- Transcript BART1_0-u29730.001
- Transcript IDBART1_0-u29730.001
- Gene IDBART1_0-u29730
Barley RTD
Exon Structure of BART1_0-u29730.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 481895387 | 481893784 | + |
| chr4H | 2 | 481896397 | 481895680 | + |
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 | 2.97839 | 3.60495 | 1.39972 |
| morex | ETI | 2.32153 | 0.830882 | 2.20039 |
| morex | LEA | 1.81483 | 1.26052 | 1.02016 |
| morex | EPI | 0.147534 | 1.24152 | 0.506702 |
| morex | ROO | 0.604656 | 0.910882 | 0.478038 |
| morex | ROO2 | 2.98382 | 3.9734 | 2.5584 |
| morex | NOD | 0.60651 | 2.07263 | 3.76874 |
| morex | RAC | 5.1956 | 6.27318 | 5.29747 |
| morex | INF1 | 9.32713 | 9.96314 | 11.015 |
| morex | INF2 | 14.0468 | 14.4329 | 11.0786 |
| morex | CAR5 | 4.83014 | 6.71483 | 7.60524 |
| morex | CAR15 | 1.74874 | 1.96014 | 2.06698 |
| morex | LEM | 2.52787 | 1.46755 | 2.32455 |
| morex | LOD | 3.08947 | 3.48434 | 2.3851 |
| morex | PAL | 2.07619 | 2.38041 | 2.39477 |
| morex | SEN | 0.658103 | 1.80322 | 0.768074 |
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 (2322 bp)
>BART1_0-u29730.001 2322 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 AGCTGCAGCAGGAGGACTGGATTTAAGATCTCTTCTGATGACAGCTGCAGATGATACAGA GAAAGAGCAGCTTGATCGAGGAGCATCAATTTGACACTAGTGGGGAGCTAGCTTAACAAT ACCTCATCTGTACCGTGTAACATCTGTGCGGCAATCCCTTTGTATGTTTTATGTATTTGA AAAACCGTATGTTGTGTACTTGTGAGACCTGTATTTGGAAGTATCTGCATCTGTGGAATT AGATGTGACTTTTGTGTATTTGAAAATTCATATATTGTGTTTTTCTTGTACTTCTGGAGA TGGAATTTGGTGTAACTTTCTGATGCCTGTATTTTGAAGCTAGCATTCGCATATGGAAAA CCGGTTGTACTCTGTGCGTCTTGAATTACTTGTTGCTCAGATGGATGTATCTAGATGTAA TTCCAGGTGGAGGAAGAGATTAGAGCTACTGCCATAGATTTTGCTTCTTTTTTGATTTGT GGGGATACTTATGTTTATCTGTATCATGTTTAAACAAAATGTAGTCTGTTCAATATTTAT CTGTGCAAACTCATGCATAGGCCAGATGACCTGAAAGCTTTGACCTCTTTAGTTGAGATG ACTTTTGGAGGATTAGAATCTTTAGAAATTATTTCTAGATTGGTTTTTTGATTCTTCTGA AATTATTTCCTATTGGTTGTTTTGATTCATAGGATTGAATCCTATAGGAACATTTCAAAA GGATTTCATTGTACTACATCTCATAGAAAAGTTACCATCCAC
Protein Sequence (441 aa)
>BART1_0-u29730.001 441 150831_barley_pseudomolecules MSERKRRAGTDAAEGGSTSKKLRGASAAASYAQSLRSKLRPDASILASLRALASAASKSK PATASSAGAKALSEDDPASASSNYIVVADQDTTSVTSRINRLVLSVARSILAGRGFSFAV PSRTSSNQVYLPDLDRIVLLRRESARPFANVATARKATVTARVLSLVHAVLRRGIHVTKR DLFYTDVKLFGDQSQSDAILDDVSCMLGCTRSSLHVVASEKGVVVGRLTFADDGDVIDCT RMGVGGKAIPPNIDRVSGIESDALFILLVEKDAAFMRLAEDRFYNRFPCIILTAKGQPDV ATRLFLRRLKVELKLPVLALVDSDPYGLKILSVYMCGSKNMSYDSANLTTPDIKWLGVRP SDLDKYRVPEQCRLPMSDHDIKVGKEMLEEDFVKQNEGWVKELETMLRTKQKAEIQALSS FGFQYLTEVYLPLKLQQEDWI