- Transcript BART1_0-u29730.002
- Transcript IDBART1_0-u29730.002
- Gene IDBART1_0-u29730
Barley RTD
Exon Structure of BART1_0-u29730.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 481895387 | 481893784 | + |
| chr4H | 2 | 481896397 | 481895677 | + |
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 | 9.57071 | 7.47646 | 10.5017 |
| morex | ETI | 5.82277 | 5.81198 | 9.87285 |
| morex | LEA | 4.40697 | 0.998888 | 2.63963 |
| morex | EPI | 1.15952 | 3.19967 | 1.73488 |
| morex | ROO | 7.02322 | 5.55665 | 2.71469 |
| morex | ROO2 | 11.8116 | 10.1372 | 10.6621 |
| morex | NOD | 2.35786 | 3.38616 | 4.72787 |
| morex | RAC | 14.114 | 15.7724 | 14.3768 |
| morex | INF1 | 30.2132 | 30.527 | 32.2635 |
| morex | INF2 | 56.2746 | 37.5984 | 51.9052 |
| morex | CAR5 | 16.3649 | 12.565 | 14.1766 |
| morex | CAR15 | 8.97425 | 6.23078 | 9.8767 |
| morex | LEM | 7.11543 | 5.67473 | 5.51176 |
| morex | LOD | 4.6915 | 11.0519 | 5.55522 |
| morex | PAL | 6.88822 | 5.34774 | 5.14871 |
| morex | SEN | 2.98715 | 1.25901 | 1.18934 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g17610.1 | +3 | 0.0 | 709 | 386/446 (87%) | protein|OsTOP6A3 - Topoisomerase 6 subunit A homolog 3, expressed |
| TAIR PP10 | AT5G02820 @ ARAPORT AT5G02820.1 @ TAIR |
+3 | 0.0 | 578 | 275/363 (76%) | Symbols: RHL2, BIN5 | Spo11/DNA topoisomerase VI, subunit A protein | chr5:642658-644123 FORWARD LENGTH=427 |
| BRACH PP3 | Bradi1g65870.1.p | +3 | 0.0 | 729 | 411/442 (93%) | pacid=32803449 transcript=Bradi1g65870.1 locus=Bradi1g65870 ID=Bradi1g65870.1.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 (2325 bp)
>BART1_0-u29730.002 2325 150831_barley_pseudomolecules AGAAAAAGAAGCTACCAAGTCCCCTTTAAATGTAGATAGAGATTCCCGAAAAAAACCAAC GAGACGTGTTGCTGGGCCGCGCTAGTACGGGCTTCGTGGGCCGCGCGCTTGGCACATAGG GTAGGTCCGGAGGACAGGTCTCCGTCCCTTCCATTCTCCCCAACCAAAGCCACAGCCACA CTCGAGTTCGTATCCTGCCGCCGTCTCCGCCCGTCCGCCGTAGCGTCCCCCCCGGTGAGC CCGCCTCCGGATCTCTGCAAATGTCGGAGAGGAAGCGCCGGGCGGGGACAGATGCGGCCG AGGGGGGCTCCACCTCGAAGAAACTGCGCGGCGCCTCGGCCGCCGCATCCTACGCCCAAT CCCTCCGCTCGAAGCTCCGCCCTGACGCCTCCATCCTCGCCTCCCTCCGCGCCCTCGCCT CCGCCGCCTCCAAATCCAAGCCCGCGACCGCCTCCTCAGCCGGAGCGAAAGCCCTCTCCG AGGACGACCCGGCCTCCGCCTCCTCCAACTACATCGTGGTCGCCGACCAGGACACCACCT CCGTCACCTCCCGCATCAACCGCCTCGTCCTCTCCGTCGCGCGAAGCATCCTGGCTGGCC GCGGCTTCTCCTTCGCCGTCCCCTCCCGCACCTCCTCAAACCAGGTATACCTCCCGGACC TCGACCGCATCGTGCTCCTCCGCCGCGAGTCCGCGAGGCCCTTCGCCAACGTCGCCACCG CGCGCAAGGCCACCGTCACCGCGCGCGTCCTCTCCCTCGTCCACGCCGTCCTGCGCAGGG GCATCCATGTCACCAAGAGGGATCTCTTCTACACCGACGTGAAGCTCTTCGGCGACCAGT CCCAGTCGGACGCCATCCTCGACGACGTCTCCTGCATGCTTGGATGCACCCGCTCGTCCC TACATGTCGTCGCCTCTGAGAAGGGCGTTGTGGTTGGCCGCCTCACTTTTGCTGATGACG GCGACGTCATCGACTGCACGCGAATGGGCGTCGGCGGGAAGGCCATCCCGCCCAACATTG ACAGGGTGTCAGGCATTGAGAGCGACGCTCTCTTCATCTTGCTTGTGGAGAAAGATGCTG CTTTCATGCGCCTCGCCGAGGACAGGTTCTACAACCGTTTTCCGTGCATCATATTGACAG CAAAGGGGCAGCCGGATGTTGCCACCAGGTTGTTCTTGCGCCGGCTTAAAGTGGAGCTGA AGCTTCCGGTGCTCGCATTGGTGGACTCTGATCCATATGGGCTGAAGATCTTGTCCGTGT ATATGTGTGGCTCGAAGAACATGTCGTATGACAGTGCCAATCTGACAACGCCGGATATCA AGTGGCTCGGCGTGCGGCCAAGTGATCTGGACAAGTACAGGGTACCGGAGCAGTGCCGGC TTCCCATGAGTGATCACGATATCAAGGTGGGAAAAGAGATGCTAGAGGAAGACTTCGTGA AGCAAAATGAAGGGTGGGTGAAGGAGTTGGAGACGATGTTGCGAACAAAACAGAAGGCTG AGATTCAGGCTCTCAGCTCGTTTGGGTTCCAGTACCTGACTGAGGTATATCTACCCCTCA AGCTGCAGCAGGAGGACTGGATTTAAGATCTCTTCTGATGACAGCAGCTGCAGATGATAC AGAGAAAGAGCAGCTTGATCGAGGAGCATCAATTTGACACTAGTGGGGAGCTAGCTTAAC AATACCTCATCTGTACCGTGTAACATCTGTGCGGCAATCCCTTTGTATGTTTTATGTATT TGAAAAACCGTATGTTGTGTACTTGTGAGACCTGTATTTGGAAGTATCTGCATCTGTGGA ATTAGATGTGACTTTTGTGTATTTGAAAATTCATATATTGTGTTTTTCTTGTACTTCTGG AGATGGAATTTGGTGTAACTTTCTGATGCCTGTATTTTGAAGCTAGCATTCGCATATGGA AAACCGGTTGTACTCTGTGCGTCTTGAATTACTTGTTGCTCAGATGGATGTATCTAGATG TAATTCCAGGTGGAGGAAGAGATTAGAGCTACTGCCATAGATTTTGCTTCTTTTTTGATT TGTGGGGATACTTATGTTTATCTGTATCATGTTTAAACAAAATGTAGTCTGTTCAATATT TATCTGTGCAAACTCATGCATAGGCCAGATGACCTGAAAGCTTTGACCTCTTTAGTTGAG ATGACTTTTGGAGGATTAGAATCTTTAGAAATTATTTCTAGATTGGTTTTTTGATTCTTC TGAAATTATTTCCTATTGGTTGTTTTGATTCATAGGATTGAATCCTATAGGAACATTTCA AAAGGATTTCATTGTACTACATCTCATAGAAAAGTTACCATCCAC
Protein Sequence (441 aa)
>BART1_0-u29730.002 441 150831_barley_pseudomolecules MSERKRRAGTDAAEGGSTSKKLRGASAAASYAQSLRSKLRPDASILASLRALASAASKSK PATASSAGAKALSEDDPASASSNYIVVADQDTTSVTSRINRLVLSVARSILAGRGFSFAV PSRTSSNQVYLPDLDRIVLLRRESARPFANVATARKATVTARVLSLVHAVLRRGIHVTKR DLFYTDVKLFGDQSQSDAILDDVSCMLGCTRSSLHVVASEKGVVVGRLTFADDGDVIDCT RMGVGGKAIPPNIDRVSGIESDALFILLVEKDAAFMRLAEDRFYNRFPCIILTAKGQPDV ATRLFLRRLKVELKLPVLALVDSDPYGLKILSVYMCGSKNMSYDSANLTTPDIKWLGVRP SDLDKYRVPEQCRLPMSDHDIKVGKEMLEEDFVKQNEGWVKELETMLRTKQKAEIQALSS FGFQYLTEVYLPLKLQQEDWI