- Transcript BART1_0-u23592.005
- Transcript IDBART1_0-u23592.005
- Gene IDBART1_0-u23592
Barley RTD
Exon Structure of BART1_0-u23592.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 627472849 | 627472790 | + |
| 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 | 627478253 | 627478099 | + |
| chr3H | 9 | 627479059 | 627478932 | + |
| chr3H | 10 | 627479367 | 627479237 | + |
| chr3H | 11 | 627479958 | 627479919 | + |
| chr3H | 12 | 627480848 | 627480066 | + |
| chr3H | 13 | 627481745 | 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 | 0.000771 | 0.0018147 | 0.00194853 |
| morex | LEA | 0.00000467578 | 0 | 0 |
| morex | EPI | 0.000000223145 | 0.0000784784 | 0.678915 |
| morex | ROO | 1.52263 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.0391768 | 0.000481281 | 0 |
| morex | RAC | 0.00066322 | 0.00000194697 | 0 |
| morex | INF1 | 0.000198337 | 0 | 0 |
| morex | INF2 | 0 | 0.000487451 | 0.0101986 |
| morex | CAR5 | 1.2612 | 0 | 0 |
| morex | CAR15 | 2.79355 | 0.000806324 | 0.00146809 |
| morex | LEM | 0.00000147418 | 0.000570387 | 0.0495738 |
| morex | LOD | 0 | 0.000000000256122 | 0.00251186 |
| morex | PAL | 0.000148709 | 0.00000000226425 | 0.000930401 |
| morex | SEN | 0.00195962 | 0.0000290476 | 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 | 385 | 197/294 (67%) | protein|lipase, putative, expressed |
| TAIR PP10 | AT1G05790 @ ARAPORT AT1G05790.1 @ TAIR |
+3 | 1e-112 | 217 | 104/174 (60%) | Symbols: | lipase class 3 family protein | chr1:1733039-1737365 FORWARD LENGTH=687 |
| BRACH PP3 | Bradi2g57770.4.p | +2 | 0.0 | 413 | 215/305 (70%) | 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 (2552 bp)
>BART1_0-u23592.005 2552 150831_barley_pseudomolecules GCCGCCGGCGCCATCGGGGCGCACGTCGACAGCGACCGCGACCTCCGGCATCTCTCGCGG CTACGATACAATAGATGGCTTTGGTGGGCAAGGTTTGGGATGGTAATTACAGTGCTCCAA TTTGTGCTGGCACTTTATTTGATGTGCATTATTGTAAAGGATTTCTCATCTGGGAAGTCG TTGAAAGAGTGTTTTTCAGGACACGGCAAGGACAACAATGACTGGAAGAATATCTTGTTA ATAATTTTTCTTGTTCTTATGTGGGTGGGAACAATAGTCCAGTGTGCCACAGGTTCCGAT GTATTAAGATGGAGGTCCTTTTATGCAACTCATGATATAGCATGGAGGGCTCACTACAGG GAGGTGTTTGATCATGGCATTCGTGAGGTTTTATGTTGTCTAGGACGGGTGAAGTACTCG AGTGTACTGGAAGATGATGATATATGTGTCGTGGCAAAACTGTTGGGCGATATTATGGCT TATCGTGCATCTGGAACTGGCCATCTTGAGCTCATAGCAGGGTTTTCATTGTTGCAGAAA TCCAAGATGTCGACGGTTGTTTCAAGAGAACAAGCAGAGGCTCCTCATGATCTCATCCAA GAGGCTATTCTGTTTCATCCATTTGCTGAAGCTGCATATACAGGTCCGTTACTTGATTTT GGAAGGAATCCTCTTATGTTTCCCTGTGTTTGGCTCAATAGGCAAGACGACCAATCCTTG AAGGAGATAATTGGTGGAGAGGGCATGCAGCGGCTTTCCTAAAGTATGTCAATGTGCCCC CAGAAGTTCTTCGGAAAGGGCGTGTTAGCCAGACAAAACGTGAGGCTGCCTACTTTATTA TTGTCTTACATGACTTGAAAACAGTAGTCATTGCCATTCGTGGAACCGAGACTCCAGAAG ATGTTATAACCGATGGCTTATGTAGGGAATGCTCTCTTACGATGGATGACTTGGATGGGC TGGTCAATTCTGATCAGTTACCCCCTCAAGTGAAGGAGGCTGTGCTCTCGTCTTTTCCAC ACTATGGACATGCGGGAATTATTGAATCAGCTCGAGAATTGTACACAAAGCTTGAAGGGC AGCCCATTCATCAAGATAAGTCAGAGCTGATGACAGCTGGGTTCTTATCTTCGCTGCTCG GAGCTGGATGTGAGTGTGATGGATACAATATTGAAATTGTTGGACATTCTTTAGGAGGTG CTGTAGCTGCACTTCTTGGTATTAGGATTTCGTGATAGCAGATGCATGCTCACAGTTTGT TACCAGCATTGTCCACAACGATGAATTTTCCTCAAGATTATCCATGAATTCGGTAATTAG ATTACGTGGCGCTGCTATCAAAGCTCTATCAAAGGATACTTCGCCAAATTCTACTAAAGT TGGCAAACTAGTGAGTGGCTTCACGAGCATCAAAGGGCATGATGAACAATGCGATGTGGT TCAATTTGCTGCTCCTGGTGCTCTTCAGACAGTCAGCGATGCAAAGCTAAGTAACGGTCA AATCTATGGAAAGAGTGTAATGCATACAGTTAGAGGTGGTGTGTTCCTCTTTGGTCAAGC AATATCTTGCTTGGTAAATACTCCAAAGCATAGAATTAGCTCCACTGCGGCAATTAAGTA CGAGTTGGGGCGATCTAGAACAACGTTAACCTATAATGGAGAAAAATTGACTGTTGCTTC CCATGGTGTTCTGGATGGTGCACCTTCTGGAGAACCTAGCGATGCATACCGAGATGGCAA GTTTCCAGAAGCTGGCTTGGATGAATCCGGAAGTAGTTACAGGTTACCTCATTCAAATGA TGGTACTGAGCTCTCACCTGCTCCTGATCACATCTGTACAACAAGTTTATCTGAAGGGCA GTCGCCAGAGGTGTACCTCCCTGGCCTCATTATTCATATCGTTCCCATAAAAAATGGTAC CTCTCCATCACGGAAGACACTTGTGACTCGTCACAAGAACAAGAGTTATAAAGCATTTGT AGCAAATCGGCAGGACTTTATGGACCTTGTTGTGACCCCTCGCATGTTCCTTGATCATCT CCCATGGAGGTGCCACTATGGCATGCAAAGGGTTATAGAAAGACGGAACCGGAACCAGCC CATTCGCAATTCATCCACCGGAGAGGATTCTGTCTAACTGAAAACTGTTAGGCTGGTACA AATGTATCATTATTCAGCTTGACCTCTTCCTTGTTTCTTCTGTACATATACAAGTTATGG AGATATGATCATGTGCTCTTCACATACTTAATTTAGGAAGGTGTAGAAGAAGCAAGGGCC GAAACGAGCCTTGAGTGCATCCTGATGAGCATTACTTGACCTCACCATTGTTGTATTCAG CTTTCCTGGTAGCTAGGGCAGCTCTTATATATACACCATCGGTCAACGAAGACCGGCTTC TTTGTTTTATGACAAGCTTGTACTACTAAATTAAATCCTCTGGTGTCAAACTTTTGCTTC GAGCAGTGTTGTAACTTTGACACCAGCACATGTAAGTTAACGCTGTAAAATCCGAACTGC CATGAATTCATGGATAGAAAACAATATACAAG
Protein Sequence (277 aa)
>BART1_0-u23592.005 277 150831_barley_pseudomolecules MNSVIRLRGAAIKALSKDTSPNSTKVGKLVSGFTSIKGHDEQCDVVQFAAPGALQTVSDA KLSNGQIYGKSVMHTVRGGVFLFGQAISCLVNTPKHRISSTAAIKYELGRSRTTLTYNGE KLTVASHGVLDGAPSGEPSDAYRDGKFPEAGLDESGSSYRLPHSNDGTELSPAPDHICTT SLSEGQSPEVYLPGLIIHIVPIKNGTSPSRKTLVTRHKNKSYKAFVANRQDFMDLVVTPR MFLDHLPWRCHYGMQRVIERRNRNQPIRNSSTGEDSV