- Transcript BART1_0-u21354.013
- Transcript IDBART1_0-u21354.013
- Gene IDBART1_0-u21354
Barley RTD
Exon Structure of BART1_0-u21354.013
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 460557509 | 460556909 | - |
| chr3H | 2 | 460558032 | 460557695 | - |
| chr3H | 3 | 460558373 | 460558101 | - |
| chr3H | 4 | 460558898 | 460558793 | - |
| chr3H | 5 | 460559814 | 460559714 | - |
| chr3H | 6 | 460560666 | 460560479 | - |
| chr3H | 7 | 460562682 | 460561660 | - |
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 | 0.441329 | 0.498189 | 0.263616 |
| morex | ETI | 0.623659 | 0.464245 | 0.0695933 |
| morex | LEA | 0.00032847 | 0 | 1.73486 |
| morex | EPI | 1.64173 | 3.39777 | 1.69368 |
| morex | ROO | 0.0388426 | 0.142303 | 0 |
| morex | ROO2 | 1.50218 | 1.38638 | 1.21524 |
| morex | NOD | 0.805348 | 0.553821 | 1.02312 |
| morex | RAC | 1.76493 | 1.26076 | 1.81536 |
| morex | INF1 | 0 | 0.371311 | 0.404881 |
| morex | INF2 | 0.891074 | 0.00000108126 | 0.000647804 |
| morex | CAR5 | 1.27179 | 0.25464 | 1.33721 |
| morex | CAR15 | 0.817519 | 0.330236 | 1.10078 |
| morex | LEM | 1.53218 | 1.45588 | 2.64663 |
| morex | LOD | 2.45771 | 3.02462 | 1.55269 |
| morex | PAL | 1.85777 | 2.39125 | 2.06183 |
| morex | SEN | 0.940388 | 1.26436 | 1.20109 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g47540.1 | +2 | 5e-145 | 437 | 261/439 (59%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G46410 @ ARAPORT AT5G46410.1 @ TAIR |
+2 | 9e-69 | 235 | 106/159 (67%) | Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=453 |
| BRACH PP3 | Bradi2g45880.1.p | +2 | 1e-141 | 428 | 216/258 (84%) | 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 (2630 bp)
>BART1_0-u21354.013 2630 150831_barley_pseudomolecules AATTCTCCTCTCCCCTCTTGTGATTCCGGTGCGTCTTCCCCTCCTCTCTGCCTGCCTGCG CGCACCGGTCTCCCCCCCCCCCCCTCCCTCTCTTCCTCCGTCCGCCTCCGCCTCCGGGAG AGGCCGAGAGAGAGGGAGAGAGGGAGGACGCGCCGGAGCTACCCGCGCCAGCATCGCCTC GGTAAGCTCCGCGGAATTCCTCTCCTGGATTCGCCCCGGCGCGGTTAGGGATGGATGTTT AGCGGCTGGCAGTAGCTCTGCTCGATTCGGTAGGAATTCGTCTTCGTATAGCGTGCTGGG GGCTCGTCTCGAGTTTTCGGCTCGCGGACGCCGCGGGGGTTGATTCCCGCGCCCTCTCCT GGCCGGGGGGTTTGGGTTTTGGTCGATTTTTCGGGAAGTAAGTTGGGGAATTTGAAGCGC CCGGTCCTAAATCCGACTAGAAACACGCGAGATTTTGATTCTTCCGCACTCGCTAGAGTA CGATAGTTGGCGATGCTTGTCTGGAAACCCTTCCACCTTCCTTCTGGTTGGGGATTTCTA TTTTTTCTTCCGTCGGGTTGGACTCTGCTGCTTTGCTTTCGCTACCTTGGCACTAGTTCT TTCTGCCGGAATCGCACCCAGCTTGCAATTTCTAGCTAAATCTCTAATTCCACTCGACAG TTTGTCGGGTTCTAATGCACGGCGGCGATCTGAGTGTTTTCAAGTCACTACTTGTAGGGT TTGCTTGTTGTAATTTCAGTTTTTTCAGCTGTTCTTTGGTTACCCCCTTCAATTGGAGTA GTGGGAACATCCCTCCAGTCAAAGAAATAATTTTATGGAAATATTTCCCTCCGTCTAAAT TTACTTGTTCTTCTCCTTTTGGGTTTGGGTTCTCGTTTTAGTTTACGCCATCTTACCTTG TTGTTGCTTAACCTAGATGTTTTGCTGCCTTTGTAGATCCGTGTTGTACTCCTTGACCGA CTATGGCTTTTATCAATTCAAAGTCAGATTCATTCCAAGCCTTCCGTCTAAAACATAACT TAGACAGTTTTGGCAGTCTGAACTGCTGATCAAGATGCCAGCACTGAGAATGAAGAGGAA GTTTGATGATGACATTTTCGGGAGTGAGTTTGACATCAAATCCATGAAATCGGTGAAAAT CTCGCCTTCCCAAGTTGATGAGTTCGAGCAGGCATTTGTGTTAAACTCGTCTTACAAGGA CCCTCAGGATGAGCCTGAGCCGATAACTCAACTAGCTGTCCAGGATATTAGGGTTACAGA ATTTTCCGGTTTGCATGCTGTACTTGGAGGAACATCCGTTGCTCTGCTGAAGGATTTAAT ATCTGAAACTGTGGTTCCACCAAATTTGGAACCTGATTCTTTATCTAATAATGATGATGG CAAATCTCAGTCAAATGTAGTGAACACCGGTGATAAAGACATGAGTGGCATATGCGGAGT ATTTCCACTTAATGAGAGCACCGTGGAAGGTTGCATTGGCAATGAACCATGCCCATCACA AGGGGATATGTGCTTTAATAACTTTGGTGGGGAGTGCTTTAGCCATTCTGAGGTTTTAGA GTGGTTTAATCCATATATGGATGAGTCTGATGTACCTAATCTTATTGGTTATACCGAGTT GAGCTCAGATGCTGCTTGTGTATCTAAAGAGCAAGGGGCCAGGAAGGTCACTCTTGTGCT TGATTTGGATGAAACCCTTGTTCATTCAACTCTGGAGCACTGTGATGATGCAGATTTTTC TTTTCCAGTGTCCTTTGGTCTGAAAGAACATGTGGTATATGTGAGGAAGAGACCACATTT GCATATGTTCCTCCAGAAGATGGCTGAGATGTTTGACGTTGTTATATTCACAGCCAGCCA AAGTGTTTATGCAGACCAGCTGCTTGACAGGCTTGATCCAGAGAACACATTGTTCTCGAA GCGTTTTTTCCGCGAGTCATGTGTATTTACGGAAAGTGGCTACACAAAAGATCTGACTGT TATTGGAGTTGACCTTGCAAAGGTTGCCATAATTGACAACACTCCGCAGGTTTTCCAGTT GCAAGTGAATAATGGTATACCCATAGAGAGCTGGTATAATGACCCCTTTGATGAGGGATT ATCTCAGCTGATTCCATTCCTGGAGACACTTGCTGTTGCTGATGACGTCCGACCCATAAT TGCCAAGAGGTTTGGCAACTAAAAGGATAATGGCTGAGGTTTTCCAGCAGGTGTTAGGAA GAGTTTGTTGGTTACTCACATAGAGGGACAAGAACTTACATGACACATTGACCGAGCTAG TTGAGACTTGCCTTTTTCTTAATTTTATTTACATGGGTTTCATAGGATCAAGAATTTTGG TGGCAGAGCTATTTCTCGTGAATTGTAAATATCCTCAAACACTGTTATAGAATTTTGTAC ATAAAAACTGTTAGAAATGAAAGCGAAACTCTCTAAAATTTCTTCTTTGCCACATTGTCA TTGTCTATGTTCAGCTGTCTACTATTCAGTGTTTTTTCTGTTTCATGATGTCAACTACTC CCTCTGTCCTACAATGTAAAACGTTTTTGCAAGCTAACATATTTGCAAGTTACATTGTGG AACGGAGGGAGCAGAATTGATTTTGTAACACAACTGTCTGATATCTTCTG
Protein Sequence (375 aa)
>BART1_0-u21354.013 375 150831_barley_pseudomolecules MPALRMKRKFDDDIFGSEFDIKSMKSVKISPSQVDEFEQAFVLNSSYKDPQDEPEPITQL AVQDIRVTEFSGLHAVLGGTSVALLKDLISETVVPPNLEPDSLSNNDDGKSQSNVVNTGD KDMSGICGVFPLNESTVEGCIGNEPCPSQGDMCFNNFGGECFSHSEVLEWFNPYMDESDV PNLIGYTELSSDAACVSKEQGARKVTLVLDLDETLVHSTLEHCDDADFSFPVSFGLKEHV VYVRKRPHLHMFLQKMAEMFDVVIFTASQSVYADQLLDRLDPENTLFSKRFFRESCVFTE SGYTKDLTVIGVDLAKVAIIDNTPQVFQLQVNNGIPIESWYNDPFDEGLSQLIPFLETLA VADDVRPIIAKRFGN