- Transcript BART1_0-u23592.004
- Transcript IDBART1_0-u23592.004
- Gene IDBART1_0-u23592
Barley RTD
Exon Structure of BART1_0-u23592.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 627472849 | 627472783 | + |
| chr3H | 2 | 627476335 | 627476197 | + |
| chr3H | 3 | 627476767 | 627476548 | + |
| chr3H | 4 | 627476952 | 627476852 | + |
| chr3H | 5 | 627477223 | 627477102 | + |
| chr3H | 6 | 627477389 | 627477298 | + |
| chr3H | 7 | 627478018 | 627477913 | + |
| chr3H | 8 | 627478248 | 627478099 | + |
| chr3H | 9 | 627479059 | 627478932 | + |
| chr3H | 10 | 627479367 | 627479237 | + |
| chr3H | 11 | 627479958 | 627479861 | + |
| chr3H | 12 | 627480848 | 627480066 | + |
| chr3H | 13 | 627481771 | 627481243 | + |
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 | 2.24252 | 2.30195 |
| morex | ETI | 3.19088 | 2.3714 | 2.00278 |
| morex | LEA | 4.17951 | 2.96565 | 0.0504491 |
| morex | EPI | 2.80202 | 5.69367 | 5.23768 |
| morex | ROO | 0 | 0.81709 | 0.000000447641 |
| morex | ROO2 | 0.673519 | 1.49882 | 2.3215 |
| morex | NOD | 5.20021 | 3.74044 | 3.81105 |
| morex | RAC | 4.21049 | 0.619103 | 2.27907 |
| morex | INF1 | 0.755007 | 4.95123 | 0.839467 |
| morex | INF2 | 2.8324 | 1.84884 | 2.23726 |
| morex | CAR5 | 2.94717 | 0.412665 | 1.38662 |
| morex | CAR15 | 0.0000777736 | 1.5619 | 0.512587 |
| morex | LEM | 5.99857 | 5.03253 | 4.53688 |
| morex | LOD | 6.01904 | 3.29373 | 4.40602 |
| morex | PAL | 4.48506 | 7.19609 | 4.00709 |
| morex | SEN | 1.01303 | 1.11355 | 1.38732 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g67420.1 | +3 | 0.0 | 568 | 281/398 (71%) | protein|lipase, putative, expressed |
| TAIR PP10 | AT1G05790 @ ARAPORT AT1G05790.1 @ TAIR |
+2 | 1e-130 | 311 | 155/308 (50%) | Symbols: | lipase class 3 family protein | chr1:1733039-1737365 FORWARD LENGTH=687 |
| BRACH PP3 | Bradi2g57770.4.p | +3 | 0.0 | 613 | 308/410 (75%) | pacid=32774684 transcript=Bradi2g57770.4 locus=Bradi2g57770 ID=Bradi2g57770.4.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 (2666 bp)
>BART1_0-u23592.004 2666 150831_barley_pseudomolecules CGCGATCGCCGCCGGCGCCATCGGGGCGCACGTCGACAGCGACCGCGACCTCCGGCATCT CTCGCGGCTACGATACAATAGATGGCTTTGGTGGGCAAGGTTTGGGATGGTAATTACAGT GCTCCAATTTGTGCTGGCACTTTATTTGATGTGCATTATTGTAAAGGATTTCTCATCTGG GAAGTCGTTGAAAGAGTGTTTTTCAGGACACGGCAAGGACAACAATGACTGGAAGAATAT CTTGTTAATAATTTTTCTTGTTCTTATGTGGGTGGGAACAATAGTCCAGTGTGCCACAGG TTCCGATGTATTAAGATGGAGGTCCTTTTATGCAACTCATGATATAGCATGGAGGGCTCA CTACAGGGAGGTGTTTGATCATGGCATTCGTGAGGTTTTATGTTGTCTAGGACGGGTGAA GTACTCGAGTGTACTGGAAGATGATGATATATGTGTCGTGGCAAAACTGTTGGGCGATAT TATGGCTTATCGTGCATCTGGAACTGGCCATCTTGAGCTCATAGCAGGGTTTTCATTGTT GCAGAAATCCAAGATGTCGACGGTTGTTTCAAGAGAACAAGCAGAGGCTCCTCATGATCT CATCCAAGAGGCTATTCTGTTTCATCCATTTGCTGAAGCTGCATATACAGGTCCGTTACT TGATTTTGGAAGGAATCCTCTTATGTTTCCCTGTGTTTGGCTCAATAGGCAAGGTATTTT AACTCCATGGACTCGTGCTAGACGACCAATCCTTGAAGGAGATAATTGGTGGAGAGGGCA TGCAGCGGCTTTCCTAAAGTATGTCAATGTGCCCCCAGAAGTTCTTCGGAAAGGGCGTGT TAGCCAGACAAAACGTGAGGCTGCCTACTTTATTATTGTCTTACATGACTTGAAAACAGT AGTCATTGCCATTCGTGGAACCGAGACTCCAGAAGATGTTATAACCGATGGCTTATGTAG GGAATGCTCTCTTACGATGGATGACTTGGATGGGCTGTTCTGATCAGTTACCCCCTCAAG TGAAGGAGGCTGTGCTCTCGTCTTTTCCACACTATGGACATGCGGGAATTATTGAATCAG CTCGAGAATTGTACACAAAGCTTGAAGGGCAGCCCATTCATCAAGATAAGTCAGAGCTGA TGACAGCTGGGTTCTTATCTTCGCTGCTCGGAGCTGGATGTGAGTGTGATGGATACAATA TTGAAATTGTTGGACATTCTTTAGGAGGTGCTGTAGCTGCACTTCTTGGTATTAGGCTAT ATAAACAGTTTCCAAAATTACATGTCTTTACTTATGGAGCTGCACCCTGTGTAGATTTCG TGATAGCAGATGCATGCTCACAGTTTGTTACCAGCATTGTCCACAACGATGAATTTTCCT CAAGATTATCCATGAATTCGGTAATTAGATTACGTGGCGCTGCTATCAAAGCTCTATCAA AGGATACTTCGCCAAATTCTACTAAAGTTGGCAAACTAGTGAGTGGCTTCACGAGCATCA AAGGGCATGATGAACAATGCGATGTGGTTCAATTTGCTGCTCCTGGTGCTCTTCAGACAG TCAGCGATGCAAAGCTAAGTAACGGTCAAATCTATGGAAAGAGTGTAATGCATACAGTTA GAGGTGGTGTGTTCCTCTTTGGTCAAGCAATATCTTGCTTGGTAAATACTCCAAAGCATA GAATTAGCTCCACTGCGGCAATTAAGTACGAGTTGGGGCGATCTAGAACAACGTTAACCT ATAATGGAGAAAAATTGACTGTTGCTTCCCATGGTGTTCTGGATGGTGCACCTTCTGGAG AACCTAGCGATGCATACCGAGATGGCAAGTTTCCAGAAGCTGGCTTGGATGAATCCGGAA GTAGTTACAGGTTACCTCATTCAAATGATGGTACTGAGCTCTCACCTGCTCCTGATCACA TCTGTACAACAAGTTTATCTGAAGGGCAGTCGCCAGAGGTGTACCTCCCTGGCCTCATTA TTCATATCGTTCCCATAAAAAATGGTACCTCTCCATCACGGAAGACACTTGTGACTCGTC ACAAGAACAAGAGTTATAAAGCATTTGTAGCAAATCGGCAGGACTTTATGGACCTTGTTG TGACCCCTCGCATGTTCCTTGATCATCTCCCATGGAGGTGCCACTATGGCATGCAAAGGG TTATAGAAAGACGGAACCGGAACCAGCCCATTCGCAATTCATCCACCGGAGAGGATTCTG TCTAACTGAAAACTGTTAGGCTGGTACAAATGTATCATTATTCAGCTTGACCTCTTCCTT GTTTCTTCTGTACATATACAAGTTATGGAGATATGATCATGTGCTCTTCACATACTTAAT TTAGGAAGGTGTAGAAGAAGCAAGGGCCGAAACGAGCCTTGAGTGCATCCTGATGAGCAT TACTTGACCTCACCATTGTTGTATTCAGCTTTCCTGGTAGCTAGGGCAGCTCTTATATAT ACACCATCGGTCAACGAAGACCGGCTTCTTTGTTTTATGACAAGCTTGTACTACTAAATT AAATCCTCTGGTGTCAAACTTTTGCTTCGAGCAGTGTTGTAACTTTGACACCAGCACATG TAAGTTAACGCTGTAAAATCCGAACTGCCATGAATTCATGGATAGAAAACAATATACAAG CTACTGTTTTATTAGCTCCGACAAAG
Protein Sequence (425 aa)
>BART1_0-u23592.004 425 150831_barley_pseudomolecules MAYVGNALLRWMTWMGCSDQLPPQVKEAVLSSFPHYGHAGIIESARELYTKLEGQPIHQD KSELMTAGFLSSLLGAGCECDGYNIEIVGHSLGGAVAALLGIRLYKQFPKLHVFTYGAAP CVDFVIADACSQFVTSIVHNDEFSSRLSMNSVIRLRGAAIKALSKDTSPNSTKVGKLVSG FTSIKGHDEQCDVVQFAAPGALQTVSDAKLSNGQIYGKSVMHTVRGGVFLFGQAISCLVN TPKHRISSTAAIKYELGRSRTTLTYNGEKLTVASHGVLDGAPSGEPSDAYRDGKFPEAGL DESGSSYRLPHSNDGTELSPAPDHICTTSLSEGQSPEVYLPGLIIHIVPIKNGTSPSRKT LVTRHKNKSYKAFVANRQDFMDLVVTPRMFLDHLPWRCHYGMQRVIERRNRNQPIRNSST GEDSV