- Transcript BART1_0-u21354.017
- Transcript IDBART1_0-u21354.017
- Gene IDBART1_0-u21354
Barley RTD
Exon Structure of BART1_0-u21354.017
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 460557509 | 460557090 | - |
| chr3H | 2 | 460558032 | 460557695 | - |
| chr3H | 3 | 460558574 | 460558101 | - |
| chr3H | 4 | 460558898 | 460558793 | - |
| chr3H | 5 | 460559814 | 460559714 | - |
| chr3H | 6 | 460560666 | 460560479 | - |
| chr3H | 7 | 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 | 4.99498 | 12.4534 | 11.0497 |
| morex | ETI | 12.4003 | 19.4499 | 16.0924 |
| morex | LEA | 11.1057 | 12.8523 | 12.9355 |
| morex | EPI | 12.2954 | 23.307 | 18.058 |
| morex | ROO | 5.86806 | 10.5987 | 5.74054 |
| morex | ROO2 | 13.9369 | 18.1776 | 16.7324 |
| morex | NOD | 19.2647 | 11.1202 | 23.0922 |
| morex | RAC | 14.1293 | 12.9049 | 13.7667 |
| morex | INF1 | 14.1001 | 13.6709 | 13.4716 |
| morex | INF2 | 9.73961 | 12.517 | 15.5225 |
| morex | CAR5 | 10.7736 | 13.1156 | 9.09349 |
| morex | CAR15 | 3.7831 | 5.56505 | 5.82758 |
| morex | LEM | 18.2155 | 19.6076 | 13.8603 |
| morex | LOD | 25.6646 | 23.8838 | 18.3967 |
| morex | PAL | 14.8263 | 13.3601 | 15.9332 |
| morex | SEN | 15.3284 | 9.09803 | 12.3514 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g47540.1 | +3 | 0.0 | 584 | 312/445 (70%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G46410 @ ARAPORT AT5G46410.1 @ TAIR |
+3 | 4e-70 | 233 | 106/159 (67%) | Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=453 |
| BRACH PP3 | Bradi2g45880.1.p | +3 | 0.0 | 648 | 338/449 (75%) | 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 (1811 bp)
>BART1_0-u21354.017 1811 150831_barley_pseudomolecules CATAATTCTCCTCTCCCCTCTTGTGATTCCGGTGCGTCTTCCCCTCCTCTCTGCCTGCCT GCGCGCACCGGTCTCCCCCCCCCCCCCTCCCTCTCTTCCTCCGTCCGCCTCCGCCTCCGG GAGAGGCCGAGAGAGAGGGAGAGAGGGAGGACGCGCCGGAGCTACCCGCGCCAGCATCGC CTCGACAGTTTTGGCAGTCTGAACTGCTGATCAAGATGCCAGCACTGAGAATGAAGAGGA AGTTTGATGATGACATTTTCGGGAGTGAGTTTGACATCAAATCCATGAAATCGGTGAAAA TCTCGCCTTCCCAAGTTGATGAGTTCGAGCAGGCATTTGTGTTAAACTCGTCTTACAAGG ACCCTCAGGATGAGCCTGAGCCGATAACTCAACTAGCTGTCCAGGATATTAGGGTTACAG AATTTTCCGGTTTGCATGCTGTACTTGGAGGAACATCCGTTGCTCTGCTGAAGGATTTAA TATCTGAAACTGTGGTTCCACCAAATTTGGAACCTGATTCTTTATCTAATAATGATGATG GCAAATCTCAGTCAAATGTAGTGAACACCGGTGATAAAGATGAAGATGTAAATTCTGCAG CACAAGATATCTGTACTGTCAATGATCATGAGAAAAGCCTGGGCTCAAACCCGGATTGCA GCCTGTTGGATATTTATAATCCTGATGATGCTTTTCCTTTCTTATTTGATGTTCCAACTG GTCTCCTGGCTAGCTACAGTACATTTTGTGATGAATTTGTACCCATCGATTCATTGACAG ACATGAGTGGCATATGCGGAGTATTTCCACTTAATGAGAGCACCGTGGAAGGTTGCATTG GCAATGAACCATGCCCATCACAAGGGGATATGTGCTTTAATAACTTTGGTGGGGAGTGCT TTAGCCATTCTGAGGTTTTAGAGTGGTTTAATCCATATATGGATGAGTCTGATGTACCTA ATCTTATTGGTTATACCGAGTTGAGCTCAGATGCTGCTTGTGTATCTAAAGAGCAAGGGG CCAGGAAGGTCACTCTTGTGCTTGATTTGGATGAAACCCTTGTTCATTCAACTCTGGAGC ACTGTGATGATGCAGATTTTTCTTTTCCAGTGTCCTTTGGTCTGAAAGAACATGTGGTAT ATGTGAGGAAGAGACCACATTTGCATATGTTCCTCCAGAAGATGGCTGAGATGTTTGACG TTGTTATATTCACAGCCAGCCAAAGTGTTTATGCAGACCAGCTGCTTGACAGGCTTGATC CAGAGAACACATTGTTCTCGAAGCGTTTTTTCCGCGAGTCATGTGTATTTACGGAAAGTG GCTACACAAAAGATCTGACTGTTATTGGAGTTGACCTTGCAAAGGTTGCCATAATTGACA ACACTCCGCAGGTTTTCCAGTTGCAAGTGAATAATGGTATACCCATAGAGAGCTGGTATA ATGACCCCTTTGATGAGGGATTATCTCAGCTGATTCCATTCCTGGAGACACTTGCTGTTG CTGATGACGTCCGACCCATAATTGCCAAGAGGTTTGGCAACTAAAAGGATAATGGCTGAG GTTTTCCAGCAGGTGTTAGGAAGAGTTTGTTGGTTACTCACATAGAGGGACAAGAACTTA CATGACACATTGACCGAGCTAGTTGAGACTTGCCTTTTTCTTAATTTTATTTACATGGGT TTCATAGGATCAAGAATTTTGGTGGCAGAGCTATTTCTCGTGAATTGTAAATATCCTCAA ACACTGTTATAGAATTTTGTACATAAAAACTGTTAGAAATGAAAGCGAAACTCTCTAAAA TTTCTTCTTTG
Protein Sequence (442 aa)
>BART1_0-u21354.017 442 150831_barley_pseudomolecules MPALRMKRKFDDDIFGSEFDIKSMKSVKISPSQVDEFEQAFVLNSSYKDPQDEPEPITQL AVQDIRVTEFSGLHAVLGGTSVALLKDLISETVVPPNLEPDSLSNNDDGKSQSNVVNTGD KDEDVNSAAQDICTVNDHEKSLGSNPDCSLLDIYNPDDAFPFLFDVPTGLLASYSTFCDE FVPIDSLTDMSGICGVFPLNESTVEGCIGNEPCPSQGDMCFNNFGGECFSHSEVLEWFNP YMDESDVPNLIGYTELSSDAACVSKEQGARKVTLVLDLDETLVHSTLEHCDDADFSFPVS FGLKEHVVYVRKRPHLHMFLQKMAEMFDVVIFTASQSVYADQLLDRLDPENTLFSKRFFR ESCVFTESGYTKDLTVIGVDLAKVAIIDNTPQVFQLQVNNGIPIESWYNDPFDEGLSQLI PFLETLAVADDVRPIIAKRFGN