- Transcript BART1_0-u21354.008
- Transcript IDBART1_0-u21354.008
- Gene IDBART1_0-u21354
Barley RTD
Exon Structure of BART1_0-u21354.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 460556581 | 460556365 | - |
| chr3H | 2 | 460557509 | 460556681 | - |
| chr3H | 3 | 460558032 | 460557695 | - |
| chr3H | 4 | 460558898 | 460558101 | - |
| chr3H | 5 | 460559814 | 460559714 | - |
| chr3H | 6 | 460560662 | 460560479 | - |
| chr3H | 7 | 460562657 | 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 | 0.329654 | 0.00134131 | 0 |
| morex | ETI | 0.473883 | 1.45952 | 1.18029 |
| morex | LEA | 0 | 0 | 1.498 |
| morex | EPI | 1.77632 | 2.09347 | 0.669806 |
| morex | ROO | 0.553227 | 0.904872 | 0.887583 |
| morex | ROO2 | 1.41979 | 1.56664 | 2.8921 |
| morex | NOD | 1.25196 | 0.79459 | 3.45759 |
| morex | RAC | 0 | 0.693883 | 0 |
| morex | INF1 | 0.791254 | 0.995345 | 0 |
| morex | INF2 | 0.85219 | 1.35837 | 2.00797 |
| morex | CAR5 | 0.93008 | 1.16474 | 0.829571 |
| morex | CAR15 | 0.450266 | 0.223212 | 1.11597 |
| morex | LEM | 1.65674 | 0.793886 | 1.48974 |
| morex | LOD | 0.672312 | 1.31285 | 0.439744 |
| morex | PAL | 0.91401 | 1.93105 | 1.66497 |
| morex | SEN | 2.85196 | 0.985081 | 0.00927535 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g47540.1 | +3 | 3e-153 | 457 | 239/324 (74%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G46410 @ ARAPORT AT5G46410.1 @ TAIR |
+3 | 7e-68 | 233 | 106/159 (67%) | Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=453 |
| BRACH PP3 | Bradi2g45880.1.p | +3 | 8e-179 | 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 (2623 bp)
>BART1_0-u21354.008 2623 150831_barley_pseudomolecules CCGGTGCGTCTTCCCCTCCTCTCTGCCTGCCTGCGCGCACCGGTCTCCCCCCCCCCCCCT CCCTCTCTTCCTCCGTCCGCCTCCGCCTCCGGGAGAGGCCGAGAGAGAGGGAGAGAGGGA GGACGCGCCGGAGCTACCCGCGCCAGCATCGCCTCGTTTTGGCAGTCTGAACTGCTGATC AAGATGCCAGCACTGAGAATGAAGAGGAAGTTTGATGATGACATTTTCGGGAGTGAGTTT GACATCAAATCCATGAAATCGGTGAAAATCTCGCCTTCCCAAGTTGATGAGTTCGAGCAG GCATTTGTGTTAAACTCGTCTTACAAGGACCCTCAGGATGAGCCTGAGCCGATAACTCAA CTAGCTGTCCAGGATATTAGGGTTACAGAATTTTCCGGTTTGCATGCTGTACTTGGAGGA ACATCCGTTGCTCTGCTGAAGGATTTAATATCTGAAACTGTGGTTCCACCAAATTTGGAA CCTGATTCTTTATCTAATAATGATGATGGCAAATCTCAGTCAAATGTAGTGAACACCGGT GATAAAGGTAAGGAGTACCCCTTACCCCTCGAGCAGTTTTTGTAACTAATGTGGCTAGTT TAGGTGATAAGTTTTTGTTCACGGCCAATGTCTATTTGTCTGCACGTATAAAAATACACA GCCGCCAAATGCAATGTTTTAGAGAACACATTTGATATGCTCACAAGCAAGGTTTAACCT TTGCATGTGTATATTCACTTACAATTTGCATTGCAGAGTTTGCAGATGAAGATGTAAATT CTGCAGCACAAGATATCTGTACTGTCAATGATCATGAGAAAAGCCTGGGCTCAAACCCGG ATTGCAGCCTGTTGGATATTTATAATCCTGATGATGCTTTTCCTTTCTTATTTGATGTTC CAACTGGTCTCCTGGCTAGCTACAGTACATTTTGTGATGAATTTGTACCCATCGATTCAT TGACAGACATGAGTGGCATATGCGGAGTATTTCCACTTAATGAGAGCACCGTGGAAGGTT GCATTGGCAATGAACCATGCCCATCACAAGGGGATATGTGCTTTAATAACTTTGGTGGGG AGTGCTTTAGCCATTCTGAGGTTTTAGAGTGGTTTAATCCATATATGGATGAGTCTGATG TACCTAATCTTATTGGTTATACCGAGTTGAGCTCAGATGCTGCTTGTGTATCTAAAGAGC AAGGGGCCAGGAAGGTCACTCTTGTGCTTGATTTGGATGAAACCCTTGTTCATTCAACTC TGGAGCACTGTGATGATGCAGATTTTTCTTTTCCAGTGTCCTTTGGTCTGAAAGAACATG TGGTATATGTGAGGAAGAGACCACATTTGCATATGTTCCTCCAGAAGATGGCTGAGATGT TTGACGTTGTTATATTCACAGCCAGCCAAAGTGTTTATGCAGACCAGCTGCTTGACAGGC TTGATCCAGAGAACACATTGTTCTCGAAGCGTTTTTTCCGCGAGTCATGTGTATTTACGG AAAGTGGCTACACAAAAGATCTGACTGTTATTGGAGTTGACCTTGCAAAGGTTGCCATAA TTGACAACACTCCGCAGGTTTTCCAGTTGCAAGTGAATAATGGTATACCCATAGAGAGCT GGTATAATGACCCCTTTGATGAGGGATTATCTCAGCTGATTCCATTCCTGGAGACACTTG CTGTTGCTGATGACGTCCGACCCATAATTGCCAAGAGGTTTGGCAACTAAAAGGATAATG GCTGAGGTTTTCCAGCAGGTGTTAGGAAGAGTTTGTTGGTTACTCACATAGAGGGACAAG AACTTACATGACACATTGACCGAGCTAGTTGAGACTTGCCTTTTTCTTAATTTTATTTAC ATGGGTTTCATAGGATCAAGAATTTTGGTGGCAGAGCTATTTCTCGTGAATTGTAAATAT CCTCAAACACTGTTATAGAATTTTGTACATAAAAACTGTTAGAAATGAAAGCGAAACTCT CTAAAATTTCTTCTTTGCCACATTGTCATTGTCTATGTTCAGCTGTCTACTATTCAGTGT TTTTTCTGTTTCATGATGTCAACTACTCCCTCTGTCCTACAATGTAAAACGTTTTTGCAA GCTAACATATTTGCAAGTTACATTGTGGAACGGAGGGAGCAGAATTGATTTTGTAACACA ACTGTCTGATATCTTCTGCTAAGATAAATTATCATGTTTGACTCTTGTCTATTCATACGT AAATTAGATACCTGGCACGTGGAGATTGTTCTGAATACTTATCTTTGTCTGATGTGGGGA TCTAGGCTATCCAGCTACTACAAAGGTGAAATTTCATGTAAAAGTCACGCCTGTCTGCCA TATTGTTCGCCGCAGTTCCTCCAACACGCAGCAATGCAATTGTTAAAATGAGGCAAGAGT CTAGAGGTCTTAGTTGCCACTTGAAGCCATTCTGAACTTGACTCAGAGCCAGGAGCACCA ACCATTATCTAGCGCCTGTGTCTAACAAAACAAGACCATTATTACTCCGATACATATTAC TTGGCCGATACATATTACTTGTAGCTTAAATGGATGTATTTAGCACTGAAGTACGTCTAG ATACACATGTTTTATCAATAAGTAATATGGCTCGTACGTCTAG
Protein Sequence (253 aa)
>BART1_0-u21354.008 253 150831_barley_pseudomolecules MSGICGVFPLNESTVEGCIGNEPCPSQGDMCFNNFGGECFSHSEVLEWFNPYMDESDVPN LIGYTELSSDAACVSKEQGARKVTLVLDLDETLVHSTLEHCDDADFSFPVSFGLKEHVVY VRKRPHLHMFLQKMAEMFDVVIFTASQSVYADQLLDRLDPENTLFSKRFFRESCVFTESG YTKDLTVIGVDLAKVAIIDNTPQVFQLQVNNGIPIESWYNDPFDEGLSQLIPFLETLAVA DDVRPIIAKRFGN