCGAGCCAATCCGTATATATGATGGA CGGCGATCTCTCCCGGAGGCTCGTCAAGATCTCAATTTTACTACGGCAGCTCTCCTGGAT GAAACAGAAGCTCTTAAATCTGCAGACACGAAGGGTGAAATTCATTACCTTCGTGATTCT GATGATGAGCGACCTGACTCGGATGAAGACCCCGATGATGATTTGGATATTTAGCCACAA TGTGAGCTCTGTTTATCCTAGTGGTCAGCTATCAAGTCAAAGATCCTCTTCAACGACTCC AACCAACAACGTGGTCAAATACGAGACTCTCATTCATGGTTTGCGTTTGGCCATCTCCAT GGGCATTCACAAGAGGCGCTTGCGAAAATTCTAGGAGGCGTTCACTTTGCGTGGGCGGCT GGAGCTACTGCATAGTTATGGTTGAACAATTTAAGCACCTGTATTATGTATAGCTTCGTG AGCATTGGAAGGCAACCTTTGCAAATCACTGGGTTTGAAATTTCTTGGATGCTCAAGACT AATGTGTTGATGGTAGCATATCGAATGAAAGGTCATATGCCCCAATGCGATTTTGTAGTT TTGTTTCGACGTGGATGAATGTTGGCTAGTGTGTCAGTCGCTGAAATGGGTCCAGAACAA GAGGATGCGACATGTAACACTGTTTTTTCAGTTATATGAGAATATACACCGGGCTATTTG TTTGCTGGATGCTTACTTCTGTTCATTAATGTTTGATGGCTAGTAGTAACTGATTGTTCA GCCTTTGGTGAATTTCCATTAACTAAACCAGCG
Protein Sequence (347 aa)
>BART1_0-u30598.005 347 150831_barley_pseudomolecules MLHVAAAVASNAAAGKAQARGLVVVAFDRSPEVYLDAMLRHGLDSNALSRCVRILDCYSD PLGWKKNIRSQQHHEDSGTPCSSNKGNITIFRSVKDVDKLSCSIIDLGRGFEGEGKTYFS VALDSISSMLRHASVQSISGLLSNLRSHDQISSIFWLMHSDLHETKFSRAFECLSTMVAC VEPEVVDSVYGEERRGDMSFLEHNYSKAKFHVRLKRRNGRVKHLHEELCVEGYDVKFVSA TSVSMEVNQSLLPKVQFNLELSEKERSDRANVVLPFEHQGKGEPIRIYDGRRSLPEARQD LNFTTAALLDETEALKSADTKGEIHYLRDSDDERPDSDEDPDDDLDI