- Transcript BART1_0-u23592.007
- Transcript IDBART1_0-u23592.007
- Gene IDBART1_0-u23592
Barley RTD
Exon Structure of BART1_0-u23592.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 627472849 | 627472811 | + |
| 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 | 627478253 | 627478099 | + |
| chr3H | 9 | 627479059 | 627478932 | + |
| chr3H | 10 | 627479367 | 627479237 | + |
| chr3H | 11 | 627479958 | 627479919 | + |
| chr3H | 12 | 627480848 | 627480066 | + |
| chr3H | 13 | 627481756 | 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 | 0.794797 | 0.583092 |
| morex | ETI | 2.78323 | 0.00255772 | 1.25934 |
| morex | LEA | 0.809358 | 0.000000428591 | 0 |
| morex | EPI | 1.51004 | 0.0685059 | 1.53305 |
| morex | ROO | 1.16775 | 0.886261 | 0.0000000742712 |
| morex | ROO2 | 0.000168641 | 0.894185 | 0.000387104 |
| morex | NOD | 4.03618 | 0.356263 | 0.0000000170624 |
| morex | RAC | 0.00000347535 | 0.588896 | 0.000000000265268 |
| morex | INF1 | 2.28777 | 0.0000000511253 | 3.39131 |
| morex | INF2 | 0 | 1.36237 | 4.60648 |
| morex | CAR5 | 0.372431 | 0.79598 | 0 |
| morex | CAR15 | 0.0507399 | 4.68721 | 3.83947 |
| morex | LEM | 5.30734 | 0.815266 | 2.41526 |
| morex | LOD | 0 | 1.64092 | 0.898043 |
| morex | PAL | 1.80295 | 1.40332 | 1.42567 |
| morex | SEN | 1.04487 | 0.836221 | 1.08026 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g67420.1 | +1 | 0.0 | 634 | 303/397 (76%) | protein|lipase, putative, expressed |
| TAIR PP10 | AT1G05790 @ ARAPORT AT1G05790.1 @ TAIR |
+1 | 1e-127 | 399 | 201/397 (51%) | Symbols: | lipase class 3 family protein | chr1:1733039-1737365 FORWARD LENGTH=687 |
| BRACH PP3 | Bradi2g57770.2.p | +1 | 0.0 | 748 | 348/398 (87%) | pacid=32774683 transcript=Bradi2g57770.2 locus=Bradi2g57770 ID=Bradi2g57770.2.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 (2570 bp)
>BART1_0-u23592.007 2570 150831_barley_pseudomolecules CACGTCGACAGCGACCGCGACCTCCGGCATCTCTCGCGGCTACGATACAATAGATGGCTT TGGTGGGCAAGGTTTGGGATGGTAATTACAGTGCTCCAATTTGTGCTGGCACTTTATTTG ATGTGCATTATTGTAAAGGATTTCTCATCTGGGAAGTCGTTGAAAGAGTGTTTTTCAGGA CACGGCAAGGACAACAATGACTGGAAGAATATCTTGTTAATAATTTTTCTTGTTCTTATG TGGGTGGGAACAATAGTCCAGTGTGCCACAGGTTCCGATGTATTAAGATGGAGGTCCTTT TATGCAACTCATGATATAGCATGGAGGGCTCACTACAGGGAGGTGTTTGATCATGGCATT CGTGAGGTTTTATGTTGTCTAGGACGGGTGAAGTACTCGAGTGTACTGGAAGATGATGAT ATATGTGTCGTGGCAAAACTGTTGGGCGATATTATGGCTTATCGTGCATCTGGAACTGGC CATCTTGAGCTCATAGCAGGGTTTTCATTGTTGCAGAAATCCAAGATGTCGACGGTTGTT TCAAGAGAACAAGCAGAGGCTCCTCATGATCTCATCCAAGAGGCTATTCTGTTTCATCCA TTTGCTGAAGCTGCATATACAGGTCCGTTACTTGATTTTGGAAGGAATCCTCTTATGTTT CCCTGTGTTTGGCTCAATAGGCAAGGTATTTTAACTCCATGGACTCGTGCTAGACGACCA ATCCTTGAAGGAGATAATTGGTGGAGAGGGCATGCAGCGGCTTTCCTAAAGTATGTCAAT GTGCCCCCAGAAGTTCTTCGGAAAGGGCGTGTTAGCCAGACAAAACGTGAGGCTGCCTAC TTTATTATTGTCTTACATGACTTGAAAACAGTAGTCATTGCCATTCGTGGAACCGAGACT CCAGAAGATGTTATAACCGATGGCTTATGTAGGGAATGCTCTCTTACGATGGATGACTTG GATGGGCTGGTCAATTCTGATCAGTTACCCCCTCAAGTGAAGGAGGCTGTGCTCTCGTCT TTTCCACACTATGGACATGCGGGAATTATTGAATCAGCTCGAGAATTGTACACAAAGCTT GAAGGGCAGCCCATTCATCAAGATAAGTCAGAGCTGATGACAGCTGGGTTCTTATCTTCG CTGCTCGGAGCTGGATGTGAGTGTGATGGATACAATATTGAAATTGTTGGACATTCTTTA GGAGGTGCTGTAGCTGCACTTCTTGGTATTAGGATTTCGTGATAGCAGATGCATGCTCAC AGTTTGTTACCAGCATTGTCCACAACGATGAATTTTCCTCAAGATTATCCATGAATTCGG TAATTAGATTACGTGGCGCTGCTATCAAAGCTCTATCAAAGGATACTTCGCCAAATTCTA CTAAAGTTGGCAAACTAGTGAGTGGCTTCACGAGCATCAAAGGGCATGATGAACAATGCG ATGTGGTTCAATTTGCTGCTCCTGGTGCTCTTCAGACAGTCAGCGATGCAAAGCTAAGTA ACGGTCAAATCTATGGAAAGAGTGTAATGCATACAGTTAGAGGTGGTGTGTTCCTCTTTG GTCAAGCAATATCTTGCTTGGTAAATACTCCAAAGCATAGAATTAGCTCCACTGCGGCAA TTAAGTACGAGTTGGGGCGATCTAGAACAACGTTAACCTATAATGGAGAAAAATTGACTG TTGCTTCCCATGGTGTTCTGGATGGTGCACCTTCTGGAGAACCTAGCGATGCATACCGAG ATGGCAAGTTTCCAGAAGCTGGCTTGGATGAATCCGGAAGTAGTTACAGGTTACCTCATT CAAATGATGGTACTGAGCTCTCACCTGCTCCTGATCACATCTGTACAACAAGTTTATCTG AAGGGCAGTCGCCAGAGGTGTACCTCCCTGGCCTCATTATTCATATCGTTCCCATAAAAA ATGGTACCTCTCCATCACGGAAGACACTTGTGACTCGTCACAAGAACAAGAGTTATAAAG CATTTGTAGCAAATCGGCAGGACTTTATGGACCTTGTTGTGACCCCTCGCATGTTCCTTG ATCATCTCCCATGGAGGTGCCACTATGGCATGCAAAGGGTTATAGAAAGACGGAACCGGA ACCAGCCCATTCGCAATTCATCCACCGGAGAGGATTCTGTCTAACTGAAAACTGTTAGGC TGGTACAAATGTATCATTATTCAGCTTGACCTCTTCCTTGTTTCTTCTGTACATATACAA GTTATGGAGATATGATCATGTGCTCTTCACATACTTAATTTAGGAAGGTGTAGAAGAAGC AAGGGCCGAAACGAGCCTTGAGTGCATCCTGATGAGCATTACTTGACCTCACCATTGTTG TATTCAGCTTTCCTGGTAGCTAGGGCAGCTCTTATATATACACCATCGGTCAACGAAGAC CGGCTTCTTTGTTTTATGACAAGCTTGTACTACTAAATTAAATCCTCTGGTGTCAAACTT TTGCTTCGAGCAGTGTTGTAACTTTGACACCAGCACATGTAAGTTAACGCTGTAAAATCC GAACTGCCATGAATTCATGGATAGAAAACAATATACAAGCTACTGTTTTA
Protein Sequence (413 aa)
>BART1_0-u23592.007 413 150831_barley_pseudomolecules HVDSDRDLRHLSRLRYNRWLWWARFGMVITVLQFVLALYLMCIIVKDFSSGKSLKECFSG HGKDNNDWKNILLIIFLVLMWVGTIVQCATGSDVLRWRSFYATHDIAWRAHYREVFDHGI REVLCCLGRVKYSSVLEDDDICVVAKLLGDIMAYRASGTGHLELIAGFSLLQKSKMSTVV SREQAEAPHDLIQEAILFHPFAEAAYTGPLLDFGRNPLMFPCVWLNRQGILTPWTRARRP ILEGDNWWRGHAAAFLKYVNVPPEVLRKGRVSQTKREAAYFIIVLHDLKTVVIAIRGTET PEDVITDGLCRECSLTMDDLDGLVNSDQLPPQVKEAVLSSFPHYGHAGIIESARELYTKL EGQPIHQDKSELMTAGFLSSLLGAGCECDGYNIEIVGHSLGGAVAALLGIRIS