- Transcript BART1_0-u23592.001
- Transcript IDBART1_0-u23592.001
- Gene IDBART1_0-u23592
Barley RTD
Exon Structure of BART1_0-u23592.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 627472849 | 627472714 | + |
| 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 | 627479861 | + |
| chr3H | 12 | 627480848 | 627480066 | + |
| chr3H | 13 | 627481980 | 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 | 0 |
| morex | ETI | 0 | 0 | 0.357426 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0.426124 | 0 | 0.281453 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0.00000657441 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0.440123 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 1.60491 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g67420.1 | +2 | 0.0 | 1052 | 513/708 (72%) | protein|lipase, putative, expressed |
| TAIR PP10 | AT1G05790 @ ARAPORT AT1G05790.1 @ TAIR |
+2 | 4e-158 | 482 | 247/509 (49%) | Symbols: | lipase class 3 family protein | chr1:1733039-1737365 FORWARD LENGTH=687 |
| BRACH PP3 | Bradi2g57770.2.p | +2 | 0.0 | 1195 | 579/721 (80%) | 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 (2949 bp)
>BART1_0-u23592.001 2949 150831_barley_pseudomolecules GTCTGCGGCCTCCGCGGCGAGGCTCCTCGCGTCCGCCGCGGCCGGGTTCGCGCAGGGCCT GGCGGCGAGCGCGATCGCCGCCGGCGCCATCGGGGCGCACGTCGACAGCGACCGCGACCT CCGGCATCTCTCGCGGCTACGATACAATAGATGGCTTTGGTGGGCAAGGTTTGGGATGGT AATTACAGTGCTCCAATTTGTGCTGGCACTTTATTTGATGTGCATTATTGTAAAGGATTT CTCATCTGGGAAGTCGTTGAAAGAGTGTTTTTCAGGACACGGCAAGGACAACAATGACTG GAAGAATATCTTGTTAATAATTTTTCTTGTTCTTATGTGGGTGGGAACAATAGTCCAGTG TGCCACAGGTTCCGATGTATTAAGATGGAGGTCCTTTTATGCAACTCATGATATAGCATG GAGGGCTCACTACAGGGAGGTGTTTGATCATGGCATTCGTGAGGTTTTATGTTGTCTAGG ACGGGTGAAGTACTCGAGTGTACTGGAAGATGATGATATATGTGTCGTGGCAAAACTGTT GGGCGATATTATGGCTTATCGTGCATCTGGAACTGGCCATCTTGAGCTCATAGCAGGGTT TTCATTGTTGCAGAAATCCAAGATGTCGACGGTTGTTTCAAGAGAACAAGCAGAGGCTCC TCATGATCTCATCCAAGAGGCTATTCTGTTTCATCCATTTGCTGAAGCTGCATATACAGG TCCGTTACTTGATTTTGGAAGGAATCCTCTTATGTTTCCCTGTGTTTGGCTCAATAGGCA AGGTATTTTAACTCCATGGACTCGTGCTAGACGACCAATCCTTGAAGGAGATAATTGGTG GAGAGGGCATGCAGCGGCTTTCCTAAAGTATGTCAATGTGCCCCCAGAAGTTCTTCGGAA AGGGCGTGTTAGCCAGACAAAACGTGAGGCTGCCTACTTTATTATTGTCTTACATGACTT GAAAACAGTAGTCATTGCCATTCGTGGAACCGAGACTCCAGAAGATGTTATAACCGATGG CTTATGTAGGGAATGCTCTCTTACGATGGATGACTTGGATGGGCTGGTCAATTCTGATCA GTTACCCCCTCAAGTGAAGGAGGCTGTGCTCTCGTCTTTTCCACACTATGGACATGCGGG AATTATTGAATCAGCTCGAGAATTGTACACAAAGCTTGAAGGGCAGCCCATTCATCAAGA TAAGTCAGAGCTGATGACAGCTGGGTTCTTATCTTCGCTGCTCGGAGCTGGATGTGAGTG TGATGGATACAATATTGAAATTGTTGGACATTCTTTAGGAGGTGCTGTAGCTGCACTTCT TGGTATTAGGCTATATAAACAGTTTCCAAAATTACATGTCTTTACTTATGGAGCTGCACC CTGTGTAGATTTCGTGATAGCAGATGCATGCTCACAGTTTGTTACCAGCATTGTCCACAA CGATGAATTTTCCTCAAGATTATCCATGAATTCGGTAATTAGATTACGTGGCGCTGCTAT CAAAGCTCTATCAAAGGATACTTCGCCAAATTCTACTAAAGTTGGCAAACTAGTGAGTGG CTTCACGAGCATCAAAGGGCATGATGAACAATGCGATGTGGTTCAATTTGCTGCTCCTGG TGCTCTTCAGACAGTCAGCGATGCAAAGCTAAGTAACGGTCAAATCTATGGAAAGAGTGT AATGCATACAGTTAGAGGTGGTGTGTTCCTCTTTGGTCAAGCAATATCTTGCTTGGTAAA TACTCCAAAGCATAGAATTAGCTCCACTGCGGCAATTAAGTACGAGTTGGGGCGATCTAG AACAACGTTAACCTATAATGGAGAAAAATTGACTGTTGCTTCCCATGGTGTTCTGGATGG TGCACCTTCTGGAGAACCTAGCGATGCATACCGAGATGGCAAGTTTCCAGAAGCTGGCTT GGATGAATCCGGAAGTAGTTACAGGTTACCTCATTCAAATGATGGTACTGAGCTCTCACC TGCTCCTGATCACATCTGTACAACAAGTTTATCTGAAGGGCAGTCGCCAGAGGTGTACCT CCCTGGCCTCATTATTCATATCGTTCCCATAAAAAATGGTACCTCTCCATCACGGAAGAC ACTTGTGACTCGTCACAAGAACAAGAGTTATAAAGCATTTGTAGCAAATCGGCAGGACTT TATGGACCTTGTTGTGACCCCTCGCATGTTCCTTGATCATCTCCCATGGAGGTGCCACTA TGGCATGCAAAGGGTTATAGAAAGACGGAACCGGAACCAGCCCATTCGCAATTCATCCAC CGGAGAGGATTCTGTCTAACTGAAAACTGTTAGGCTGGTACAAATGTATCATTATTCAGC TTGACCTCTTCCTTGTTTCTTCTGTACATATACAAGTTATGGAGATATGATCATGTGCTC TTCACATACTTAATTTAGGAAGGTGTAGAAGAAGCAAGGGCCGAAACGAGCCTTGAGTGC ATCCTGATGAGCATTACTTGACCTCACCATTGTTGTATTCAGCTTTCCTGGTAGCTAGGG CAGCTCTTATATATACACCATCGGTCAACGAAGACCGGCTTCTTTGTTTTATGACAAGCT TGTACTACTAAATTAAATCCTCTGGTGTCAAACTTTTGCTTCGAGCAGTGTTGTAACTTT GACACCAGCACATGTAAGTTAACGCTGTAAAATCCGAACTGCCATGAATTCATGGATAGA AAACAATATACAAGCTACTGTTTTATTAGCTCCGACAAAGTTAAAGTTTAACACTGTAAA TGTGGCAGCTAGGTCTACACTAATCGCCATCGTGCTTACTGAATACGGAGTATGATTTAA GGCGCATGTTGACTAGAGCGTTCATTTACGACCCCTGTTGACTTTGTTTGCCTCTCTCGT AACAGGGTGTTAGGTAGCCTCTGGACCAGGTGCATGACGCATATGATTGAAGCTCAACGT CCTCATCTG
Protein Sequence (765 aa)
>BART1_0-u23592.001 765 150831_barley_pseudomolecules SAASAARLLASAAAGFAQGLAASAIAAGAIGAHVDSDRDLRHLSRLRYNRWLWWARFGMV ITVLQFVLALYLMCIIVKDFSSGKSLKECFSGHGKDNNDWKNILLIIFLVLMWVGTIVQC ATGSDVLRWRSFYATHDIAWRAHYREVFDHGIREVLCCLGRVKYSSVLEDDDICVVAKLL GDIMAYRASGTGHLELIAGFSLLQKSKMSTVVSREQAEAPHDLIQEAILFHPFAEAAYTG PLLDFGRNPLMFPCVWLNRQGILTPWTRARRPILEGDNWWRGHAAAFLKYVNVPPEVLRK GRVSQTKREAAYFIIVLHDLKTVVIAIRGTETPEDVITDGLCRECSLTMDDLDGLVNSDQ LPPQVKEAVLSSFPHYGHAGIIESARELYTKLEGQPIHQDKSELMTAGFLSSLLGAGCEC DGYNIEIVGHSLGGAVAALLGIRLYKQFPKLHVFTYGAAPCVDFVIADACSQFVTSIVHN DEFSSRLSMNSVIRLRGAAIKALSKDTSPNSTKVGKLVSGFTSIKGHDEQCDVVQFAAPG ALQTVSDAKLSNGQIYGKSVMHTVRGGVFLFGQAISCLVNTPKHRISSTAAIKYELGRSR TTLTYNGEKLTVASHGVLDGAPSGEPSDAYRDGKFPEAGLDESGSSYRLPHSNDGTELSP APDHICTTSLSEGQSPEVYLPGLIIHIVPIKNGTSPSRKTLVTRHKNKSYKAFVANRQDF MDLVVTPRMFLDHLPWRCHYGMQRVIERRNRNQPIRNSSTGEDSV