- Transcript BART1_0-u21354.010
- Transcript IDBART1_0-u21354.010
- Gene IDBART1_0-u21354
Barley RTD
Exon Structure of BART1_0-u21354.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 460557509 | 460556793 | - |
| chr3H | 2 | 460558032 | 460557695 | - |
| chr3H | 3 | 460558373 | 460558101 | - |
| chr3H | 4 | 460558898 | 460558793 | - |
| chr3H | 5 | 460559814 | 460559714 | - |
| chr3H | 6 | 460560662 | 460560479 | - |
| chr3H | 7 | 460562650 | 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 | 0 | 0 | 0 |
| morex | LEA | 0 | 0.252921 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0.0804207 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 1.31739 | 0 | 0.00911485 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0.377862 |
| morex | LEM | 0 | 0.505676 | 0 |
| morex | LOD | 1.2342 | 0 | 0 |
| morex | PAL | 0 | 0.0285317 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g47540.1 | +3 | 2e-148 | 437 | 261/439 (59%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G46410 @ ARAPORT AT5G46410.1 @ TAIR |
+3 | 1e-70 | 235 | 106/159 (67%) | Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=453 |
| BRACH PP3 | Bradi2g45880.1.p | +3 | 1e-144 | 427 | 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 (1868 bp)
>BART1_0-u21354.010 1868 150831_barley_pseudomolecules GTCTTCCCCTCCTCTCTGCCTGCCTGCGCGCACCGGTCTCCCCCCCCCCCCCTCCCTCTC TTCCTCCGTCCGCCTCCGCCTCCGGGAGAGGCCGAGAGAGAGGGAGAGAGGGAGGACGCG CCGGAGCTACCCGCGCCAGCATCGCCTCGTTTTGGCAGTCTGAACTGCTGATCAAGATGC CAGCACTGAGAATGAAGAGGAAGTTTGATGATGACATTTTCGGGAGTGAGTTTGACATCA AATCCATGAAATCGGTGAAAATCTCGCCTTCCCAAGTTGATGAGTTCGAGCAGGCATTTG TGTTAAACTCGTCTTACAAGGACCCTCAGGATGAGCCTGAGCCGATAACTCAACTAGCTG TCCAGGATATTAGGGTTACAGAATTTTCCGGTTTGCATGCTGTACTTGGAGGAACATCCG TTGCTCTGCTGAAGGATTTAATATCTGAAACTGTGGTTCCACCAAATTTGGAACCTGATT CTTTATCTAATAATGATGATGGCAAATCTCAGTCAAATGTAGTGAACACCGGTGATAAAG ACATGAGTGGCATATGCGGAGTATTTCCACTTAATGAGAGCACCGTGGAAGGTTGCATTG GCAATGAACCATGCCCATCACAAGGGGATATGTGCTTTAATAACTTTGGTGGGGAGTGCT TTAGCCATTCTGAGGTTTTAGAGTGGTTTAATCCATATATGGATGAGTCTGATGTACCTA ATCTTATTGGTTATACCGAGTTGAGCTCAGATGCTGCTTGTGTATCTAAAGAGCAAGGGG CCAGGAAGGTCACTCTTGTGCTTGATTTGGATGAAACCCTTGTTCATTCAACTCTGGAGC ACTGTGATGATGCAGATTTTTCTTTTCCAGTGTCCTTTGGTCTGAAAGAACATGTGGTAT ATGTGAGGAAGAGACCACATTTGCATATGTTCCTCCAGAAGATGGCTGAGATGTTTGACG TTGTTATATTCACAGCCAGCCAAAGTGTTTATGCAGACCAGCTGCTTGACAGGCTTGATC CAGAGAACACATTGTTCTCGAAGCGTTTTTTCCGCGAGTCATGTGTATTTACGGAAAGTG GCTACACAAAAGATCTGACTGTTATTGGAGTTGACCTTGCAAAGGTTGCCATAATTGACA ACACTCCGCAGGTTTTCCAGTTGCAAGTGAATAATGGTATACCCATAGAGAGCTGGTATA ATGACCCCTTTGATGAGGGATTATCTCAGCTGATTCCATTCCTGGAGACACTTGCTGTTG CTGATGACGTCCGACCCATAATTGCCAAGAGGTTTGGCAACTAAAAGGATAATGGCTGAG GTTTTCCAGCAGGTGTTAGGAAGAGTTTGTTGGTTACTCACATAGAGGGACAAGAACTTA CATGACACATTGACCGAGCTAGTTGAGACTTGCCTTTTTCTTAATTTTATTTACATGGGT TTCATAGGATCAAGAATTTTGGTGGCAGAGCTATTTCTCGTGAATTGTAAATATCCTCAA ACACTGTTATAGAATTTTGTACATAAAAACTGTTAGAAATGAAAGCGAAACTCTCTAAAA TTTCTTCTTTGCCACATTGTCATTGTCTATGTTCAGCTGTCTACTATTCAGTGTTTTTTC TGTTTCATGATGTCAACTACTCCCTCTGTCCTACAATGTAAAACGTTTTTGCAAGCTAAC ATATTTGCAAGTTACATTGTGGAACGGAGGGAGCAGAATTGATTTTGTAACACAACTGTC TGATATCTTCTGCTAAGATAAATTATCATGTTTGACTCTTGTCTATTCATACGTAAATTA GATACCTGGCACGTGGAGATTGTTCTGAATACTTATCTTTGTCTGATGTGGGGATCTAGG CTATCCAG
Protein Sequence (433 aa)
>BART1_0-u21354.010 433 150831_barley_pseudomolecules LPLLSACLRAPVSPPPPPSLPPSASASGRGRERGREGGRAGATRASIASFWQSELLIKMP ALRMKRKFDDDIFGSEFDIKSMKSVKISPSQVDEFEQAFVLNSSYKDPQDEPEPITQLAV QDIRVTEFSGLHAVLGGTSVALLKDLISETVVPPNLEPDSLSNNDDGKSQSNVVNTGDKD MSGICGVFPLNESTVEGCIGNEPCPSQGDMCFNNFGGECFSHSEVLEWFNPYMDESDVPN LIGYTELSSDAACVSKEQGARKVTLVLDLDETLVHSTLEHCDDADFSFPVSFGLKEHVVY VRKRPHLHMFLQKMAEMFDVVIFTASQSVYADQLLDRLDPENTLFSKRFFRESCVFTESG YTKDLTVIGVDLAKVAIIDNTPQVFQLQVNNGIPIESWYNDPFDEGLSQLIPFLETLAVA DDVRPIIAKRFGN