- Transcript BART1_0-u21354.016
- Transcript IDBART1_0-u21354.016
- Gene IDBART1_0-u21354
Barley RTD
Exon Structure of BART1_0-u21354.016
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 460557509 | 460557082 | - |
| chr3H | 2 | 460558032 | 460557695 | - |
| chr3H | 3 | 460558583 | 460558101 | - |
| chr3H | 4 | 460558898 | 460558793 | - |
| chr3H | 5 | 460559814 | 460559714 | - |
| chr3H | 6 | 460560662 | 460560479 | - |
| chr3H | 7 | 460561746 | 460561660 | - |
| chr3H | 8 | 460562685 | 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 | 8.68815 | 9.12772 | 14.4936 |
| morex | ETI | 20.7676 | 24.2182 | 26.9285 |
| morex | LEA | 12.137 | 20.0847 | 22.1955 |
| morex | EPI | 19.3174 | 25.5246 | 24.022 |
| morex | ROO | 10.2952 | 14.6005 | 4.12688 |
| morex | ROO2 | 26.8753 | 30.696 | 35.0513 |
| morex | NOD | 26.892 | 27.281 | 37.6368 |
| morex | RAC | 20.1723 | 22.9056 | 21.8215 |
| morex | INF1 | 14.947 | 19.203 | 23.8301 |
| morex | INF2 | 9.8924 | 11.6442 | 12.5262 |
| morex | CAR5 | 7.08297 | 10.3243 | 11.6392 |
| morex | CAR15 | 4.23913 | 7.22602 | 8.54864 |
| morex | LEM | 31.3975 | 28.1729 | 26.3951 |
| morex | LOD | 36.1786 | 37.3438 | 30.9479 |
| morex | PAL | 19.7945 | 21.9517 | 20.8717 |
| morex | SEN | 20.0888 | 26.1355 | 20.0888 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g47540.1 | +2 | 0.0 | 578 | 312/448 (70%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G46410 @ ARAPORT AT5G46410.1 @ TAIR |
+2 | 6e-70 | 234 | 106/159 (67%) | Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=453 |
| BRACH PP3 | Bradi2g45880.1.p | +2 | 0.0 | 657 | 340/449 (76%) | 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 (1911 bp)
>BART1_0-u21354.016 1911 150831_barley_pseudomolecules CATAATTCTCCTCTCCCCTCTTGTGATTCCGGTGCGTCTTCCCCTCCTCTCTGCCTGCCT GCGCGCACCGGTCTCCCCCCCCCCCCCTCCCTCTCTTCCTCCGTCCGCCTCCGCCTCCGG GAGAGGCCGAGAGAGAGGGAGAGAGGGAGGACGCGCCGGAGCTACCCGCGCCAGCATCGC CTCGATCCGTGTTGTACTCCTTGACCGACTATGGCTTTTATCAATTCAAAGTCAGATTCA TTCCAAGCCTTCCGTCTAAAACATAACTTAGTTTTGGCAGTCTGAACTGCTGATCAAGAT GCCAGCACTGAGAATGAAGAGGAAGTTTGATGATGACATTTTCGGGAGTGAGTTTGACAT CAAATCCATGAAATCGGTGAAAATCTCGCCTTCCCAAGTTGATGAGTTCGAGCAGGCATT TGTGTTAAACTCGTCTTACAAGGACCCTCAGGATGAGCCTGAGCCGATAACTCAACTAGC TGTCCAGGATATTAGGGTTACAGAATTTTCCGGTTTGCATGCTGTACTTGGAGGAACATC CGTTGCTCTGCTGAAGGATTTAATATCTGAAACTGTGGTTCCACCAAATTTGGAACCTGA TTCTTTATCTAATAATGATGATGGCAAATCTCAGTCAAATGTAGTGAACACCGGTGATAA AGAGTTTGCAGATGAAGATGTAAATTCTGCAGCACAAGATATCTGTACTGTCAATGATCA TGAGAAAAGCCTGGGCTCAAACCCGGATTGCAGCCTGTTGGATATTTATAATCCTGATGA TGCTTTTCCTTTCTTATTTGATGTTCCAACTGGTCTCCTGGCTAGCTACAGTACATTTTG TGATGAATTTGTACCCATCGATTCATTGACAGACATGAGTGGCATATGCGGAGTATTTCC ACTTAATGAGAGCACCGTGGAAGGTTGCATTGGCAATGAACCATGCCCATCACAAGGGGA TATGTGCTTTAATAACTTTGGTGGGGAGTGCTTTAGCCATTCTGAGGTTTTAGAGTGGTT TAATCCATATATGGATGAGTCTGATGTACCTAATCTTATTGGTTATACCGAGTTGAGCTC AGATGCTGCTTGTGTATCTAAAGAGCAAGGGGCCAGGAAGGTCACTCTTGTGCTTGATTT GGATGAAACCCTTGTTCATTCAACTCTGGAGCACTGTGATGATGCAGATTTTTCTTTTCC AGTGTCCTTTGGTCTGAAAGAACATGTGGTATATGTGAGGAAGAGACCACATTTGCATAT GTTCCTCCAGAAGATGGCTGAGATGTTTGACGTTGTTATATTCACAGCCAGCCAAAGTGT TTATGCAGACCAGCTGCTTGACAGGCTTGATCCAGAGAACACATTGTTCTCGAAGCGTTT TTTCCGCGAGTCATGTGTATTTACGGAAAGTGGCTACACAAAAGATCTGACTGTTATTGG AGTTGACCTTGCAAAGGTTGCCATAATTGACAACACTCCGCAGGTTTTCCAGTTGCAAGT GAATAATGGTATACCCATAGAGAGCTGGTATAATGACCCCTTTGATGAGGGATTATCTCA GCTGATTCCATTCCTGGAGACACTTGCTGTTGCTGATGACGTCCGACCCATAATTGCCAA GAGGTTTGGCAACTAAAAGGATAATGGCTGAGGTTTTCCAGCAGGTGTTAGGAAGAGTTT GTTGGTTACTCACATAGAGGGACAAGAACTTACATGACACATTGACCGAGCTAGTTGAGA CTTGCCTTTTTCTTAATTTTATTTACATGGGTTTCATAGGATCAAGAATTTTGGTGGCAG AGCTATTTCTCGTGAATTGTAAATATCCTCAAACACTGTTATAGAATTTTGTACATAAAA ACTGTTAGAAATGAAAGCGAAACTCTCTAAAATTTCTTCTTTGCCACATTG
Protein Sequence (445 aa)
>BART1_0-u21354.016 445 150831_barley_pseudomolecules MPALRMKRKFDDDIFGSEFDIKSMKSVKISPSQVDEFEQAFVLNSSYKDPQDEPEPITQL AVQDIRVTEFSGLHAVLGGTSVALLKDLISETVVPPNLEPDSLSNNDDGKSQSNVVNTGD KEFADEDVNSAAQDICTVNDHEKSLGSNPDCSLLDIYNPDDAFPFLFDVPTGLLASYSTF CDEFVPIDSLTDMSGICGVFPLNESTVEGCIGNEPCPSQGDMCFNNFGGECFSHSEVLEW FNPYMDESDVPNLIGYTELSSDAACVSKEQGARKVTLVLDLDETLVHSTLEHCDDADFSF PVSFGLKEHVVYVRKRPHLHMFLQKMAEMFDVVIFTASQSVYADQLLDRLDPENTLFSKR FFRESCVFTESGYTKDLTVIGVDLAKVAIIDNTPQVFQLQVNNGIPIESWYNDPFDEGLS QLIPFLETLAVADDVRPIIAKRFGN