- Transcript BART1_0-u24401.008
- Transcript IDBART1_0-u24401.008
- Gene IDBART1_0-u24401
Barley RTD
Exon Structure of BART1_0-u24401.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 659170955 | 659169805 | + |
| chr3H | 2 | 659171169 | 659171046 | + |
| chr3H | 3 | 659171437 | 659171284 | + |
| 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 | 659174473 | 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 | 0.201378 | 0.665203 | 0.000000451252 |
| morex | ETI | 0.599681 | 0.350648 | 0.358885 |
| morex | LEA | 0.358761 | 0.537521 | 0.218407 |
| morex | EPI | 0.836993 | 1.09719 | 0.474063 |
| morex | ROO | 0.293382 | 0.914152 | 0 |
| morex | ROO2 | 0.424951 | 0.335862 | 0.616226 |
| morex | NOD | 0.397953 | 2.21746 | 1.68285 |
| morex | RAC | 1.00578 | 0.701796 | 1.22982 |
| morex | INF1 | 0.835732 | 1.57926 | 0.925154 |
| morex | INF2 | 2.10185 | 1.15957 | 1.91683 |
| morex | CAR5 | 4.73655 | 3.22099 | 2.92044 |
| morex | CAR15 | 2.92738 | 3.6272 | 1.65362 |
| morex | LEM | 0.829277 | 0.795004 | 1.27497 |
| morex | LOD | 1.58307 | 1.18815 | 1.06268 |
| morex | PAL | 0.628214 | 0.969187 | 0.94764 |
| morex | SEN | 0.607635 | 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 | +3 | 2e-132 | 400 | 207/301 (69%) | protein|cullin-1, putative, expressed |
| TAIR PP10 | AT4G02570 @ ARAPORT AT4G02570.4 @ TAIR |
+3 | 1e-34 | 142 | 107/320 (33%) | Symbols: CUL1 | cullin 1 | chr4:1129315-1133435 FORWARD LENGTH=738 |
| BRACH PP3 | Bradi2g60057.3.p | +3 | 2e-156 | 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 (2855 bp)
>BART1_0-u24401.008 2855 150831_barley_pseudomolecules GCACCAAAGAACCAAACCCCTCGAAAAAGCTGAAACCCGTCCCCCAATCCGCCGTCGGCT GCCCTCCTCACCCCTACCGCGAACGGCAGGCGAGACGGCGGCGGCGGCGAGCACCGCCCG ATCCTCTCCCCCCTCGTCGGTAACCTCCTCCTCCCCCTCCCCTCCCCGCGTTCCTCCCGG TCGATTCCGCGCTCCCAAATCCGATCGATCCGTGCTCCGTTCCGAGCAGCCCGTTCGCTC CGCCGCGCGTCGGGAACCCGAATCCATCTGCCCGGTCCGTCCTCGAATGCGTCCGCCCCC GGAGGCCTGTTGCGAATCCCGTTGCTTGCTCGCCGTCGCTGCCTCGCTGAATGCCGCCGC TGCCGTAGGGTTTAGTTGTTGTTTTTTTCCCTTTAGCCGCCGCGAGAGACCGACGGGCTC ACCGAACCCTCGCCGCCGCGCGGCCTCTCCCCTTCTCAGGCCTCCTCCGTCCAAGCACGG GAGCGGTTCTCTCGTGTCGTGCGGTCGCCGTTCGTCCCCGCTGGCCCGCTCTACTGGACT GGTATGGAGTGGTGGAGTGGGGAGGGGAGATTCATCCATCTAGGTTTGAATTCTCCTTAG TGCCGACTAACCCTAACTGGCTTGAATTGTAAATAGGAATAACCTGGTATTTTCCTTGCT GCGAGCTGAGGATGGGGTATTTAACTGAGGCCAAATGCTTCCTTATTAGATCGATCCTGT TTGCGCCTTCTGGACGCGTGCCTTGTTAGGTTGAACCTGTTCGCGCCTTCTTGATGCGTG CTTGAGGGGAAAAAGGGGGTCGACCCTGTTCTCTCCTAGTATTGCTCTGTTAATACAAAT TAACAGCGAATGCTGATTTTTTGGTTAAATTCTCTTCTTTTTGAGATAATAAATATTTTG TTCTCGTATAATTGTATTAAGCCACACACGTGCATCTTATTTTGGATATAAATAGGCTTT CTATTGAAAACTGAGTATTGCTCAGTTGGTGGGGGCGCTCGAGCATCACCCCGCCAAACT GCCCACCAAGGTTTGACTCCCATTACCAGGATTTATTCGACGTGGTGCCTGGTGTCTTGG ACGTTCTTGTACAAACAATGCTGCCAAGTGCTAGTGCCTGGTTGGCCGAGTCTTCTTTTT TACAGATATAAAGGTTGCGGCCTGGTTTCCTAAATGGGTGCATGAAGGTTTCTGGAACAT TTGTGTACTTGTGAAATTAGGGCTATCGTTTGTAGGGTATTGTGGGCCTTTGTTGAGTTT GTGTATCCAACTAAGTTCACTGTAGGAGCAAAGCAGTAAAAATGAATGCGCACCTCAGCT TTGAGGATGGCTGGAAGGTCCTGGAACAGGGCATTTTGACATGCTCAAAGATTTTGGAGG GTTCCACTGGTACAAGGCCTACTGTTGCTGAGTACATGAATTGCTATGACTGTGCTTATA GAATGGCTGTGCAGACAACCAGCTATTGTGAAGAGATGTACAATGGTTACAGGACTACAC TTGCAGAATCTGTTCGTGCACTGGTTTTACCCCATCTGATGCACAAGAGAGATGACTACC TTTTGAGACAGCTTGAGAAAATGTGGTCGAACTATTGTATCATGGTTAAATGTATATCTG GCTTCTTCAACTATTTGGACCGTTGCTTTGTTGAGCAAAGAAAGCTACCTTGTCTTGAAG ACACTGCTGCCACTTCTTTTTTCTCGACAGTCTTTTCGTTCTTTAGCCATGAAGTATCAG AGGCTCTACTGACTTTGATTCGCCAAGAGCGTGATGGAAGCAATGTTGATATGGACATCT TGATGGTCATTATGCGTGGCATATGTCGCTCTGAAGTCAAATCCTTCATGAGAAATGCTG TTGTCCAAGATACATATGCTTACTACTCCAGGAAAAGTTCTGAATGGATAGTTCAGTACC CTCTACAAGATTACCTTGCCATGGTCCAGGATTGTATGGAGAAGGAAACCATGAGATTGA TGAGCTATCTGCATATTCCTGAGGGAGATAGCACAGAACTCTGTTTGAAGGTTGTTAGTG CTCCATTGATGCAAATGTATGACAGCTATGCAAGAGAGAAACAGATTGGTGGCCAACTTT TGCTTCAAACATACAAGACTGTGGAGGATGATCTGCTGGCCAGATGCAATCGCTTGACAA TTGACAGCGGCGTGGACAACAGTTCTGGCAGTTACATGGAGTAGAAAGGAAATGCACTTC AGCTAACATTCATCTATAACCAAGATTACATACAGGAAGGGGTTCTAGAACATGGCCTAC ATCTGGGGGAATTTTTTGTGCGGCTGCTCGGTTTTTGGTACCGTGGATTTTGTTGGCAAG GTTCGCCTAGATTAAACGCTGTACTGAATGCGAAGGGGATACCTCTTAAGTGCTGCCTCC TACCCCATTATGGTCAACAGCATCTGAAATGTACAGGATGGCTGGTCAATTTATGCCAAT GGCAGTTTATTTTGATCGTTGTCTAGCGAACATTAGGCCGGTCAGCACCTAGCACTCTTA GTGGCTGGACATGGAGTATGTGGTCATGACACCAGAATGATCGGTGCATTGCCTGTGTGC CTTTTGCTTGCGAGCTTCTGATGCTGTCTATGGTCTAAGCTTATCTATGACTTGATGTTA CTTTCCTGTGTTTGTGTGCTTGCCTAAATTGCTAAACTGTAGGTTGGATGTGTTTTCGCT TATTTCATGTCAAGTTTGCTGTTATGGTTGCAGTTCTTTCCTTGGTGGGCCATAATTGTT TGCAATTTTAGATTAGATTATAAACCCTGGTTCCATTATTAATGGGGCATGGATCTTATA CCTTGTTGGTCTGACTTTAAGCTATTCTTGCGGCA
Protein Sequence (300 aa)
>BART1_0-u24401.008 300 150831_barley_pseudomolecules MNAHLSFEDGWKVLEQGILTCSKILEGSTGTRPTVAEYMNCYDCAYRMAVQTTSYCEEMY NGYRTTLAESVRALVLPHLMHKRDDYLLRQLEKMWSNYCIMVKCISGFFNYLDRCFVEQR KLPCLEDTAATSFFSTVFSFFSHEVSEALLTLIRQERDGSNVDMDILMVIMRGICRSEVK SFMRNAVVQDTYAYYSRKSSEWIVQYPLQDYLAMVQDCMEKETMRLMSYLHIPEGDSTEL CLKVVSAPLMQMYDSYAREKQIGGQLLLQTYKTVEDDLLARCNRLTIDSGVDNSSGSYME