- Transcript BART1_0-u25331.006
- Transcript IDBART1_0-u25331.006
- Gene IDBART1_0-u25331
Barley RTD
Exon Structure of BART1_0-u25331.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 679779870 | 679779767 | + |
| chr3H | 2 | 679780077 | 679780006 | + |
| chr3H | 3 | 679780262 | 679780159 | + |
| chr3H | 4 | 679780772 | 679780595 | + |
| chr3H | 5 | 679781035 | 679780884 | + |
| chr3H | 6 | 679782367 | 679781761 | + |
| chr3H | 7 | 679783932 | 679783777 | + |
| chr3H | 8 | 679784080 | 679784000 | + |
| chr3H | 9 | 679784610 | 679784187 | + |
| chr3H | 10 | 679786251 | 679785100 | + |
| chr3H | 11 | 679786764 | 679786475 | + |
| chr3H | 12 | 679788582 | 679787992 | + |
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 | 0 |
| morex | ETI | 0.00333884 | 0.45442 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0.748253 | 0.491235 | 0 |
| morex | ROO2 | 0.000000000513275 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 1.20689 | 0.541099 | 2.0549 |
| morex | INF1 | 0.27575 | 0.436266 | 1.94331 |
| morex | INF2 | 0.838553 | 0.737741 | 1.10549 |
| morex | CAR5 | 0.157459 | 0 | 0.865839 |
| morex | CAR15 | 0.205046 | 0.543837 | 0.244601 |
| morex | LEM | 1.29226 | 0 | 0.427211 |
| morex | LOD | 0 | 0.877857 | 0.715534 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0.467 | 0.0322414 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g68810.1 | +3 | 0.0 | 837 | 443/587 (75%) | protein|expressed protein |
| TAIR PP10 | AT1G24706 @ ARAPORT AT1G24706.2 @ TAIR |
+3 | 0.0 | 674 | 352/569 (62%) | Symbols: THO2 | THO2 | chr1:8742210-8755250 FORWARD LENGTH=1823 |
| BRACH PP3 | Bradi2g58697.4.p | +3 | 0.0 | 964 | 485/527 (92%) | pacid=32780758 transcript=Bradi2g58697.4 locus=Bradi2g58697 ID=Bradi2g58697.4.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 (3911 bp)
>BART1_0-u25331.006 3911 150831_barley_pseudomolecules TTAACAGCTGCAAGAAGCATCTTTCCATGGAGCTTAAATGCCTTTTCCAATACATAGTTA ATCAACTGAAGAAAGGATTGGGCACTGAGCTTGTTGTACTTGAGGTTGATGCTATGGCAG GAAGTGAAACATTGCGGCTTCAATCTTCGCTGTTTGGATCAACACGGAACTATAAGGTCC TGAATAAGTCTACTAACAAATTGCGGGATTCTTTGCTTCCAAAAGATGAACCTAAACTGG CAATTCCTCTACTACTGCTCGTTGCCCAGCACAGATCCAAGATTATAATAAATGCAGATG CCACATATATCAAAATGGTTAGCGAGCAGTTTGATAGATGCCATGGAATACTACTTCAGT ATGCCGAGTTTCTTTCAAGTGCTGTAACTTCATCAACCTATGTTCAGCTAGTACCTCCGC TGGAAGATCTCGTTTATAAATATCATATCGAGCCAGATATTGCTTTTCTTATATACCGCC CTGTAATGAGGCTTTTCAAAAGCGCTAATGGTGGCGAGGCCTGTTGGCCTCTGGATGACA ATGAAGAAGGGGAGTCTGTATCATGTGATGAAATGATCTTGCATGGTGATTCATCTCAGA AGTTAATCATGTGGTCAGATCTTCTCAACACAATCCGAACAATTTTGCCAGCAAAAGCCT GGAACGGCCTTTCACCCGAATTGTATGCTACTTTCTGGGGTTTAACACTGTATGATCTTC ATTTTCCAAAAGATCGTTATGATGCAGAAATCAAGAAGCTGCATGAAAATCTCAAACAAC TTGAAGATAACTCAGATAACTCTAGCATTGCAATATCAAGACGTAAGAAGGATAAGGAGA GAATCCAAGATTTGCTGGACAAATTGAACAATGAATCTGACAAGCATCAGCACCATGTTC TATCAGTGCTCCAAAGGCTAACCCGTGAAAAGGATAAATGGCTGAGTTCCAGTCCGGACG CACTGAAGATCAACATGGAATTTCTCCAGCGTTGCATATATCCACGCTGTGTTCTTAGCA TGCAGGATGCTGTATATTGTGCTACATTCGTCCAGATGATGCATTCACTTGGGACTCCAT TTTTCAACACGGTGAATCATATAGATGTTTTCATCTGCAAGACACTACAGCCAATGATCT GTTGTTGTACAGAATATGAGGCTGGCAGGCTGGGAAGGTTTCTTCATGAGACCCTGAAGA TGGCCTACCATTGGAAGGTTCATTGGAAATGGAGTGGAAGAATTACCAAGGTGCTTAATC AATGTATGGAGTCAAAGGAATACATGGAAATCAGAAACGCCCTTATTGTGCTCACAAAGA TAACTAGTATTTTTCCTGTGATGCGAAAAAGCGGTATCAACATCGAGAAAAGGGTTGCGA AGCTAAAGGGGGATGAGAGGGAAGATCTGAAAGTACTGGCCACTGGTGTAGCTGCTGCTC TGGCCGCTCGCAAGAGTTCATGGGTGTCTGAAGAAGAGTTTGGCATGGGTCACCTTGATC TGAAGCCAGTGCTTGCAAAACCTATTGCTGGTAAGTAGAAGACAACAGTTTTTTTCTTTT CTGAAACCACTATGGTTAACTGGAGCATAACTATTCCTTGTATCTCCTACAGGAAATCAG TATGCAGATCCCTCGACAGCAAAAGATCATAGCGTTCGTGCAAAATCTGTAGAGGGTAGG CATGAAAGGTCAGAAAATGCAATGAAGCCTGATGCTCAACATAAGAAGAATGCCTCAACT ACAAACGGGTCTGATAGTCAAATACCATCTTCCTCTGCACAAGGAAAAGGTTCAGGGATT GCACGCGGTGCAGATGAACCTCCAAAACTTTTGTCCGATGATGGAGTTAAAGTCTTGAAG CCTACTGCAGAACCCGAGACAAGAGCGTCACAAAAGCGTGCTGTACACAATGCTGCAAAG GTATCTAAGCATGATGTGGTGAAGGAAGATGCAAAACCTGGGAGATCTACTAGCAGGGGT CTTAATCAACAAGCCTCTGCTATTCCTGTTGACAAAGAAGTATTGTCTCAGGCAGCTGAT GGTGTGCTGGATACTAATCCCACTAGTCCGTTGGTTGGCACAAATGGTAATGTACATCCG GCACCACGAAAGGTATCAGCATCCTCCCAAAGATCAACAGTATTGGCTGCACATAGCGGT GGAACAGCTAATCCCACCGGTGAAGGTGAATCTGCTGACTTGATTGATTCTACCGTGAAA CAGCAAAAAAGATCTGTCGCCGTTGAAGAACAAGAGAGGACAGGTAAACGAAGGAAAGGA GAGATTGAAGGCCGGGATGGTGACTTGGCAGAACACCATACGGACAAAGAAAAAAAATTG GACCCGCGATCAGTAGATAAATTTCGTTCTGTGGATCATGAGAGAGGTGCTAGTGAGGAA CAAAACCTAATTCGGACAGAGAAATTAAAAGAAAAGTTCGATGAGAAATATGAAAGAGAT CATAGAGAAAAAGCAGATCGGTCTGAGAGGCGCCGTGGAGAAGACGTGGTTGAGAGACCA ACAGACAGATCATTGGAAAGGAGAGAGCGTTCTATTGAAAAGATGCAAGAGAGAGTTCCT GAAAAAGGAAGAGAAGACAGGAATAAGGAGGAGAGGAACAAAATTAAGCATGAACCCATA GACCGAGCACATACTATTAAGAATGAACCCATAGACCGAGCACATACTATTAAGCATGAA CCCATAGACCGAGCACATACTATTAAGCATGAACCCATAGACCGAGCACATACTTCTGAC GAACGCTTCCGAGGGCAAAGCTTGCCACCACCTCCACCTCTTCCAACTAGTTTTGTACCC CAATCAGTCGCTGCTAACCGAAGAGATGAAGACATTGACCGAAGGGGGAGCAGCACCAGG CATACACAGCGGTTGTCTCCCAGGCGTGATGAGAAAGAAAGGTGGCACTTGGAGGAGAAT GCTCCGCTGTTGCAGGATGATGGGAAGCACAGGAGAGAGGAAGATCTCCGGGATAGAAAG CGTGAAGATAGGGATGTTTCATCAAGCAAGGTAGACGACAGGGATAGGGACAAAGGTAAT ACTGTGAAGGAAGATAGTGATCCTAATAGTGCATCCAAACGTCGAAAGATTAAAAGAGAA CAGTCTGCTTTGGAGGCTGGGGAATACGCGCCTTCTGCTCCACAGCCTCCGAGCGTTGGA CCTGGTAACTCACAGTATGAAATACGAGAGAGAGAAAGAAAGGGTGCTATTTCACAGCAT CGTCCATCACATGCTGATGACCTTCCTAGGATGCATGCCAAGGATTCAACAAGCAAGACA AGTCGTAGAGAGGCTGACCAAACGCATGATAGAGAATGGGAAGAGGAGAAGAGGCCAAGA ACTGAAGCAAAGAGGAAGCATCGGAAGTAGGTTCATGCGGGTGTCTTGATCATTCTCACA TATCAAGGTGTTTCACTTGGCGATGTGCACCTGCGAACAAGTCGCTTTCTTGTAGGAGGA AAATGTATCTGGCATATTTGAACCATTCAGTGTGTATGCCTCACTCCATGGTTTTAGAAA GGTTTGCTGGGGCTGAAGAGGATCCACATGATCAATCCTTCAGCAGTACTCCGTCAATGC TATCCAGATGCAAATTATTGCAAACATTGTTGATTGCAAGGAACATATGGCCTGTTATAC AGGTCGTTATAAACATTTTAGCAATGTGGAATGTAAGGAAGAGTACATGGGCCATACCAT TAACTTAGACGGATTTGCTGTAAACAAGGATGAGCAGTTTTTCGCCCAGCTATTTTTTGT ATTTTATTTTGTACTAAATGCAGACAGTTTTGTTGTGGGAGGCATTTGTGCTTCCTTTTT CTGCACCGTCTAGGAGGAATAGCAGGGTGGCGGGTTGTGAGTAGGTTGTACATGTACAGT TACAATGGTCG
Protein Sequence (562 aa)
>BART1_0-u25331.006 562 150831_barley_pseudomolecules MKPDAQHKKNASTTNGSDSQIPSSSAQGKGSGIARGADEPPKLLSDDGVKVLKPTAEPET RASQKRAVHNAAKVSKHDVVKEDAKPGRSTSRGLNQQASAIPVDKEVLSQAADGVLDTNP TSPLVGTNGNVHPAPRKVSASSQRSTVLAAHSGGTANPTGEGESADLIDSTVKQQKRSVA VEEQERTGKRRKGEIEGRDGDLAEHHTDKEKKLDPRSVDKFRSVDHERGASEEQNLIRTE KLKEKFDEKYERDHREKADRSERRRGEDVVERPTDRSLERRERSIEKMQERVPEKGREDR NKEERNKIKHEPIDRAHTIKNEPIDRAHTIKHEPIDRAHTIKHEPIDRAHTSDERFRGQS LPPPPPLPTSFVPQSVAANRRDEDIDRRGSSTRHTQRLSPRRDEKERWHLEENAPLLQDD GKHRREEDLRDRKREDRDVSSSKVDDRDRDKGNTVKEDSDPNSASKRRKIKREQSALEAG EYAPSAPQPPSVGPGNSQYEIRERERKGAISQHRPSHADDLPRMHAKDSTSKTSRREADQ THDREWEEEKRPRTEAKRKHRK