- Transcript BART1_0-u52907.008
- Transcript IDBART1_0-u52907.008
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305302829 | 305302251 | - |
| chr7H | 2 | 305303613 | 305303578 | - |
| chr7H | 3 | 305303888 | 305303817 | - |
| chr7H | 4 | 305304132 | 305303990 | - |
| chr7H | 5 | 305304585 | 305304317 | - |
| chr7H | 6 | 305305059 | 305304860 | - |
| chr7H | 7 | 305305504 | 305305214 | - |
| chr7H | 8 | 305306741 | 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 | 0.259787 | 1.94887 | 0.21818 |
| morex | LEA | 1.54924 | 0 | 2.68497 |
| morex | EPI | 7.69576 | 3.92161 | 8.24966 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.605742 | 0.687256 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0.536628 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0.0000000238899 | 0 |
| morex | LEM | 1.63258 | 0.687162 | 1.25276 |
| morex | LOD | 0.341483 | 0.241145 | 0.0177164 |
| morex | PAL | 0 | 0 | 0.827522 |
| morex | SEN | 3.96714 | 2.26743 | 2.83372 |
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 | 714 | 354/427 (83%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.1 @ TAIR |
+2 | 0.0 | 618 | 307/427 (72%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437 |
| BRACH PP3 | Bradi3g34940.1.p | +2 | 0.0 | 753 | 374/427 (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 (1849 bp)
>BART1_0-u52907.008 1849 150831_barley_pseudomolecules CATCTCCTCCACCAATCGCAACCCGCCCCCCGCTCCTATGGCTCCATATTTTGTCCGGCC TTATCCACATCCCGAAACCACCACCAGCTCCTCCGCTTCCATCGTTTTTCCTACCACCAA CGCCCGCTTCACCGGAACCGTACCCCCACCCAACCGCATGGCCGCGGCGCTCGCCTCCTC CCGCTGCTGCCGCCGCCCTTCGCTTCTTAACAGTGATCGTCGCCGCCGCTCCGTCGTCCG GTGCGCGCTCTCCGGCGAGAAAGGAAACTCATTTAGCTGGAACAAATGTGCAATTTCTAT AGCATTGTCTGTTGGATTAATTACTTGCCCACCAACATTTGGATGGTCGGCCCATGCTTT TCCGCTCGAACCTGTAATCCCTGATATTTCAGTTCTGATTTCTGGACCTCCCATTAAAGA TCCAGGGGCTTTGTTGAGATATGCTTTGCCCATAGATAATAAAGCTATTCGTGAAGTTCA AAAACCGTTAGAGGATATCACCGATAGTCTCAAAGTTTCTGGTGTTAGAGCGTTGGATTC AGTTGAAAGAAATGTGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAGTTTAATACT TACTGGTCTTGCTGAATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAAATTAGCTGT TGGACTTGAAGAGCTTCAACGAATTATTGAGGATAGAAACAGGAATGCGGTAGCTCCAAA GCAGAAAGAGCTTCTCAATTATGTTGGAATCTGAGATCTTCCTGGGACATTGCATTTCTG CAGTGTAGAAGAAGATATGGTCGATGGCTTCCCCTATGAAGTACCAGAAGAATACAACAA TATGCCTCTTCTTAAAGGAAGAGCTACTGTGGATATGACGGTTAAGATTAAAGATAATCC AAACGTAGAAGATTGTGTATTTCGGATAGTTCTGGATGGATATAATGCTCCTGTGACTTC TGGGAACTTCGTAGATCTGGTGGAACGGAAGTTCTATGATGGCATGGAAATCCAAAGAGC TGATGGTTTTGTTGTTCAGACGGGAGATCCTGAGGGGCCAGCCGACGGTTTTATTGATCC CAGTACTGGCAAGAGTCGTACCATACCTCTTGAGATAATGGTTGATGGTGACAAGGCGCC TATATACGGTGAAACACTTGAGGAACTTGGCCTTTACAAGGCTCAAACAAAGCTTCCTTT TAATGCATTTGGAACGATGGCAATGGCTAGAGAATTGGATTATTCTTCGGAGGTTAAACT TCAATAACGGGAATTTGATGACAACTCCGCTTCTAGTCAAGTCTTCTGGCTCTTGAAAGA AAGTGAGTTGACGCCAAGTAATTCCAATATATTGGATGGGCGGTATTCGGTGTTTGGATA CGTAACCGAGAATGAGGATTTCTTGGCTGATCTCAAGGTGGGGGACGTTATTGAATCAAT CCAGGTTGTCTCAGGCCTAGACAATCTTGTCAACCCGAGCTACAAGATTGTAGGGTAGCA TGTTTCCGTATATAAGAATTCCTTGACATGCAATTATTTTACGGTATTAAAACCGATGTC TTGTGCTGGAATTTCTAACCTTGTACCATTGTTTTGTTTTCCTTTTTGTGCTTACATATA CTCCCTCCGATCCTAAATATAAGTCTTTTTAGAGATTTCACTAAAGGATTACATATGATG CAAAATGAGTGAATCTACACTTTAAATTATGTCTACATACATCCGTATGTAGTTTTCTAG TGGAACCTTTAAAAAGACATGTATTTAGAAACGGAGGGAGTAGTTTTGCATTATGTGGAA TTCGATAGATAATGGAAAGAACAAAGTTATTTACCGTAATCAGTTTCCT
Protein Sequence (238 aa)
>BART1_0-u52907.008 238 150831_barley_pseudomolecules MAPYFVRPYPHPETTTSSSASIVFPTTNARFTGTVPPPNRMAAALASSRCCRRPSLLNSD RRRRSVVRCALSGEKGNSFSWNKCAISIALSVGLITCPPTFGWSAHAFPLEPVIPDISVL ISGPPIKDPGALLRYALPIDNKAIREVQKPLEDITDSLKVSGVRALDSVERNVRQASRAL TNGRSLILTGLAESKRENGEKILDKLAVGLEELQRIIEDRNRNAVAPKQKELLNYVGI