- Transcript BART1_0-u24401.010
- Transcript IDBART1_0-u24401.010
- Gene IDBART1_0-u24401
Barley RTD
Exon Structure of BART1_0-u24401.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 659169943 | 659169810 | + |
| chr3H | 2 | 659171169 | 659171046 | + |
| chr3H | 3 | 659171437 | 659171266 | + |
| chr3H | 4 | 659171629 | 659171536 | + |
| chr3H | 5 | 659172666 | 659172481 | + |
| chr3H | 6 | 659172823 | 659172776 | + |
| chr3H | 7 | 659173083 | 659172898 | + |
| chr3H | 8 | 659173257 | 659173171 | + |
| chr3H | 9 | 659173653 | 659173567 | + |
| chr3H | 10 | 659174368 | 659173736 | + |
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 | 5.44289 | 8.87181 | 6.25892 |
| morex | ETI | 7.55204 | 3.34062 | 14.3093 |
| morex | LEA | 4.44763 | 5.6596 | 3.62468 |
| morex | EPI | 4.78472 | 9.31565 | 5.07487 |
| morex | ROO | 7.1997 | 6.39355 | 0 |
| morex | ROO2 | 2.58629 | 3.96535 | 9.20542 |
| morex | NOD | 13.0414 | 7.9918 | 26.0489 |
| morex | RAC | 0.00111954 | 9.40553 | 7.22606 |
| morex | INF1 | 6.62838 | 17.517 | 18.4097 |
| morex | INF2 | 20.5291 | 11.0717 | 25.6132 |
| morex | CAR5 | 8.10288 | 10.7584 | 12.1776 |
| morex | CAR15 | 6.08474 | 3.66354 | 1.45449 |
| morex | LEM | 2.2239 | 3.89341 | 5.9693 |
| morex | LOD | 3.36694 | 9.19161 | 1.49862 |
| morex | PAL | 5.45016 | 7.73037 | 4.26237 |
| morex | SEN | 9.70665 | 10.5429 | 7.35792 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g70920.2 | +3 | 7e-137 | 400 | 207/301 (69%) | protein|cullin-1, putative, expressed |
| TAIR PP10 | AT4G02570 @ ARAPORT AT4G02570.4 @ TAIR |
+3 | 1e-35 | 142 | 107/320 (33%) | Symbols: CUL1 | cullin 1 | chr4:1129315-1133435 FORWARD LENGTH=738 |
| BRACH PP3 | Bradi2g60057.3.p | +3 | 3e-161 | 463 | 236/304 (78%) | pacid=32775524 transcript=Bradi2g60057.3 locus=Bradi2g60057 ID=Bradi2g60057.3.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 (1751 bp)
>BART1_0-u24401.010 1751 150831_barley_pseudomolecules AAAGAACCAAACCCCTCGAAAAAGCTGAAACCCGTCCCCCAATCCGCCGTCGGCTGCCCT CCTCACCCCTACCGCGAACGGCAGGCGAGACGGCGGCGGCGGCGAGCACCGCCCGATCCT CTCCCCCCTCGTCGAGGTTGCGGCCTGGTTTCCTAAATGGGTGCATGAAGGTTTCTGGAA CATTTGTGTACTTGTGAAATTAGGGCTATCGTTTGTAGGGTATTGTGGGCCTTTGTTGAG TTTGTGTATCCAACTAAGATATTTCCATTGCTTCAGTTCACTGTAGGAGCAAAGCAGTAA AAATGAATGCGCACCTCAGCTTTGAGGATGGCTGGAAGGTCCTGGAACAGGGCATTTTGA CATGCTCAAAGATTTTGGAGGGTTCCACTGGTACAAGGCCTACTGTTGCTGAGTACATGA ATTGCTATGACTGTGCTTATAGAATGGCTGTGCAGACAACCAGCTATTGTGAAGAGATGT ACAATGGTTACAGGACTACACTTGCAGAATCTGTTCGTGCACTGGTTTTACCCCATCTGA TGCACAAGAGAGATGACTACCTTTTGAGACAGCTTGAGAAAATGTGGTCGAACTATTGTA TCATGGTTAAATGTATATCTGGCTTCTTCAACTATTTGGACCGTTGCTTTGTTGAGCAAA GAAAGCTACCTTGTCTTGAAGACACTGCTGCCACTTCTTTTTTCTCGACAGTCTTTTCGT TCTTTAGCCATGAAGTATCAGAGGCTCTACTGACTTTGATTCGCCAAGAGCGTGATGGAA GCAATGTTGATATGGACATCTTGATGGTCATTATGCGTGGCATATGTCGCTCTGAAGTCA AATCCTTCATGAGAAATGCTGTTGTCCAAGATACATATGCTTACTACTCCAGGAAAAGTT CTGAATGGATAGTTCAGTACCCTCTACAAGATTACCTTGCCATGGTCCAGGATTGTATGG AGAAGGAAACCATGAGATTGATGAGCTATCTGCATATTCCTGAGGGAGATAGCACAGAAC TCTGTTTGAAGGTTGTTAGTGCTCCATTGATGCAAATGTATGACAGCTATGCAAGAGAGA AACAGATTGGTGGCCAACTTTTGCTTCAAACATACAAGACTGTGGAGGATGATCTGCTGG CCAGATGCAATCGCTTGACAATTGACAGCGGCGTGGACAACAGTTCTGGCAGTTACATGG AGTAGAAAGGAAATGCACTTCAGCTAACATTCATCTATAACCAAGATTACATACAGGAAG GGGTTCTAGAACATGGCCTACATCTGGGGGAATTTTTTGTGCGGCTGCTCGGTTTTTGGT ACCGTGGATTTTGTTGGCAAGGTTCGCCTAGATTAAACGCTGTACTGAATGCGAAGGGGA TACCTCTTAAGTGCTGCCTCCTACCCCATTATGGTCAACAGCATCTGAAATGTACAGGAT GGCTGGTCAATTTATGCCAATGGCAGTTTATTTTGATCGTTGTCTAGCGAACATTAGGCC GGTCAGCACCTAGCACTCTTAGTGGCTGGACATGGAGTATGTGGTCATGACACCAGAATG ATCGGTGCATTGCCTGTGTGCCTTTTGCTTGCGAGCTTCTGATGCTGTCTATGGTCTAAG CTTATCTATGACTTGATGTTACTTTCCTGTGTTTGTGTGCTTGCCTAAATTGCTAAACTG TAGGTTGGATGTGTTTTCGCTTATTTCATGTCAAGTTTGCTGTTATGGTTGCAGTTCTTT CCTTGGTGGGC
Protein Sequence (300 aa)
>BART1_0-u24401.010 300 150831_barley_pseudomolecules MNAHLSFEDGWKVLEQGILTCSKILEGSTGTRPTVAEYMNCYDCAYRMAVQTTSYCEEMY NGYRTTLAESVRALVLPHLMHKRDDYLLRQLEKMWSNYCIMVKCISGFFNYLDRCFVEQR KLPCLEDTAATSFFSTVFSFFSHEVSEALLTLIRQERDGSNVDMDILMVIMRGICRSEVK SFMRNAVVQDTYAYYSRKSSEWIVQYPLQDYLAMVQDCMEKETMRLMSYLHIPEGDSTEL CLKVVSAPLMQMYDSYAREKQIGGQLLLQTYKTVEDDLLARCNRLTIDSGVDNSSGSYME