- Transcript BART1_0-u24401.005
- Transcript IDBART1_0-u24401.005
- Gene IDBART1_0-u24401
Barley RTD
Exon Structure of BART1_0-u24401.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 659169939 | 659169716 | + |
| chr3H | 2 | 659171437 | 659171284 | + |
| chr3H | 3 | 659171629 | 659171536 | + |
| chr3H | 4 | 659172666 | 659172481 | + |
| chr3H | 5 | 659172823 | 659172776 | + |
| chr3H | 6 | 659173083 | 659172898 | + |
| chr3H | 7 | 659173257 | 659173171 | + |
| chr3H | 8 | 659173653 | 659173567 | + |
| chr3H | 9 | 659174661 | 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 | 0 | 0.432719 | 0 |
| morex | ETI | 0.235566 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.385813 | 0.331467 | 0 |
| morex | RAC | 0.268623 | 0 | 0 |
| morex | INF1 | 0.382077 | 0.832666 | 0.433474 |
| morex | INF2 | 0.753463 | 0.492415 | 1.17327 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0.531987 |
| morex | LEM | 0 | 0 | 0.189661 |
| morex | LOD | 0.276266 | 0.181179 | 0 |
| morex | PAL | 0 | 0 | 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_Os01g70920.2 | +2 | 7e-136 | 401 | 207/301 (69%) | protein|cullin-1, putative, expressed |
| TAIR PP10 | AT4G02570 @ ARAPORT AT4G02570.4 @ TAIR |
+2 | 2e-35 | 142 | 105/319 (33%) | Symbols: CUL1 | cullin 1 | chr4:1129315-1133435 FORWARD LENGTH=738 |
| BRACH PP3 | Bradi2g60057.3.p | +2 | 9e-160 | 462 | 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 (1992 bp)
>BART1_0-u24401.005 1992 150831_barley_pseudomolecules ATGGAATTCTGTATTTTTGCCCATCAACAACTTAACTTTTCTTGATAAGAAAACAACTTA ACTTTTCACAGATGTTATTAAGTGGGAGCGCACCAAAGAACCAAACCCCTCGAAAAAGCT GAAACCCGTCCCCCAATCCGCCGTCGGCTGCCCTCCTCACCCCTACCGCGAACGGCAGGC GAGACGGCGGCGGCGGCGAGCACCGCCCGATCCTCTCCCCCCTCTTCACTGTAGGAGCAA AGCAGTAAAAATGAATGCGCACCTCAGCTTTGAGGATGGCTGGAAGGTCCTGGAACAGGG CATTTTGACATGCTCAAAGATTTTGGAGGGTTCCACTGGTACAAGGCCTACTGTTGCTGA GTACATGAATTGCTATGACTGTGCTTATAGAATGGCTGTGCAGACAACCAGCTATTGTGA AGAGATGTACAATGGTTACAGGACTACACTTGCAGAATCTGTTCGTGCACTGGTTTTACC CCATCTGATGCACAAGAGAGATGACTACCTTTTGAGACAGCTTGAGAAAATGTGGTCGAA CTATTGTATCATGGTTAAATGTATATCTGGCTTCTTCAACTATTTGGACCGTTGCTTTGT TGAGCAAAGAAAGCTACCTTGTCTTGAAGACACTGCTGCCACTTCTTTTTTCTCGACAGT CTTTTCGTTCTTTAGCCATGAAGTATCAGAGGCTCTACTGACTTTGATTCGCCAAGAGCG TGATGGAAGCAATGTTGATATGGACATCTTGATGGTCATTATGCGTGGCATATGTCGCTC TGAAGTCAAATCCTTCATGAGAAATGCTGTTGTCCAAGATACATATGCTTACTACTCCAG GAAAAGTTCTGAATGGATAGTTCAGTACCCTCTACAAGATTACCTTGCCATGGTCCAGGA TTGTATGGAGAAGGAAACCATGAGATTGATGAGCTATCTGCATATTCCTGAGGGAGATAG CACAGAACTCTGTTTGAAGGTTGTTAGTGCTCCATTGATGCAAATGTATGACAGCTATGC AAGAGAGAAACAGATTGGTGGCCAACTTTTGCTTCAAACATACAAGACTGTGGAGGATGA TCTGCTGGCCAGATGCAATCGCTTGACAATTGACAGCGGCGTGGACAACAGTTCTGGCAG TTACATGGAGTAGAAAGGAAATGCACTTCAGCTAACATTCATCTATAACCAAGATTACAT ACAGGAAGGGGTTCTAGAACATGGCCTACATCTGGGGGAATTTTTTGTGCGGCTGCTCGG TTTTTGGTACCGTGGATTTTGTTGGCAAGGTTCGCCTAGATTAAACGCTGTACTGAATGC GAAGGGGATACCTCTTAAGTGCTGCCTCCTACCCCATTATGGTCAACAGCATCTGAAATG TACAGGATGGCTGGTCAATTTATGCCAATGGCAGTTTATTTTGATCGTTGTCTAGCGAAC ATTAGGCCGGTCAGCACCTAGCACTCTTAGTGGCTGGACATGGAGTATGTGGTCATGACA CCAGAATGATCGGTGCATTGCCTGTGTGCCTTTTGCTTGCGAGCTTCTGATGCTGTCTAT GGTCTAAGCTTATCTATGACTTGATGTTACTTTCCTGTGTTTGTGTGCTTGCCTAAATTG CTAAACTGTAGGTTGGATGTGTTTTCGCTTATTTCATGTCAAGTTTGCTGTTATGGTTGC AGTTCTTTCCTTGGTGGGCCATAATTGTTTGCAATTTTAGATTAGATTATAAACCCTGGT TCCATTATTAATGGGGCATGGATCTTATACCTTGTTGGTCTGACTTTAAGCTATTCTTGC GGCATATCCATTTTCTTGAATTAATAAAGTGCTCTTTGTTGGTCTTGCTTGCCGTTGCTC ACAGCCTGGTGCTCGACCGTATTGTACCTGCCGTCCGTGAGCACCTCAGTTGAGGAGGTA GGCGGCAAGGGCGTGCGGCACTGGGCACCACCCAAGCGCTGTCCTTGAGCACCTGCAGAC CCGTGCGGCCAC
Protein Sequence (300 aa)
>BART1_0-u24401.005 300 150831_barley_pseudomolecules MNAHLSFEDGWKVLEQGILTCSKILEGSTGTRPTVAEYMNCYDCAYRMAVQTTSYCEEMY NGYRTTLAESVRALVLPHLMHKRDDYLLRQLEKMWSNYCIMVKCISGFFNYLDRCFVEQR KLPCLEDTAATSFFSTVFSFFSHEVSEALLTLIRQERDGSNVDMDILMVIMRGICRSEVK SFMRNAVVQDTYAYYSRKSSEWIVQYPLQDYLAMVQDCMEKETMRLMSYLHIPEGDSTEL CLKVVSAPLMQMYDSYAREKQIGGQLLLQTYKTVEDDLLARCNRLTIDSGVDNSSGSYME