- Transcript BART1_0-u21354.001
- Transcript IDBART1_0-u21354.001
- Gene IDBART1_0-u21354
Barley RTD
Exon Structure of BART1_0-u21354.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 460556581 | 460556328 | - |
| chr3H | 2 | 460557509 | 460556681 | - |
| chr3H | 3 | 460558032 | 460557695 | - |
| chr3H | 4 | 460558583 | 460558101 | - |
| chr3H | 5 | 460559443 | 460558793 | - |
| chr3H | 6 | 460559814 | 460559714 | - |
| chr3H | 7 | 460562681 | 460560479 | - |
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 | 0.729413 | 0.601304 |
| morex | ETI | 0.306878 | 0.147362 | 0.382493 |
| morex | LEA | 1.14556 | 1.75085 | 0.357346 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0.366717 | 0.470132 | 0 |
| morex | ROO2 | 0 | 0.619353 | 0.354211 |
| morex | NOD | 0 | 0.244347 | 0.186193 |
| morex | RAC | 0.751182 | 0.338979 | 1.0522 |
| morex | INF1 | 2.02046 | 0.862683 | 0.817569 |
| morex | INF2 | 1.16026 | 1.73089 | 1.38275 |
| morex | CAR5 | 1.90606 | 0.763659 | 0 |
| morex | CAR15 | 0.635794 | 0.606673 | 0.0542208 |
| morex | LEM | 0.194496 | 1.39544 | 0.609821 |
| morex | LOD | 0.940929 | 0.611113 | 0.348319 |
| morex | PAL | 0.597672 | 0.261676 | 0.507683 |
| morex | SEN | 0.135281 | 0.700061 | 0.183433 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g47540.1 | +3 | 1e-158 | 490 | 260/364 (71%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G46410 @ ARAPORT AT5G46410.1 @ TAIR |
+3 | 8e-67 | 234 | 106/159 (67%) | Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=453 |
| BRACH PP3 | Bradi2g45880.1.p | +3 | 0.0 | 549 | 283/365 (78%) | 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 (4859 bp)
>BART1_0-u21354.001 4859 150831_barley_pseudomolecules ATTCTCCTCTCCCCTCTTGTGATTCCGGTGCGTCTTCCCCTCCTCTCTGCCTGCCTGCGC GCACCGGTCTCCCCCCCCCCCCCTCCCTCTCTTCCTCCGTCCGCCTCCGCCTCCGGGAGA GGCCGAGAGAGAGGGAGAGAGGGAGGACGCGCCGGAGCTACCCGCGCCAGCATCGCCTCG GTAAGCTCCGCGGAATTCCTCTCCTGGATTCGCCCCGGCGCGGTTAGGGATGGATGTTTA GCGGCTGGCAGTAGCTCTGCTCGATTCGGTAGGAATTCGTCTTCGTATAGCGTGCTGGGG GCTCGTCTCGAGTTTTCGGCTCGCGGACGCCGCGGGGGTTGATTCCCGCGCCCTCTCCTG GCCGGGGGGTTTGGGTTTTGGTCGATTTTTCGGGAAGTAAGTTGGGGAATTTGAAGCGCC CGGTCCTAAATCCGACTAGAAACACGCGAGATTTTGATTCTTCCGCACTCGCTAGAGTAC GATAGTTGGCGATGCTTGTCTGGAAACCCTTCCACCTTCCTTCTGGTTGGGGATTTCTAT TTTTTCTTCCGTCGGGTTGGACTCTGCTGCTTTGCTTTCGCTACCTTGGCACTAGTTCTT TCTGCCGGAATCGCACCCAGCTTGCAATTTCTAGCTAAATCTCTAATTCCACTCGACAGT TTGTCGGGTTCTAATGCACGGCGGCGATCTGAGTGTTTTCAAGTCACTACTTGTAGGGTT TGCTTGTTGTAATTTCAGTTTTTTCAGCTGTTCTTTGGTTACCCCCTTCAATTGGAGTAG TGGGAACATCCCTCCAGTCAAAGAAATAATTTTATGGAAATATTTCCCTCCGTCTAAATT TACTTGTTCTTCTCCTTTTGGGTTTGGGTTCTCGTTTTAGTTTACGCCATCTTACCTTGT TGTTGCTTAACCTAGATGTTTTGCTGCCTTTGTAGATCCGTGTTGTACTCCTTGACCGAC TATGGCTTTTATCAATTCAAAGTCAGATTCATTCCAAGCCTTCCGTCTAAAACATAACTT AGGTATTGGATGCCCTTTGTTATTTTGCTAGAGCCTTTTTCCGTCGACCTAGCTCCAAAA GTAATTCTTTTGCTGTAGTATATGTTGGCAACACAGATGATTTTGTCCTGAAATCTCTTA TTCTCATGCATCCTTTTTTCTTACCTTTGATGCTTCTCAACATTAGTAATTAATACTAGA ACACAAGTACGTTACACTTCTAGGTTTATGTGTTTGCTTGTGCAAACTGTGTGAGACAGC AACTCAGAGGCAGGACTTTTGGGGTTCTGGTTATGTTATCAATCCTGTCCACAATTGGCA CAAGCAATGTTGCACAATGCTGAAGGTTTTATGGTGTGGGAAAAATTGCAATGTGCATTA GCCTTTTGGTATTCTCGTATTGTTTGTACTGAAGATTGTGACAAAAATTGGAAGCACAGG ATGCTTTTTATGTTAAATCTGTTTGTTGCGCACATATTGTTGGCATTGCTCTATTTGTAT GTACTAGGAGGGTAAGTAAAGGAGAATTGGAGTGGTACACAATATTAGCTCACCAGAGGA CACTGTGCCATGTCTGTGCTGCTTGGGTCACTAACATGCTGTCAGATGAATACTATTGCT GCACATGCATTACTTGAATACTTCCAAGTAACATCAGACCTACGCGCCATCTTAGTATAG TCACTGATGAGGTCTGTTTGCTTTAGGTGTGTATATGTCACAGAAGCTCGATGACTTCTT TTTTCTTACTTTATTCTGCAAAATACCATGGGTTTAGGTTTTTGTTTAATATCAGTACAC ATTATACACTTCGTAGTCCATGCTGAATAAGGAAGGCAGAAGTGTTCTTTCCCCTTTTTC CCAAGTAACCCGACAGGGTAGGTAAAAATGTTGGCACGGCATGTATTCATTAAACTATTA TGGTTTTGTTTCCTTGTATATCTCTGAATGTTGGGCCTCAGTGTTTTCTTCCTTCTTTAA AGTCGTATTTTGTAACTTCTGTAATGGATGTGCAGACAGTTTTGGCAGTCTGAACTGCTG ATCAAGATGCCAGCACTGAGAATGAAGAGGAAGTTTGATGATGACATTTTCGGGAGTGAG TTTGACATCAAATCCATGAAATCGGTGAAAATCTCGCCTTCCCAAGTTGATGAGTTCGAG CAGGCATTTGTGTTAAACTCGTCTTACAAGGACCCTCAGGATGAGCCTGAGCCGATAACT CAACTAGCTGTCCAGGATATTAGGGTTACAGAATTTTCCGGTTTGCATGCTGTACTTGGA GGAACATCCGTTGCTCTGCTGAAGATGATTGCTTTCAACTACTGTTCGGTACCTGGTCAA GTTAAATGTTCTTTTGATGTTAGCCTGCCTTGCATCCCAATTGATGATTTGCCTGACAAC AGTAAATGGATGTTAAGTTTCTTTTTGGTTTTCTTGTTAATATGCTCAGATGATTTCTTT CAGCAAGTTATCATTGTTGATTTCCAAATTCGATGACAAATGAAAAAGGGTGCAATTTCG AACTAGAACTTTTGATGATGGAATTTACCTGTTGCCTATTGTCATTTCACCTTCCACTTA AACTTGTTCAGATTAAATGATTAAATTCTTAAATGCCTCAAATATCTTGTGAAGGCTGTA GAATGTTGCCATTGTTTGATATTTGCTATTATGATCTGAACTTCGATGTAGCATGTTAAG GTTGGTAGTACTTTGCTTTGTTACTTTTTTTGGTCCATATCTCATGCTTAATTTCTTTCT GAAGTCCCAACACTATATATCAGCATCACCATTGTCAGTTTCATTGGAAGAACCTCTGCA ACCTAACATTATCATATTGATATATGCAGGATTTAATATCTGAAACTGTGGTTCCACCAA ATTTGGAACCTGATTCTTTATCTAATAATGATGATGGCAAATCTCAGTCAAATGTAGTGA ACACCGGTGATAAAGAGTTTGCAGATGAAGATGTAAATTCTGCAGCACAAGATATCTGTA CTGTCAATGATCATGAGAAAAGCCTGGGCTCAAACCCGGATTGCAGCCTGTTGGATATTT ATAATCCTGATGATGCTTTTCCTTTCTTATTTGATGTTCCAACTGGTCTCCTGGCTAGCT ACAGTACATTTTGTGATGAATTTGTACCCATCGATTCATTGACAGACATGAGTGGCATAT GCGGAGTATTTCCACTTAATGAGAGCACCGTGGAAGGTTGCATTGGCAATGAACCATGCC CATCACAAGGGGATATGTGCTTTAATAACTTTGGTGGGGAGTGCTTTAGCCATTCTGAGG TTTTAGAGTGGTTTAATCCATATATGGATGAGTCTGATGTACCTAATCTTATTGGTTATA CCGAGTTGAGCTCAGATGCTGCTTGTGTATCTAAAGAGCAAGGGGCCAGGAAGGTCACTC TTGTGCTTGATTTGGATGAAACCCTTGTTCATTCAACTCTGGAGCACTGTGATGATGCAG ATTTTTCTTTTCCAGTGTCCTTTGGTCTGAAAGAACATGTGGTATATGTGAGGAAGAGAC CACATTTGCATATGTTCCTCCAGAAGATGGCTGAGATGTTTGACGTTGTTATATTCACAG CCAGCCAAAGTGTTTATGCAGACCAGCTGCTTGACAGGCTTGATCCAGAGAACACATTGT TCTCGAAGCGTTTTTTCCGCGAGTCATGTGTATTTACGGAAAGTGGCTACACAAAAGATC TGACTGTTATTGGAGTTGACCTTGCAAAGGTTGCCATAATTGACAACACTCCGCAGGTTT TCCAGTTGCAAGTGAATAATGGTATACCCATAGAGAGCTGGTATAATGACCCCTTTGATG AGGGATTATCTCAGCTGATTCCATTCCTGGAGACACTTGCTGTTGCTGATGACGTCCGAC CCATAATTGCCAAGAGGTTTGGCAACTAAAAGGATAATGGCTGAGGTTTTCCAGCAGGTG TTAGGAAGAGTTTGTTGGTTACTCACATAGAGGGACAAGAACTTACATGACACATTGACC GAGCTAGTTGAGACTTGCCTTTTTCTTAATTTTATTTACATGGGTTTCATAGGATCAAGA ATTTTGGTGGCAGAGCTATTTCTCGTGAATTGTAAATATCCTCAAACACTGTTATAGAAT TTTGTACATAAAAACTGTTAGAAATGAAAGCGAAACTCTCTAAAATTTCTTCTTTGCCAC ATTGTCATTGTCTATGTTCAGCTGTCTACTATTCAGTGTTTTTTCTGTTTCATGATGTCA ACTACTCCCTCTGTCCTACAATGTAAAACGTTTTTGCAAGCTAACATATTTGCAAGTTAC ATTGTGGAACGGAGGGAGCAGAATTGATTTTGTAACACAACTGTCTGATATCTTCTGCTA AGATAAATTATCATGTTTGACTCTTGTCTATTCATACGTAAATTAGATACCTGGCACGTG GAGATTGTTCTGAATACTTATCTTTGTCTGATGTGGGGATCTAGGCTATCCAGCTACTAC AAAGGTGAAATTTCATGTAAAAGTCACGCCTGTCTGCCATATTGTTCGCCGCAGTTCCTC CAACACGCAGCAATGCAATTGTTAAAATGAGGCAAGAGTCTAGAGGTCTTAGTTGCCACT TGAAGCCATTCTGAACTTGACTCAGAGCCAGGAGCACCAACCATTATCTAGCGCCTGTGT CTAACAAAACAAGACCATTATTACTCCGATACATATTACTTGGCCGATACATATTACTTG TAGCTTAAATGGATGTATTTAGCACTGAAGTACGTCTAGATACACATGTTTTATCAATAA GTAATATGGCTCGTACGTCTAGATACACACGTTTCATCAATAAGTAACATGGCTCAGAG
Protein Sequence (361 aa)
>BART1_0-u21354.001 361 150831_barley_pseudomolecules MQDLISETVVPPNLEPDSLSNNDDGKSQSNVVNTGDKEFADEDVNSAAQDICTVNDHEKS LGSNPDCSLLDIYNPDDAFPFLFDVPTGLLASYSTFCDEFVPIDSLTDMSGICGVFPLNE STVEGCIGNEPCPSQGDMCFNNFGGECFSHSEVLEWFNPYMDESDVPNLIGYTELSSDAA CVSKEQGARKVTLVLDLDETLVHSTLEHCDDADFSFPVSFGLKEHVVYVRKRPHLHMFLQ KMAEMFDVVIFTASQSVYADQLLDRLDPENTLFSKRFFRESCVFTESGYTKDLTVIGVDL AKVAIIDNTPQVFQLQVNNGIPIESWYNDPFDEGLSQLIPFLETLAVADDVRPIIAKRFG N