- Transcript BART1_0-u21354.009
- Transcript IDBART1_0-u21354.009
- Gene IDBART1_0-u21354
Barley RTD
Exon Structure of BART1_0-u21354.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 460556581 | 460556563 | - |
| chr3H | 2 | 460557509 | 460556681 | - |
| chr3H | 3 | 460558032 | 460557695 | - |
| chr3H | 4 | 460558898 | 460558101 | - |
| chr3H | 5 | 460559814 | 460559714 | - |
| chr3H | 6 | 460560666 | 460560479 | - |
| chr3H | 7 | 460562957 | 460562502 | - |
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 | 1.60546 | 0.00219892 | 0.0933045 |
| morex | LEA | 0 | 0.165944 | 0 |
| morex | EPI | 0.362878 | 0.000000000953025 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0.182049 | 0.832274 | 0.945939 |
| morex | NOD | 0 | 0.233634 | 0 |
| morex | RAC | 0.805811 | 0.256451 | 1.39019 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0.270756 | 0 | 0.454715 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0.197605 | 0 | 0.530349 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0.000000109165 | 2.41671 |
| morex | PAL | 0.455906 | 0 | 0.256767 |
| morex | SEN | 0.00000000465029 | 2.30869 | 0.866239 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g47540.1 | +1 | 9e-153 | 457 | 239/324 (74%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G46410 @ ARAPORT AT5G46410.1 @ TAIR |
+1 | 1e-67 | 233 | 106/159 (67%) | Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=453 |
| BRACH PP3 | Bradi2g45880.1.p | +1 | 2e-178 | 523 | 265/327 (81%) | pacid=32780084 transcript=Bradi2g45880.1 locus=Bradi2g45880 ID=Bradi2g45880.1.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 (2729 bp)
>BART1_0-u21354.009 2729 150831_barley_pseudomolecules CCCACCCGCACATCTCACCGCAGCCCCTCCGTCACTGACACCCCGAACCAGCATCGCCCT GGCCCCGCGCGTCATCCACCTGAAGAAAAAGCCTCGCGGGTGGCGAGCCGCGGCGCGTAC GAAGGCGATCGAGTCGGGGGGCTCGACACGGCCGGCCACAGCTGTCTCTGGCGGCATGAC AAGTGGGCCCGGACCGCGCGCGCGGCCCACCGGCCAGCGAGCCGGTCGAAGACGAGTGGA GACGGGCTATACCAAATCGGAGACCGAGCCCTCATAATTCTCCTCTCCCCTCTTGTGATT CCGGTGCGTCTTCCCCTCCTCTCTGCCTGCCTGCGCGCACCGGTCTCCCCCCCCCCCCCT CCCTCTCTTCCTCCGTCCGCCTCCGCCTCCGGGAGAGGCCGAGAGAGAGGGAGAGAGGGA GGACGCGCCGGAGCTACCCGCGCCAGCATCGCCTCGACAGTTTTGGCAGTCTGAACTGCT GATCAAGATGCCAGCACTGAGAATGAAGAGGAAGTTTGATGATGACATTTTCGGGAGTGA GTTTGACATCAAATCCATGAAATCGGTGAAAATCTCGCCTTCCCAAGTTGATGAGTTCGA GCAGGCATTTGTGTTAAACTCGTCTTACAAGGACCCTCAGGATGAGCCTGAGCCGATAAC TCAACTAGCTGTCCAGGATATTAGGGTTACAGAATTTTCCGGTTTGCATGCTGTACTTGG AGGAACATCCGTTGCTCTGCTGAAGGATTTAATATCTGAAACTGTGGTTCCACCAAATTT GGAACCTGATTCTTTATCTAATAATGATGATGGCAAATCTCAGTCAAATGTAGTGAACAC CGGTGATAAAGGTAAGGAGTACCCCTTACCCCTCGAGCAGTTTTTGTAACTAATGTGGCT AGTTTAGGTGATAAGTTTTTGTTCACGGCCAATGTCTATTTGTCTGCACGTATAAAAATA CACAGCCGCCAAATGCAATGTTTTAGAGAACACATTTGATATGCTCACAAGCAAGGTTTA ACCTTTGCATGTGTATATTCACTTACAATTTGCATTGCAGAGTTTGCAGATGAAGATGTA AATTCTGCAGCACAAGATATCTGTACTGTCAATGATCATGAGAAAAGCCTGGGCTCAAAC CCGGATTGCAGCCTGTTGGATATTTATAATCCTGATGATGCTTTTCCTTTCTTATTTGAT GTTCCAACTGGTCTCCTGGCTAGCTACAGTACATTTTGTGATGAATTTGTACCCATCGAT TCATTGACAGACATGAGTGGCATATGCGGAGTATTTCCACTTAATGAGAGCACCGTGGAA GGTTGCATTGGCAATGAACCATGCCCATCACAAGGGGATATGTGCTTTAATAACTTTGGT GGGGAGTGCTTTAGCCATTCTGAGGTTTTAGAGTGGTTTAATCCATATATGGATGAGTCT GATGTACCTAATCTTATTGGTTATACCGAGTTGAGCTCAGATGCTGCTTGTGTATCTAAA GAGCAAGGGGCCAGGAAGGTCACTCTTGTGCTTGATTTGGATGAAACCCTTGTTCATTCA ACTCTGGAGCACTGTGATGATGCAGATTTTTCTTTTCCAGTGTCCTTTGGTCTGAAAGAA CATGTGGTATATGTGAGGAAGAGACCACATTTGCATATGTTCCTCCAGAAGATGGCTGAG ATGTTTGACGTTGTTATATTCACAGCCAGCCAAAGTGTTTATGCAGACCAGCTGCTTGAC AGGCTTGATCCAGAGAACACATTGTTCTCGAAGCGTTTTTTCCGCGAGTCATGTGTATTT ACGGAAAGTGGCTACACAAAAGATCTGACTGTTATTGGAGTTGACCTTGCAAAGGTTGCC ATAATTGACAACACTCCGCAGGTTTTCCAGTTGCAAGTGAATAATGGTATACCCATAGAG AGCTGGTATAATGACCCCTTTGATGAGGGATTATCTCAGCTGATTCCATTCCTGGAGACA CTTGCTGTTGCTGATGACGTCCGACCCATAATTGCCAAGAGGTTTGGCAACTAAAAGGAT AATGGCTGAGGTTTTCCAGCAGGTGTTAGGAAGAGTTTGTTGGTTACTCACATAGAGGGA CAAGAACTTACATGACACATTGACCGAGCTAGTTGAGACTTGCCTTTTTCTTAATTTTAT TTACATGGGTTTCATAGGATCAAGAATTTTGGTGGCAGAGCTATTTCTCGTGAATTGTAA ATATCCTCAAACACTGTTATAGAATTTTGTACATAAAAACTGTTAGAAATGAAAGCGAAA CTCTCTAAAATTTCTTCTTTGCCACATTGTCATTGTCTATGTTCAGCTGTCTACTATTCA GTGTTTTTTCTGTTTCATGATGTCAACTACTCCCTCTGTCCTACAATGTAAAACGTTTTT GCAAGCTAACATATTTGCAAGTTACATTGTGGAACGGAGGGAGCAGAATTGATTTTGTAA CACAACTGTCTGATATCTTCTGCTAAGATAAATTATCATGTTTGACTCTTGTCTATTCAT ACGTAAATTAGATACCTGGCACGTGGAGATTGTTCTGAATACTTATCTTTGTCTGATGTG GGGATCTAGGCTATCCAGCTACTACAAAGGTGAAATTTCATGTAAAAGTCACGCCTGTCT GCCATATTGTTCGCCGCAGTTCCTCCAACACGCAGCAATGCAATTGTTAAAATGAGGCAA GAGTCTAGAGGTCTTAGTTGCCACTTGAA
Protein Sequence (253 aa)
>BART1_0-u21354.009 253 150831_barley_pseudomolecules MSGICGVFPLNESTVEGCIGNEPCPSQGDMCFNNFGGECFSHSEVLEWFNPYMDESDVPN LIGYTELSSDAACVSKEQGARKVTLVLDLDETLVHSTLEHCDDADFSFPVSFGLKEHVVY VRKRPHLHMFLQKMAEMFDVVIFTASQSVYADQLLDRLDPENTLFSKRFFRESCVFTESG YTKDLTVIGVDLAKVAIIDNTPQVFQLQVNNGIPIESWYNDPFDEGLSQLIPFLETLAVA DDVRPIIAKRFGN