- Transcript BART1_0-u23592.003
- Transcript IDBART1_0-u23592.003
- Gene IDBART1_0-u23592
Barley RTD
Exon Structure of BART1_0-u23592.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 627472849 | 627472776 | + |
| chr3H | 2 | 627476335 | 627476197 | + |
| chr3H | 3 | 627476767 | 627476548 | + |
| chr3H | 4 | 627476952 | 627476852 | + |
| chr3H | 5 | 627477223 | 627477102 | + |
| chr3H | 6 | 627477361 | 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 | 627481776 | 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 | 3.22576 | 0.00000104947 | 2.31089 |
| morex | LEA | 0.911147 | 1.31264 | 3.36279 |
| morex | EPI | 0.00161741 | 2.64321 | 2.1843 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0.0000000361317 | 0.778044 | 0.000000202988 |
| morex | NOD | 0.0574299 | 0.000000583723 | 1.99554 |
| morex | RAC | 1.3189 | 3.78885 | 1.46198 |
| morex | INF1 | 2.31515 | 1.35362 | 2.39743 |
| morex | INF2 | 0.981241 | 3.03089 | 0.599152 |
| morex | CAR5 | 1.80154 | 3.63399 | 2.09333 |
| morex | CAR15 | 4.29606 | 4.17253 | 4.79017 |
| morex | LEM | 2.14242 | 1.95277 | 0.886268 |
| morex | LOD | 0.28399 | 0.0000000267355 | 0.392561 |
| morex | PAL | 1.44378 | 0.000148385 | 0.157202 |
| morex | SEN | 0.760686 | 0.00266492 | 0 |
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 | 850 | 440/715 (62%) | protein|lipase, putative, expressed |
| TAIR PP10 | AT1G05790 @ ARAPORT AT1G05790.1 @ TAIR |
+3 | 2e-122 | 176 | 91/186 (49%) | Symbols: | lipase class 3 family protein | chr1:1733039-1737365 FORWARD LENGTH=687 |
| BRACH PP3 | Bradi2g57770.2.p | +3 | 0.0 | 976 | 503/722 (70%) | 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 (2650 bp)
>BART1_0-u23592.003 2650 150831_barley_pseudomolecules CGGCGAGCGCGATCGCCGCCGGCGCCATCGGGGCGCACGTCGACAGCGACCGCGACCTCC GGCATCTCTCGCGGCTACGATACAATAGATGGCTTTGGTGGGCAAGGTTTGGGATGGTAA TTACAGTGCTCCAATTTGTGCTGGCACTTTATTTGATGTGCATTATTGTAAAGGATTTCT CATCTGGGAAGTCGTTGAAAGAGTGTTTTTCAGGACACGGCAAGGACAACAATGACTGGA AGAATATCTTGTTAATAATTTTTCTTGTTCTTATGTGGGTGGGAACAATAGTCCAGTGTG CCACAGGTTCCGATGTATTAAGATGGAGGTCCTTTTATGCAACTCATGATATAGCATGGA GGGCTCACTACAGGGAGGTGTTTGATCATGGCATTCGTGAGGTTTTATGTTGTCTAGGAC GGGTGAAGTACTCGAGTGTACTGGAAGATGATGATATATGTGTCGTGGCAAAACTGTTGG GCGATATTATGGCTTATCGTGCATCTGGAACTGGCCATCTTGAGCTCATAGCAGGGTTTT CATTGTTGCAGAAATCCAAGATGTCGACGGTTGTTTCAAGAGAACAAGCAGAGGCTCCTC ATGATCTCATCCAAGAGGCTATTCTGTTTCATCCATTTGCTGAAGCTGCATATACAGGTC CGTTACTTGATTTTGGAAGGAATCCTCTTATGTTTCCCTGTGTTTGGCTCAATAGGCAAG ACGACCAATCCTTGAAGGAGATAATTGGTGGAGAGGGCATGCAGCGGCTTTCCTAAAGTA TGTCAATGTGCCCCCAGAAGTTCTTCGGAAAGGGCGTGTTAGCCAGACAAAACGTGAGGC TGCCTACTTTATTATTGTCTTACATGACTTGAAAACAGTAGTCATTGCCATTCGTGGAAC CGAGACTCCAGAAGATGTTATAACCGATGGCTTATGTAGGGAATGCTCTCTTACGATGGA TGACTTGGATGGGCTGTTCTGATCAGTTACCCCCTCAAGTGAAGGAGGCTGTGCTCTCGT CTTTTCCACACTATGGACATGCGGGAATTATTGAATCAGCTCGAGAATTGTACACAAAGC TTGAAGGGCAGCCCATTCATCAAGATAAGTCAGAGCTGATGACAGCTGGGTTCTTATCTT CGCTGCTCGGAGCTGGATGTGAGTGTGATGGATACAATATTGAAATTGTTGGACATTCTT TAGGAGGTGCTGTAGCTGCACTTCTTGGTATTAGGCTATATAAACAGTTTCCAAAATTAC ATGTCTTTACTTATGGAGCTGCACCCTGTGTAGATTTCGTGATAGCAGATGCATGCTCAC AGTTTGTTACCAGCATTGTCCACAACGATGAATTTTCCTCAAGATTATCCATGAATTCGG TAATTAGATTACGTGGCGCTGCTATCAAAGCTCTATCAAAGGATACTTCGCCAAATTCTA CTAAAGTTGGCAAACTAGTGAGTGGCTTCACGAGCATCAAAGGGCATGATGAACAATGCG ATGTGGTTCAATTTGCTGCTCCTGGTGCTCTTCAGACAGTCAGCGATGCAAAGCTAAGTA ACGGTCAAATCTATGGAAAGAGTGTAATGCATACAGTTAGAGGTGGTGTGTTCCTCTTTG GTCAAGCAATATCTTGCTTGGTAAATACTCCAAAGCATAGAATTAGCTCCACTGCGGCAA TTAAGTACGAGTTGGGGCGATCTAGAACAACGTTAACCTATAATGGAGAAAAATTGACTG TTGCTTCCCATGGTGTTCTGGATGGTGCACCTTCTGGAGAACCTAGCGATGCATACCGAG ATGGCAAGTTTCCAGAAGCTGGCTTGGATGAATCCGGAAGTAGTTACAGGTTACCTCATT CAAATGATGGTACTGAGCTCTCACCTGCTCCTGATCACATCTGTACAACAAGTTTATCTG AAGGGCAGTCGCCAGAGGTGTACCTCCCTGGCCTCATTATTCATATCGTTCCCATAAAAA ATGGTACCTCTCCATCACGGAAGACACTTGTGACTCGTCACAAGAACAAGAGTTATAAAG CATTTGTAGCAAATCGGCAGGACTTTATGGACCTTGTTGTGACCCCTCGCATGTTCCTTG ATCATCTCCCATGGAGGTGCCACTATGGCATGCAAAGGGTTATAGAAAGACGGAACCGGA ACCAGCCCATTCGCAATTCATCCACCGGAGAGGATTCTGTCTAACTGAAAACTGTTAGGC TGGTACAAATGTATCATTATTCAGCTTGACCTCTTCCTTGTTTCTTCTGTACATATACAA GTTATGGAGATATGATCATGTGCTCTTCACATACTTAATTTAGGAAGGTGTAGAAGAAGC AAGGGCCGAAACGAGCCTTGAGTGCATCCTGATGAGCATTACTTGACCTCACCATTGTTG TATTCAGCTTTCCTGGTAGCTAGGGCAGCTCTTATATATACACCATCGGTCAACGAAGAC CGGCTTCTTTGTTTTATGACAAGCTTGTACTACTAAATTAAATCCTCTGGTGTCAAACTT TTGCTTCGAGCAGTGTTGTAACTTTGACACCAGCACATGTAAGTTAACGCTGTAAAATCC GAACTGCCATGAATTCATGGATAGAAAACAATATACAAGCTACTGTTTTATTAGCTCCGA CAAAGTTAAA
Protein Sequence (425 aa)
>BART1_0-u23592.003 425 150831_barley_pseudomolecules MAYVGNALLRWMTWMGCSDQLPPQVKEAVLSSFPHYGHAGIIESARELYTKLEGQPIHQD KSELMTAGFLSSLLGAGCECDGYNIEIVGHSLGGAVAALLGIRLYKQFPKLHVFTYGAAP CVDFVIADACSQFVTSIVHNDEFSSRLSMNSVIRLRGAAIKALSKDTSPNSTKVGKLVSG FTSIKGHDEQCDVVQFAAPGALQTVSDAKLSNGQIYGKSVMHTVRGGVFLFGQAISCLVN TPKHRISSTAAIKYELGRSRTTLTYNGEKLTVASHGVLDGAPSGEPSDAYRDGKFPEAGL DESGSSYRLPHSNDGTELSPAPDHICTTSLSEGQSPEVYLPGLIIHIVPIKNGTSPSRKT LVTRHKNKSYKAFVANRQDFMDLVVTPRMFLDHLPWRCHYGMQRVIERRNRNQPIRNSST GEDSV