- Transcript BART1_0-u52907.010
- Transcript IDBART1_0-u52907.010
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305302903 | 305302262 | - |
| chr7H | 2 | 305303888 | 305303817 | - |
| chr7H | 3 | 305304132 | 305303990 | - |
| chr7H | 4 | 305304585 | 305304317 | - |
| chr7H | 5 | 305305059 | 305304860 | - |
| chr7H | 6 | 305305504 | 305305214 | - |
| chr7H | 7 | 305306727 | 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 | 0.916349 | 0.382861 |
| morex | ETI | 14.2979 | 9.70346 | 11.8574 |
| morex | LEA | 6.45556 | 5.30615 | 0.080338 |
| morex | EPI | 0.0000362391 | 0.00000060999 | 0.00000000110438 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0.00000625031 | 0.000000924265 |
| morex | NOD | 2.26076 | 2.87908 | 5.90914 |
| morex | RAC | 5.79703 | 1.12386 | 2.52492 |
| morex | INF1 | 5.38025 | 5.00799 | 9.38523 |
| morex | INF2 | 10.0293 | 5.34126 | 11.4684 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 7.6998 | 4.68526 | 2.18144 |
| morex | LOD | 0.242651 | 3.08136 | 3.38692 |
| morex | PAL | 3.94061 | 5.34796 | 8.21777 |
| morex | SEN | 7.60299 | 7.93539 | 5.74843 |
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 | 578 | 284/340 (84%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.1 @ TAIR |
+3 | 1e-174 | 493 | 242/341 (71%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437 |
| BRACH PP3 | Bradi3g34940.1.p | +3 | 0.0 | 615 | 302/340 (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 (1862 bp)
>BART1_0-u52907.010 1862 150831_barley_pseudomolecules ATCGCAACCCGCCCCCCGCTCCTATGGCTCCATATTTTGTCCGGCCTTATCCACATCCCG AAACCACCACCAGCTCCTCCGCTTCCATCGTTTTTCCTACCACCAACGCCCGCTTCACCG GAACCGTACCCCCACCCAACCGCATGGCCGCGGCGCTCGCCTCCTCCCGCTGCTGCCGCC GCCCTTCGCTTCTTAACAGTGATCGTCGCCGCCGCTCCGTCGTCCGGTGCGCGCTCTCCG GCGAGAAAGGAAACTCATTTAGCTGGAACAAATGTGCAATTTCTATAGCATTGTCTGTTG GATTAATTACTTGCCCACCAACATTTGGATGGTCGGCCCATGCTTTTCCGCTCGAACCTG TAATCCCTGATATTTCAGTTCTGATTTCTGGACCTCCCATTAAAGATCCAGGGGCTTTGT TGAGATATGCTTTGCCCATAGATAATAAAGCTATTCGTGAAGTTCAAAAACCGTTAGAGG ATATCACCGATAGTCTCAAAGTTTCTGGTGTTAGAGCGTTGGATTCAGTTGAAAGAAATG TGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAGTTTAATACTTACTGGTCTTGCTG AATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAAATTAGCTGTTGGACTTGAAGAGC TTCAACGAATTATTGAGGATAGAAACAGGAATGCGGTAGCTCCAAAGCAGAAAGAGCTTC TCAATTATGTTGGAATCTGAGATCTTCCTGGGACATTGCATTTCTGCAGTGTAGAAGAAG ATATGGTCGATGGCTTCCCCTATGAAGTACCAGAAGAATACAACAATATGCCTCTTCTTA AAGGAAGAGCTACTGTGGATATGACGGTTAAGATTAAAGATAATCCAAACGTAGAAGATT GTGTATTTCGGATAGTTCTGGATGGATATAATGCTCCTGTGACTTCTGGGAACTTCGTAG ATCTGGTGGAACGGAAGTTCTATGATGGCATGGAAATCCAAAGAGCTGATGGTTTTGTTG TTCAGACGGGAGATCCTGAGGGGCCAGCCGACGGTTTTATTGATCCCAGTACTGGCAAGA GTCGTACCATACCTCTTGAGATAATGGTTGATGGTGACAAGGCGCCTATATACGGTGAAA CACTTGAGGAACTTGGCCTTTACAAGGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAA CGATGGCAATGGCTAGAGAAGAGGCAGTGGAAACAAGGACCGAGAATAAAAGAAGTCCCT TGTTCTAACACAAGGCTTCTGCATATCTTGACAGGAATTTGATGACAACTCCGCTTCTAG TCAAGTCTTCTGGCTCTTGAAAGAAAGTGAGTTGACGCCAAGTAATTCCAATATATTGGA TGGGCGGTATTCGGTGTTTGGATACGTAACCGAGAATGAGGATTTCTTGGCTGATCTCAA GGTGGGGGACGTTATTGAATCAATCCAGGTTGTCTCAGGCCTAGACAATCTTGTCAACCC GAGCTACAAGATTGTAGGGTAGCATGTTTCCGTATATAAGAATTCCTTGACATGCAATTA TTTTACGGTATTAAAACCGATGTCTTGTGCTGGAATTTCTAACCTTGTACCATTGTTTTG TTTTCCTTTTTGTGCTTACATATACTCCCTCCGATCCTAAATATAAGTCTTTTTAGAGAT TTCACTAAAGGATTACATATGATGCAAAATGAGTGAATCTACACTTTAAATTATGTCTAC ATACATCCGTATGTAGTTTTCTAGTGGAACCTTTAAAAAGACATGTATTTAGAAACGGAG GGAGTAGTTTTGCATTATGTGGAATTCGATAGATAATGGAAAGAACAAAGTTATTTACCG TA
Protein Sequence (238 aa)
>BART1_0-u52907.010 238 150831_barley_pseudomolecules MAPYFVRPYPHPETTTSSSASIVFPTTNARFTGTVPPPNRMAAALASSRCCRRPSLLNSD RRRRSVVRCALSGEKGNSFSWNKCAISIALSVGLITCPPTFGWSAHAFPLEPVIPDISVL ISGPPIKDPGALLRYALPIDNKAIREVQKPLEDITDSLKVSGVRALDSVERNVRQASRAL TNGRSLILTGLAESKRENGEKILDKLAVGLEELQRIIEDRNRNAVAPKQKELLNYVGI