- Transcript BART1_0-u21354.018
- Transcript IDBART1_0-u21354.018
- Gene IDBART1_0-u21354
Barley RTD
Exon Structure of BART1_0-u21354.018
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 460557509 | 460557106 | - |
| chr3H | 2 | 460558032 | 460557695 | - |
| chr3H | 3 | 460559443 | 460558101 | - |
| chr3H | 4 | 460559814 | 460559714 | - |
| chr3H | 5 | 460560946 | 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 | 1.0887 | 7.37689 | 11.2703 |
| morex | ETI | 3.91277 | 3.30748 | 2.17246 |
| morex | LEA | 3.68901 | 7.64756 | 5.87937 |
| morex | EPI | 5.65407 | 8.80033 | 8.65465 |
| morex | ROO | 1.97242 | 2.54802 | 2.83292 |
| morex | ROO2 | 6.57383 | 4.96414 | 4.26852 |
| morex | NOD | 9.48235 | 5.82305 | 5.9971 |
| morex | RAC | 4.38846 | 4.76137 | 4.35155 |
| morex | INF1 | 11.3065 | 7.19572 | 9.54894 |
| morex | INF2 | 11.3949 | 8.79025 | 10.3593 |
| morex | CAR5 | 9.72407 | 12.7309 | 9.17801 |
| morex | CAR15 | 5.243 | 3.62868 | 4.5589 |
| morex | LEM | 5.21235 | 6.45106 | 4.7758 |
| morex | LOD | 4.6203 | 4.89521 | 3.67596 |
| morex | PAL | 3.89484 | 4.36948 | 4.05314 |
| morex | SEN | 3.15994 | 4.88757 | 4.47352 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g47540.1 | +1 | 5e-153 | 457 | 239/324 (74%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G46410 @ ARAPORT AT5G46410.1 @ TAIR |
+1 | 8e-68 | 233 | 106/159 (67%) | Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=453 |
| BRACH PP3 | Bradi2g45880.1.p | +1 | 1e-178 | 523 | 265/327 (81%) | 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 (2654 bp)
>BART1_0-u21354.018 2654 150831_barley_pseudomolecules TTCTTTTTTCTTACTTTATTCTGCAAAATACCATGGGTTTAGGTTTTTGTTTAATATCAG TACACATTATACACTTCGTAGTCCATGCTGAATAAGGAAGGCAGAAGTGTTCTTTCCCCT TTTTCCCAAGTAACCCGACAGGGTAGGTAAAAATGTTGGCACGGCATGTATTCATTAAAC TATTATGGTTTTGTTTCCTTGTATATCTCTGAATGTTGGGCCTCAGTGTTTTCTTCCTTC TTTAAAGTCGTATTTTGTAACTTCTGTAATGGATGTGCAGACAGTTTTGGCAGTCTGAAC TGCTGATCAAGATGCCAGCACTGAGAATGAAGAGGAAGTTTGATGATGACATTTTCGGGA GTGAGTTTGACATCAAATCCATGAAATCGGTGAAAATCTCGCCTTCCCAAGTTGATGAGT TCGAGCAGGCATTTGTGTTAAACTCGTCTTACAAGGACCCTCAGGATGAGCCTGAGCCGA TAACTCAACTAGCTGTCCAGGATATTAGGGTTACAGAATTTTCCGGTTTGCATGCTGTAC TTGGAGGAACATCCGTTGCTCTGCTGAAGATGATTGCTTTCAACTACTGTTCGGTACCTG GTCAAGTTAAATGTTCTTTTGATGTTAGCCTGCCTTGCATCCCAATTGATGATTTGCCTG ACAACAGTAAATGGATGTTAAGTTTCTTTTTGGTTTTCTTGTTAATATGCTCAGATGATT TCTTTCAGCAAGTTATCATTGTTGATTTCCAAATTCGATGACAAATGAAAAAGGGTGCAA TTTCGAACTAGAACTTTTGATGATGGAATTTACCTGTTGCCTATTGTCATTTCACCTTCC ACTTAAACTTGTTCAGATTAAATGATTAAATTCTTAAATGCCTCAAATATCTTGTGAAGG CTGTAGAATGTTGCCATTGTTTGATATTTGCTATTATGATCTGAACTTCGATGTAGCATG TTAAGGTTGGTAGTACTTTGCTTTGTTACTTTTTTTGGTCCATATCTCATGCTTAATTTC TTTCTGAAGTCCCAACACTATATATCAGCATCACCATTGTCAGTTTCATTGGAAGAACCT CTGCAACCTAACATTATCATATTGATATATGCAGGATTTAATATCTGAAACTGTGGTTCC ACCAAATTTGGAACCTGATTCTTTATCTAATAATGATGATGGCAAATCTCAGTCAAATGT AGTGAACACCGGTGATAAAGGTAAGGAGTACCCCTTACCCCTCGAGCAGTTTTTGTAACT AATGTGGCTAGTTTAGGTGATAAGTTTTTGTTCACGGCCAATGTCTATTTGTCTGCACGT ATAAAAATACACAGCCGCCAAATGCAATGTTTTAGAGAACACATTTGATATGCTCACAAG CAAGGTTTAACCTTTGCATGTGTATATTCACTTACAATTTGCATTGCAGAGTTTGCAGAT GAAGATGTAAATTCTGCAGCACAAGATATCTGTACTGTCAATGATCATGAGAAAAGCCTG GGCTCAAACCCGGATTGCAGCCTGTTGGATATTTATAATCCTGATGATGCTTTTCCTTTC TTATTTGATGTTCCAACTGGTCTCCTGGCTAGCTACAGTACATTTTGTGATGAATTTGTA CCCATCGATTCATTGACAGACATGAGTGGCATATGCGGAGTATTTCCACTTAATGAGAGC ACCGTGGAAGGTTGCATTGGCAATGAACCATGCCCATCACAAGGGGATATGTGCTTTAAT AACTTTGGTGGGGAGTGCTTTAGCCATTCTGAGGTTTTAGAGTGGTTTAATCCATATATG GATGAGTCTGATGTACCTAATCTTATTGGTTATACCGAGTTGAGCTCAGATGCTGCTTGT GTATCTAAAGAGCAAGGGGCCAGGAAGGTCACTCTTGTGCTTGATTTGGATGAAACCCTT GTTCATTCAACTCTGGAGCACTGTGATGATGCAGATTTTTCTTTTCCAGTGTCCTTTGGT CTGAAAGAACATGTGGTATATGTGAGGAAGAGACCACATTTGCATATGTTCCTCCAGAAG ATGGCTGAGATGTTTGACGTTGTTATATTCACAGCCAGCCAAAGTGTTTATGCAGACCAG CTGCTTGACAGGCTTGATCCAGAGAACACATTGTTCTCGAAGCGTTTTTTCCGCGAGTCA TGTGTATTTACGGAAAGTGGCTACACAAAAGATCTGACTGTTATTGGAGTTGACCTTGCA AAGGTTGCCATAATTGACAACACTCCGCAGGTTTTCCAGTTGCAAGTGAATAATGGTATA CCCATAGAGAGCTGGTATAATGACCCCTTTGATGAGGGATTATCTCAGCTGATTCCATTC CTGGAGACACTTGCTGTTGCTGATGACGTCCGACCCATAATTGCCAAGAGGTTTGGCAAC TAAAAGGATAATGGCTGAGGTTTTCCAGCAGGTGTTAGGAAGAGTTTGTTGGTTACTCAC ATAGAGGGACAAGAACTTACATGACACATTGACCGAGCTAGTTGAGACTTGCCTTTTTCT TAATTTTATTTACATGGGTTTCATAGGATCAAGAATTTTGGTGGCAGAGCTATTTCTCGT GAATTGTAAATATCCTCAAACACTGTTATAGAATTTTGTACATAAAAACTGTTAGAAATG AAAGCGAAACTCTC
Protein Sequence (253 aa)
>BART1_0-u21354.018 253 150831_barley_pseudomolecules MSGICGVFPLNESTVEGCIGNEPCPSQGDMCFNNFGGECFSHSEVLEWFNPYMDESDVPN LIGYTELSSDAACVSKEQGARKVTLVLDLDETLVHSTLEHCDDADFSFPVSFGLKEHVVY VRKRPHLHMFLQKMAEMFDVVIFTASQSVYADQLLDRLDPENTLFSKRFFRESCVFTESG YTKDLTVIGVDLAKVAIIDNTPQVFQLQVNNGIPIESWYNDPFDEGLSQLIPFLETLAVA DDVRPIIAKRFGN