- Transcript BART1_0-u52907.002
- Transcript IDBART1_0-u52907.002
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305302829 | 305302146 | - |
| chr7H | 2 | 305303888 | 305303817 | - |
| chr7H | 3 | 305304132 | 305303990 | - |
| chr7H | 4 | 305304552 | 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 | 26.128 | 20.951 | 24.2397 |
| morex | ETI | 108.615 | 111.394 | 75.8128 |
| morex | LEA | 63.6211 | 77.2628 | 87.8671 |
| morex | EPI | 147.171 | 85.3697 | 134.5 |
| morex | ROO | 3.32066 | 3.08875 | 0.871591 |
| morex | ROO2 | 3.77433 | 5.18644 | 3.73113 |
| morex | NOD | 84.6003 | 45.5384 | 27.4757 |
| morex | RAC | 28.8502 | 25.2452 | 25.2335 |
| morex | INF1 | 27.4005 | 24.5981 | 13.6763 |
| morex | INF2 | 8.24232 | 10.5166 | 12.7114 |
| morex | CAR5 | 31.8817 | 29.0155 | 30.6571 |
| morex | CAR15 | 1.89127 | 2.9958 | 1.13486 |
| morex | LEM | 53.6359 | 52.0872 | 74.9284 |
| morex | LOD | 11.9638 | 16.4292 | 11.0509 |
| morex | PAL | 60.8671 | 73.605 | 78.4513 |
| morex | SEN | 108.313 | 94.1574 | 93.6879 |
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 | 730 | 354/404 (88%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.1 @ TAIR |
+2 | 0.0 | 634 | 307/404 (76%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437 |
| BRACH PP3 | Bradi3g34940.1.p | +2 | 0.0 | 769 | 374/404 (93%) | 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 (1954 bp)
>BART1_0-u52907.002 1954 150831_barley_pseudomolecules AACTCATACAGTATATTTTTCGAACGGAGGTTGTATAAGTTAGTCTTATCTATGTCTTTT TGACCTCAGCATCTCCTCCACCAATCGCAACCCGCCCCCCGCTCCTATGGCTCCATATTT TGTCCGGCCTTATCCACATCCCGAAACCACCACCAGCTCCTCCGCTTCCATCGTTTTTCC TACCACCAACGCCCGCTTCACCGGAACCGTACCCCCACCCAACCGCATGGCCGCGGCGCT CGCCTCCTCCCGCTGCTGCCGCCGCCCTTCGCTTCTTAACAGTGATCGTCGCCGCCGCTC CGTCGTCCGGTGCGCGCTCTCCGGCGAGAAAGGAAACTCATTTAGCTGGAACAAATGTGC AATTTCTATAGCATTGTCTGTTGGATTAATTACTTGCCCACCAACATTTGGATGGTCGGC CCATGCTTTTCCGCTCGAACCTGTAATCCCTGATATTTCAGTTCTGATTTCTGGACCTCC CATTAAAGATCCAGGGGCTTTGTTGAGATATGCTTTGCCCATAGATAATAAAGCTATTCG TGAAGTTCAAAAACCGTTAGAGGATATCACCGATAGTCTCAAAGTTTCTGGTGTTAGAGC GTTGGATTCAGTTGAAAGAAATGTGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAG TTTAATACTTACTGGTCTTGCTGAATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAA ATTAGCTGTTGGACTTGAAGAGCTTCAACGAATTATTGAGGATAGAAACAGGAATGCGGT AGCTCCAAAGCAGAAAGAGCTTCTCAATTATGTTGGAATTGTAGAAGAAGATATGGTCGA TGGCTTCCCCTATGAAGTACCAGAAGAATACAACAATATGCCTCTTCTTAAAGGAAGAGC TACTGTGGATATGACGGTTAAGATTAAAGATAATCCAAACGTAGAAGATTGTGTATTTCG GATAGTTCTGGATGGATATAATGCTCCTGTGACTTCTGGGAACTTCGTAGATCTGGTGGA ACGGAAGTTCTATGATGGCATGGAAATCCAAAGAGCTGATGGTTTTGTTGTTCAGACGGG AGATCCTGAGGGGCCAGCCGACGGTTTTATTGATCCCAGTACTGGCAAGAGTCGTACCAT ACCTCTTGAGATAATGGTTGATGGTGACAAGGCGCCTATATACGGTGAAACACTTGAGGA ACTTGGCCTTTACAAGGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAACGATGGCAAT GGCTAGAGAAGAATTTGATGACAACTCCGCTTCTAGTCAAGTCTTCTGGCTCTTGAAAGA AAGTGAGTTGACGCCAAGTAATTCCAATATATTGGATGGGCGGTATTCGGTGTTTGGATA CGTAACCGAGAATGAGGATTTCTTGGCTGATCTCAAGGTGGGGGACGTTATTGAATCAAT CCAGGTTGTCTCAGGCCTAGACAATCTTGTCAACCCGAGCTACAAGATTGTAGGGTAGCA TGTTTCCGTATATAAGAATTCCTTGACATGCAATTATTTTACGGTATTAAAACCGATGTC TTGTGCTGGAATTTCTAACCTTGTACCATTGTTTTGTTTTCCTTTTTGTGCTTACATATA CTCCCTCCGATCCTAAATATAAGTCTTTTTAGAGATTTCACTAAAGGATTACATATGATG CAAAATGAGTGAATCTACACTTTAAATTATGTCTACATACATCCGTATGTAGTTTTCTAG TGGAACCTTTAAAAAGACATGTATTTAGAAACGGAGGGAGTAGTTTTGCATTATGTGGAA TTCGATAGATAATGGAAAGAACAAAGTTATTTACCGTAATCAGTTTCCTCGATAAACTAT GCGACATCCCGTTTGTATGGCCTCAATAGCATTTTGCAGAGATTTCTGCAATTTTCTTGG GGATTGTGTTAAATTGACTTATATTACTCCTAGG
Protein Sequence (463 aa)
>BART1_0-u52907.002 463 150831_barley_pseudomolecules MAPYFVRPYPHPETTTSSSASIVFPTTNARFTGTVPPPNRMAAALASSRCCRRPSLLNSD RRRRSVVRCALSGEKGNSFSWNKCAISIALSVGLITCPPTFGWSAHAFPLEPVIPDISVL ISGPPIKDPGALLRYALPIDNKAIREVQKPLEDITDSLKVSGVRALDSVERNVRQASRAL TNGRSLILTGLAESKRENGEKILDKLAVGLEELQRIIEDRNRNAVAPKQKELLNYVGIVE EDMVDGFPYEVPEEYNNMPLLKGRATVDMTVKIKDNPNVEDCVFRIVLDGYNAPVTSGNF VDLVERKFYDGMEIQRADGFVVQTGDPEGPADGFIDPSTGKSRTIPLEIMVDGDKAPIYG ETLEELGLYKAQTKLPFNAFGTMAMAREEFDDNSASSQVFWLLKESELTPSNSNILDGRY SVFGYVTENEDFLADLKVGDVIESIQVVSGLDNLVNPSYKIVG