- Transcript BART1_0-u52907.001
- Transcript IDBART1_0-u52907.001
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305302829 | 305302065 | - |
| chr7H | 2 | 305303888 | 305303817 | - |
| chr7H | 3 | 305304132 | 305303990 | - |
| chr7H | 4 | 305304585 | 305304317 | - |
| chr7H | 5 | 305305059 | 305304860 | - |
| chr7H | 6 | 305305504 | 305305214 | - |
| chr7H | 7 | 305306810 | 305306483 | - |
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 | 1.30779 | 0 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0.867585 | 0.093355 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0.00589122 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0.572372 |
| 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_Os08g29370.1 | +2 | 0.0 | 723 | 354/415 (85%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.1 @ TAIR |
+2 | 0.0 | 627 | 307/415 (74%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437 |
| BRACH PP3 | Bradi3g34940.1.p | +2 | 0.0 | 761 | 374/415 (90%) | pacid=32818759 transcript=Bradi3g34940.1 locus=Bradi3g34940 ID=Bradi3g34940.1.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 (2068 bp)
>BART1_0-u52907.001 2068 150831_barley_pseudomolecules AACTCATACAGTATATTTTTCGAACGGAGGTTGTATAAGTTAGTCTTATCTATGTCTTTT TGACCTCAGCATCTCCTCCACCAATCGCAACCCGCCCCCCGCTCCTATGGCTCCATATTT TGTCCGGCCTTATCCACATCCCGAAACCACCACCAGCTCCTCCGCTTCCATCGTTTTTCC TACCACCAACGCCCGCTTCACCGGAACCGTACCCCCACCCAACCGCATGGCCGCGGCGCT CGCCTCCTCCCGCTGCTGCCGCCGCCCTTCGCTTCTTAACAGTGATCGTCGCCGCCGCTC CGTCGTCCGGTGCGCGCTCTCCGGCGAGAAAGGAAACTCATTTAGCTGGAACAAATGTGC AATTTCTATAGCATTGTCTGTTGGATTAATTACTTGCCCACCAACATTTGGATGGTCGGC CCATGCTTTTCCGCTCGAACCTGTAATCCCTGATATTTCAGTTCTGATTTCTGGACCTCC CATTAAAGATCCAGGGGCTTTGTTGAGATATGCTTTGCCCATAGATAATAAAGCTATTCG TGAAGTTCAAAAACCGTTAGAGGATATCACCGATAGTCTCAAAGTTTCTGGTGTTAGAGC GTTGGATTCAGTTGAAAGAAATGTGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAG TTTAATACTTACTGGTCTTGCTGAATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAA ATTAGCTGTTGGACTTGAAGAGCTTCAACGAATTATTGAGGATAGAAACAGGAATGCGGT AGCTCCAAAGCAGAAAGAGCTTCTCAATTATGTTGGAATCTGAGATCTTCCTGGGACATT GCATTTCTGCAGTGTAGAAGAAGATATGGTCGATGGCTTCCCCTATGAAGTACCAGAAGA ATACAACAATATGCCTCTTCTTAAAGGAAGAGCTACTGTGGATATGACGGTTAAGATTAA AGATAATCCAAACGTAGAAGATTGTGTATTTCGGATAGTTCTGGATGGATATAATGCTCC TGTGACTTCTGGGAACTTCGTAGATCTGGTGGAACGGAAGTTCTATGATGGCATGGAAAT CCAAAGAGCTGATGGTTTTGTTGTTCAGACGGGAGATCCTGAGGGGCCAGCCGACGGTTT TATTGATCCCAGTACTGGCAAGAGTCGTACCATACCTCTTGAGATAATGGTTGATGGTGA CAAGGCGCCTATATACGGTGAAACACTTGAGGAACTTGGCCTTTACAAGGCTCAAACAAA GCTTCCTTTTAATGCATTTGGAACGATGGCAATGGCTAGAGAAGAATTTGATGACAACTC CGCTTCTAGTCAAGTCTTCTGGCTCTTGAAAGAAAGTGAGTTGACGCCAAGTAATTCCAA TATATTGGATGGGCGGTATTCGGTGTTTGGATACGTAACCGAGAATGAGGATTTCTTGGC TGATCTCAAGGTGGGGGACGTTATTGAATCAATCCAGGTTGTCTCAGGCCTAGACAATCT TGTCAACCCGAGCTACAAGATTGTAGGGTAGCATGTTTCCGTATATAAGAATTCCTTGAC ATGCAATTATTTTACGGTATTAAAACCGATGTCTTGTGCTGGAATTTCTAACCTTGTACC ATTGTTTTGTTTTCCTTTTTGTGCTTACATATACTCCCTCCGATCCTAAATATAAGTCTT TTTAGAGATTTCACTAAAGGATTACATATGATGCAAAATGAGTGAATCTACACTTTAAAT TATGTCTACATACATCCGTATGTAGTTTTCTAGTGGAACCTTTAAAAAGACATGTATTTA GAAACGGAGGGAGTAGTTTTGCATTATGTGGAATTCGATAGATAATGGAAAGAACAAAGT TATTTACCGTAATCAGTTTCCTCGATAAACTATGCGACATCCCGTTTGTATGGCCTCAAT AGCATTTTGCAGAGATTTCTGCAATTTTCTTGGGGATTGTGTTAAATTGACTTATATTAC TCCTAGGTAAGCATGTAGGCACATACTACAAAGGGACCCATCAAAAAAGTAAAATTACAA CCCAATCCAAATATTATGCAAACAAGAC
Protein Sequence (238 aa)
>BART1_0-u52907.001 238 150831_barley_pseudomolecules MAPYFVRPYPHPETTTSSSASIVFPTTNARFTGTVPPPNRMAAALASSRCCRRPSLLNSD RRRRSVVRCALSGEKGNSFSWNKCAISIALSVGLITCPPTFGWSAHAFPLEPVIPDISVL ISGPPIKDPGALLRYALPIDNKAIREVQKPLEDITDSLKVSGVRALDSVERNVRQASRAL TNGRSLILTGLAESKRENGEKILDKLAVGLEELQRIIEDRNRNAVAPKQKELLNYVGI