- Transcript BART1_0-u52907.007
- Transcript IDBART1_0-u52907.007
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305302829 | 305302251 | - |
| chr7H | 2 | 305303910 | 305303817 | - |
| chr7H | 3 | 305304132 | 305303990 | - |
| chr7H | 4 | 305304585 | 305304317 | - |
| chr7H | 5 | 305305059 | 305304860 | - |
| chr7H | 6 | 305305504 | 305305214 | - |
| chr7H | 7 | 305306713 | 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 | 0 | 0 | 0 |
| morex | ETI | 0 | 0.459939 | 0.803723 |
| morex | LEA | 0 | 0 | 3.81403 |
| morex | EPI | 0 | 1.01495 | 1.0763 |
| morex | ROO | 0 | 0.481652 | 0 |
| morex | ROO2 | 0.320214 | 0 | 0 |
| morex | NOD | 0 | 0.658575 | 0.805989 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0.879683 | 0 | 1.94245 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0.749446 | 0 | 0 |
| morex | SEN | 0 | 0.764632 | 1.03867 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g29370.1 | +1 | 0.0 | 531 | 261/315 (83%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.2 @ TAIR |
+1 | 2e-154 | 447 | 220/316 (70%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190252 FORWARD LENGTH=355 |
| BRACH PP3 | Bradi3g34940.1.p | +1 | 0.0 | 566 | 278/315 (88%) | 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 (1807 bp)
>BART1_0-u52907.007 1807 150831_barley_pseudomolecules CCCGCTCCTATGGCTCCATATTTTGTCCGGCCTTATCCACATCCCGAAACCACCACCAGC TCCTCCGCTTCCATCGTTTTTCCTACCACCAACGCCCGCTTCACCGGAACCGTACCCCCA CCCAACCGCATGGCCGCGGCGCTCGCCTCCTCCCGCTGCTGCCGCCGCCCTTCGCTTCTT AACAGTGATCGTCGCCGCCGCTCCGTCGTCCGGTGCGCGCTCTCCGGCGAGAAAGGAAAC TCATTTAGCTGGAACAAATGTGCAATTTCTATAGCATTGTCTGTTGGATTAATTACTTGC CCACCAACATTTGGATGGTCGGCCCATGCTTTTCCGCTCGAACCTGTAATCCCTGATATT TCAGTTCTGATTTCTGGACCTCCCATTAAAGATCCAGGGGCTTTGTTGAGATATGCTTTG CCCATAGATAATAAAGCTATTCGTGAAGTTCAAAAACCGTTAGAGGATATCACCGATAGT CTCAAAGTTTCTGGTGTTAGAGCGTTGGATTCAGTTGAAAGAAATGTGAGGCAGGCCTCG AGAGCGCTGACTAATGGGAGGAGTTTAATACTTACTGGTCTTGCTGAATCAAAAAGAGAA AATGGAGAAAAAATATTGGATAAATTAGCTGTTGGACTTGAAGAGCTTCAACGAATTATT GAGGATAGAAACAGGAATGCGGTAGCTCCAAAGCAGAAAGAGCTTCTCAATTATGTTGGA ATCTGAGATCTTCCTGGGACATTGCATTTCTGCAGTGTAGAAGAAGATATGGTCGATGGC TTCCCCTATGAAGTACCAGAAGAATACAACAATATGCCTCTTCTTAAAGGAAGAGCTACT GTGGATATGACGGTTAAGATTAAAGATAATCCAAACGTAGAAGATTGTGTATTTCGGATA GTTCTGGATGGATATAATGCTCCTGTGACTTCTGGGAACTTCGTAGATCTGGTGGAACGG AAGTTCTATGATGGCATGGAAATCCAAAGAGCTGATGGTTTTGTTGTTCAGACGGGAGAT CCTGAGGGGCCAGCCGACGGTTTTATTGATCCCAGTACTGGCAAGAGTCGTACCATACCT CTTGAGATAATGGTTGATGGTGACAAGGCGCCTATATACGGTGAAACACTTGAGTTTGTA TGGCCATGCATTTCAGGAACTTGGCCTTTACAAGGCTCAAACAAAGCTTCCTTTTAATGC ATTTGGAACGATGGCAATGGCTAGAGAAGAATTTGATGACAACTCCGCTTCTAGTCAAGT CTTCTGGCTCTTGAAAGAAAGTGAGTTGACGCCAAGTAATTCCAATATATTGGATGGGCG GTATTCGGTGTTTGGATACGTAACCGAGAATGAGGATTTCTTGGCTGATCTCAAGGTGGG GGACGTTATTGAATCAATCCAGGTTGTCTCAGGCCTAGACAATCTTGTCAACCCGAGCTA CAAGATTGTAGGGTAGCATGTTTCCGTATATAAGAATTCCTTGACATGCAATTATTTTAC GGTATTAAAACCGATGTCTTGTGCTGGAATTTCTAACCTTGTACCATTGTTTTGTTTTCC TTTTTGTGCTTACATATACTCCCTCCGATCCTAAATATAAGTCTTTTTAGAGATTTCACT AAAGGATTACATATGATGCAAAATGAGTGAATCTACACTTTAAATTATGTCTACATACAT CCGTATGTAGTTTTCTAGTGGAACCTTTAAAAAGACATGTATTTAGAAACGGAGGGAGTA GTTTTGCATTATGTGGAATTCGATAGATAATGGAAAGAACAAAGTTATTTACCGTAATCA GTTTCCT
Protein Sequence (241 aa)
>BART1_0-u52907.007 241 150831_barley_pseudomolecules PAPMAPYFVRPYPHPETTTSSSASIVFPTTNARFTGTVPPPNRMAAALASSRCCRRPSLL NSDRRRRSVVRCALSGEKGNSFSWNKCAISIALSVGLITCPPTFGWSAHAFPLEPVIPDI SVLISGPPIKDPGALLRYALPIDNKAIREVQKPLEDITDSLKVSGVRALDSVERNVRQAS RALTNGRSLILTGLAESKRENGEKILDKLAVGLEELQRIIEDRNRNAVAPKQKELLNYVG I