- Transcript BART1_0-u52907.006
- Transcript IDBART1_0-u52907.006
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305302829 | 305302249 | - |
| chr7H | 2 | 305303888 | 305303524 | - |
| chr7H | 3 | 305304132 | 305303990 | - |
| chr7H | 4 | 305304585 | 305304317 | - |
| chr7H | 5 | 305305059 | 305304860 | - |
| chr7H | 6 | 305305504 | 305305214 | - |
| chr7H | 7 | 305306736 | 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 | 0.000765789 | 0.00000000208047 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0.000010851 | 2.42331 | 1.44129 |
| morex | EPI | 0.401011 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0.182538 | 0.337843 | 0.0866648 |
| morex | NOD | 0.816005 | 0 | 0 |
| morex | RAC | 0 | 0.000252378 | 0.589781 |
| morex | INF1 | 0 | 0.586153 | 0 |
| morex | INF2 | 0 | 0.0383289 | 0 |
| morex | CAR5 | 0.557257 | 0.644104 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0.476557 |
| 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 | +3 | 0.0 | 577 | 283/339 (83%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.1 @ TAIR |
+3 | 9e-169 | 491 | 241/340 (71%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437 |
| BRACH PP3 | Bradi3g34940.1.p | +3 | 0.0 | 613 | 301/339 (89%) | 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 (2103 bp)
>BART1_0-u52907.006 2103 150831_barley_pseudomolecules CCTCCACCAATCGCAACCCGCCCCCCGCTCCTATGGCTCCATATTTTGTCCGGCCTTATC CACATCCCGAAACCACCACCAGCTCCTCCGCTTCCATCGTTTTTCCTACCACCAACGCCC GCTTCACCGGAACCGTACCCCCACCCAACCGCATGGCCGCGGCGCTCGCCTCCTCCCGCT GCTGCCGCCGCCCTTCGCTTCTTAACAGTGATCGTCGCCGCCGCTCCGTCGTCCGGTGCG CGCTCTCCGGCGAGAAAGGAAACTCATTTAGCTGGAACAAATGTGCAATTTCTATAGCAT TGTCTGTTGGATTAATTACTTGCCCACCAACATTTGGATGGTCGGCCCATGCTTTTCCGC TCGAACCTGTAATCCCTGATATTTCAGTTCTGATTTCTGGACCTCCCATTAAAGATCCAG GGGCTTTGTTGAGATATGCTTTGCCCATAGATAATAAAGCTATTCGTGAAGTTCAAAAAC CGTTAGAGGATATCACCGATAGTCTCAAAGTTTCTGGTGTTAGAGCGTTGGATTCAGTTG AAAGAAATGTGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAGTTTAATACTTACTG GTCTTGCTGAATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAAATTAGCTGTTGGAC TTGAAGAGCTTCAACGAATTATTGAGGATAGAAACAGGAATGCGGTAGCTCCAAAGCAGA AAGAGCTTCTCAATTATGTTGGAATCTGAGATCTTCCTGGGACATTGCATTTCTGCAGTG TAGAAGAAGATATGGTCGATGGCTTCCCCTATGAAGTACCAGAAGAATACAACAATATGC CTCTTCTTAAAGGAAGAGCTACTGTGGATATGACGGTTAAGATTAAAGATAATCCAAACG TAGAAGATTGTGTATTTCGGATAGTTCTGGATGGATATAATGCTCCTGTGACTTCTGGGA ACTTCGTAGATCTGGTGGAACGGAAGTTCTATGATGGCATGGAAATCCAAAGAGCTGATG GTTTTGTTGTTCAGACGGGAGATCCTGAGGGGCCAGCCGACGGTTTTATTGATCCCAGTA CTGGCAAGAGTCGTACCATACCTCTTGAGATAATGGTTGATGGTGACAAGGCGCCTATAT ACGGTGAAACACTTGAGGAACTTGGCCTTTACAAGGCTCAAACAAAGCTTCCTTTTAATG CATTTGGAACGATGGCAATGGCTAGAGAAGTAAGGCTCACCTAGACTCTTTAGTTTTAAC ATATCAAGGATATGCCAAAATAATTATTACATCCTCCAGAAATATAAAGTGCACATGCTT CCCCAAATTTATCGTTGATCACGAATTTGTTCAGCAATATGTGATACAAAGTTGATACTC CCTCTGTCCCATAATATAAGATGTTAATACAACCATATTGGTTCATTTATAGTTGGATTA TTCTTCGGAGGTTAAACTTCAATAACGGGTACGTCTTATGTTTCTGGATGGAGGGAGTAA CATTTTCTTAGTTGTAACCAAGGAATTTGATGACAACTCCGCTTCTAGTCAAGTCTTCTG GCTCTTGAAAGAAAGTGAGTTGACGCCAAGTAATTCCAATATATTGGATGGGCGGTATTC GGTGTTTGGATACGTAACCGAGAATGAGGATTTCTTGGCTGATCTCAAGGTGGGGGACGT TATTGAATCAATCCAGGTTGTCTCAGGCCTAGACAATCTTGTCAACCCGAGCTACAAGAT TGTAGGGTAGCATGTTTCCGTATATAAGAATTCCTTGACATGCAATTATTTTACGGTATT AAAACCGATGTCTTGTGCTGGAATTTCTAACCTTGTACCATTGTTTTGTTTTCCTTTTTG TGCTTACATATACTCCCTCCGATCCTAAATATAAGTCTTTTTAGAGATTTCACTAAAGGA TTACATATGATGCAAAATGAGTGAATCTACACTTTAAATTATGTCTACATACATCCGTAT GTAGTTTTCTAGTGGAACCTTTAAAAAGACATGTATTTAGAAACGGAGGGAGTAGTTTTG CATTATGTGGAATTCGATAGATAATGGAAAGAACAAAGTTATTTACCGTAATCAGTTTCC TCG
Protein Sequence (238 aa)
>BART1_0-u52907.006 238 150831_barley_pseudomolecules MAPYFVRPYPHPETTTSSSASIVFPTTNARFTGTVPPPNRMAAALASSRCCRRPSLLNSD RRRRSVVRCALSGEKGNSFSWNKCAISIALSVGLITCPPTFGWSAHAFPLEPVIPDISVL ISGPPIKDPGALLRYALPIDNKAIREVQKPLEDITDSLKVSGVRALDSVERNVRQASRAL TNGRSLILTGLAESKRENGEKILDKLAVGLEELQRIIEDRNRNAVAPKQKELLNYVGI