- Transcript BART1_0-u24401.009
- Transcript IDBART1_0-u24401.009
- Gene IDBART1_0-u24401
Barley RTD
Exon Structure of BART1_0-u24401.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 659169943 | 659169810 | + |
| chr3H | 2 | 659171437 | 659171284 | + |
| chr3H | 3 | 659171629 | 659171548 | + |
| chr3H | 4 | 659172666 | 659172481 | + |
| chr3H | 5 | 659172823 | 659172776 | + |
| chr3H | 6 | 659173083 | 659172898 | + |
| chr3H | 7 | 659173257 | 659173171 | + |
| chr3H | 8 | 659173653 | 659173567 | + |
| chr3H | 9 | 659174321 | 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 | 6.47473 | 3.45099 | 4.45717 |
| morex | ETI | 3.32367 | 1.94772 | 3.16318 |
| morex | LEA | 6.0141 | 2.91634 | 2.3257 |
| morex | EPI | 3.62946 | 2.22731 | 1.71604 |
| morex | ROO | 1.31168 | 3.84457 | 2.13079 |
| morex | ROO2 | 5.21786 | 0.44585 | 2.83844 |
| morex | NOD | 11.5992 | 2.31482 | 12.2087 |
| morex | RAC | 0.56077 | 2.48175 | 2.64255 |
| morex | INF1 | 13.6305 | 17.5138 | 18.3074 |
| morex | INF2 | 15.6126 | 14.5075 | 14.074 |
| morex | CAR5 | 3.15557 | 4.15835 | 5.10852 |
| morex | CAR15 | 1.87285 | 1.66388 | 0.484416 |
| morex | LEM | 3.59727 | 2.76415 | 2.29221 |
| morex | LOD | 3.72821 | 4.565 | 3.0277 |
| morex | PAL | 1.43101 | 4.29201 | 1.43683 |
| morex | SEN | 3.58533 | 0 | 0.672048 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g70920.2 | +2 | 3e-131 | 384 | 202/301 (67%) | protein|cullin-1, putative, expressed |
| TAIR PP10 | AT4G02570 @ ARAPORT AT4G02570.4 @ TAIR |
+2 | 6e-34 | 136 | 105/319 (33%) | Symbols: CUL1 | cullin 1 | chr4:1129315-1133435 FORWARD LENGTH=738 |
| BRACH PP3 | Bradi2g60057.3.p | +2 | 3e-155 | 445 | 231/304 (76%) | 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 (1550 bp)
>BART1_0-u24401.009 1550 150831_barley_pseudomolecules AAAGAACCAAACCCCTCGAAAAAGCTGAAACCCGTCCCCCAATCCGCCGTCGGCTGCCCT CCTCACCCCTACCGCGAACGGCAGGCGAGACGGCGGCGGCGGCGAGCACCGCCCGATCCT CTCCCCCCTCGTCGTTCACTGTAGGAGCAAAGCAGTAAAAATGAATGCGCACCTCAGCTT TGAGGATGGCTGGAAGGTCCTGGAACAGGGCATTTTGACATGCTCAAAGATTTTGGAGGG TTCCACTGGTACAAGGCCTACTGTTGCTGAGTACATGAATTGCTATGAAATGGCTGTGCA GACAACCAGCTATTGTGAAGAGATGTACAATGGTTACAGGACTACACTTGCAGAATCTGT TCGTGCACTGGTTTTACCCCATCTGATGCACAAGAGAGATGACTACCTTTTGAGACAGCT TGAGAAAATGTGGTCGAACTATTGTATCATGGTTAAATGTATATCTGGCTTCTTCAACTA TTTGGACCGTTGCTTTGTTGAGCAAAGAAAGCTACCTTGTCTTGAAGACACTGCTGCCAC TTCTTTTTTCTCGACAGTCTTTTCGTTCTTTAGCCATGAAGTATCAGAGGCTCTACTGAC TTTGATTCGCCAAGAGCGTGATGGAAGCAATGTTGATATGGACATCTTGATGGTCATTAT GCGTGGCATATGTCGCTCTGAAGTCAAATCCTTCATGAGAAATGCTGTTGTCCAAGATAC ATATGCTTACTACTCCAGGAAAAGTTCTGAATGGATAGTTCAGTACCCTCTACAAGATTA CCTTGCCATGGTCCAGGATTGTATGGAGAAGGAAACCATGAGATTGATGAGCTATCTGCA TATTCCTGAGGGAGATAGCACAGAACTCTGTTTGAAGGTTGTTAGTGCTCCATTGATGCA AATGTATGACAGCTATGCAAGAGAGAAACAGATTGGTGGCCAACTTTTGCTTCAAACATA CAAGACTGTGGAGGATGATCTGCTGGCCAGATGCAATCGCTTGACAATTGACAGCGGCGT GGACAACAGTTCTGGCAGTTACATGGAGTAGAAAGGAAATGCACTTCAGCTAACATTCAT CTATAACCAAGATTACATACAGGAAGGGGTTCTAGAACATGGCCTACATCTGGGGGAATT TTTTGTGCGGCTGCTCGGTTTTTGGTACCGTGGATTTTGTTGGCAAGGTTCGCCTAGATT AAACGCTGTACTGAATGCGAAGGGGATACCTCTTAAGTGCTGCCTCCTACCCCATTATGG TCAACAGCATCTGAAATGTACAGGATGGCTGGTCAATTTATGCCAATGGCAGTTTATTTT GATCGTTGTCTAGCGAACATTAGGCCGGTCAGCACCTAGCACTCTTAGTGGCTGGACATG GAGTATGTGGTCATGACACCAGAATGATCGGTGCATTGCCTGTGTGCCTTTTGCTTGCGA GCTTCTGATGCTGTCTATGGTCTAAGCTTATCTATGACTTGATGTTACTTTCCTGTGTTT GTGTGCTTGCCTAAATTGCTAAACTGTAGGTTGGATGTGTTTTCGCTTAT
Protein Sequence (296 aa)
>BART1_0-u24401.009 296 150831_barley_pseudomolecules MNAHLSFEDGWKVLEQGILTCSKILEGSTGTRPTVAEYMNCYEMAVQTTSYCEEMYNGYR TTLAESVRALVLPHLMHKRDDYLLRQLEKMWSNYCIMVKCISGFFNYLDRCFVEQRKLPC LEDTAATSFFSTVFSFFSHEVSEALLTLIRQERDGSNVDMDILMVIMRGICRSEVKSFMR NAVVQDTYAYYSRKSSEWIVQYPLQDYLAMVQDCMEKETMRLMSYLHIPEGDSTELCLKV VSAPLMQMYDSYAREKQIGGQLLLQTYKTVEDDLLARCNRLTIDSGVDNSSGSYME