- Transcript BART1_0-u52907.018
- Transcript IDBART1_0-u52907.018
- Gene IDBART1_0-u52907
Barley RTD
Exon Structure of BART1_0-u52907.018
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 305303888 | 305303267 | - |
| chr7H | 2 | 305304132 | 305303990 | - |
| chr7H | 3 | 305304552 | 305304317 | - |
| chr7H | 4 | 305305059 | 305304860 | - |
| chr7H | 5 | 305305504 | 305305214 | - |
| chr7H | 6 | 305306678 | 305306359 | - |
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 | 0.607252 | 0 | 0 |
| morex | ETI | 0 | 4.84248 | 0.114943 |
| morex | LEA | 5.6623 | 6.00338 | 9.79018 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0.751804 | 0.711533 |
| morex | ROO2 | 1.04866 | 0.000240839 | 0.90242 |
| morex | NOD | 0 | 0 | 1.264 |
| morex | RAC | 0 | 0.912033 | 0.0000296932 |
| morex | INF1 | 0 | 0.0221368 | 0 |
| morex | INF2 | 2.5344 | 0 | 0.000000937494 |
| morex | CAR5 | 1.12477 | 0.891588 | 0.77868 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.0000614925 | 1.94217 | 1.15127 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0.00000000147116 | 0.610808 |
| morex | SEN | 1.63641 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g29370.2 | +3 | 0.0 | 570 | 275/322 (85%) | protein|peptidyl-prolyl cis-trans isomerase, chloroplast precursor, putative, expressed |
| TAIR PP10 | AT3G01480 @ ARAPORT AT3G01480.1 @ TAIR |
+3 | 1e-172 | 497 | 238/317 (75%) | Symbols: CYP38, ATCYP38 | cyclophilin 38 | chr3:188569-190674 FORWARD LENGTH=437 |
| BRACH PP3 | Bradi3g34940.1.p | +3 | 0.0 | 598 | 296/348 (85%) | 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 (1812 bp)
>BART1_0-u52907.018 1812 150831_barley_pseudomolecules TCCACATCCCGAAACCACCACCAGCTCCTCCGCTTCCATCGTTTTTCCTACCACCAACGC CCGCTTCACCGGAACCGTACCCCCACCCAACCGCATGGCCGCGGCGCTCGCCTCCTCCCG CTGCTGCCGCCGCCCTTCGCTTCTTAACAGTGATCGTCGCCGCCGCTCCGTCGTCCGGTG CGCGCTCTCCGGCGAGGTTAGGATCTTACAACTCATTACGGTGGCTCCTGGAAGATAGCT CCTGGTGGACATTCTGCTTTTGGATGATGCATGCCAATGTGGCTCAGTATTGCTGCATTT CTAAATACAGTTGTGCCCGGAAAGGAAACTCATTTAGCTGGAACAAATGTGCAATTTCTA TAGCATTGTCTGTTGGATTAATTACTTGCCCACCAACATTTGGATGGTCGGCCCATGCTT TTCCGCTCGAACCTGTAATCCCTGATATTTCAGTTCTGATTTCTGGACCTCCCATTAAAG ATCCAGGGGCTTTGTTGAGATATGCTTTGCCCATAGATAATAAAGCTATTCGTGAAGTTC AAAAACCGTTAGAGGATATCACCGATAGTCTCAAAGTTTCTGGTGTTAGAGCGTTGGATT CAGTTGAAAGAAATGTGAGGCAGGCCTCGAGAGCGCTGACTAATGGGAGGAGTTTAATAC TTACTGGTCTTGCTGAATCAAAAAGAGAAAATGGAGAAAAAATATTGGATAAATTAGCTG TTGGACTTGAAGAGCTTCAACGAATTATTGAGGATAGAAACAGGAATGCGGTAGCTCCAA AGCAGAAAGAGCTTCTCAATTATGTTGGAATTGTAGAAGAAGATATGGTCGATGGCTTCC CCTATGAAGTACCAGAAGAATACAACAATATGCCTCTTCTTAAAGGAAGAGCTACTGTGG ATATGACGGTTAAGATTAAAGATAATCCAAACGTAGAAGATTGTGTATTTCGGATAGTTC TGGATGGATATAATGCTCCTGTGACTTCTGGGAACTTCGTAGATCTGGTGGAACGGAAGT TCTATGATGGCATGGAAATCCAAAGAGCTGATGGTTTTGTTGTTCAGACGGGAGATCCTG AGGGGCCAGCCGACGGTTTTATTGATCCCAGTACTGGCAAGAGTCGTACCATACCTCTTG AGATAATGGTTGATGGTGACAAGGCGCCTATATACGGTGAAACACTTGAGGAACTTGGCC TTTACAAGGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAACGATGGCAATGGCTAGAG AAGTAAGGCTCACCTAGACTCTTTAGTTTTAACATATCAAGGATATGCCAAAATAATTAT TACATCCTCCAGAAATATAAAGTGCACATGCTTCCCCAAATTTATCGTTGATCACGAATT TGTTCAGCAATATGTGATACAAAGTTGATACTCCCTCTGTCCCATAATATAAGATGTTAA TACAACCATATTGGTTCATTTATAGTTGGATTATTCTTCGGAGGTTAAACTTCAATAACG GGTACGTCTTATGTTTCTGGATGGAGGGAGTAACATTTTCTTAGTTGTAACCAAGGTTTT TTCTTCTTCTTCTTCTCGATAATGTTTTTTTGGATGGGCTAGAAGAATTGGTTTCTGGAA AATATCAGTATTCAGACAAAATTTGAAATCATTTTGTTTTGGGACAAAATATAAGTTTGC AGCCTGACCTACATATAGCTGCGCGTGTCCAAGCAGTTAGTACAATTCATCTGTTCCTCA AAGTAAGTCTCGGGTTCGAGTTTTCTCTGCTGCACAACCGCGAAGAGCCCACATGTGGAG AGAGAGGGAGAG
Protein Sequence (424 aa)
>BART1_0-u52907.018 424 150831_barley_pseudomolecules HIPKPPPAPPLPSFFLPPTPASPEPYPHPTAWPRRSPPPAAAAALRFLTVIVAAAPSSGA RSPARLGSYNSLRWLLEDSSWWTFCFWMMHANVAQYCCISKYSCARKGNSFSWNKCAISI ALSVGLITCPPTFGWSAHAFPLEPVIPDISVLISGPPIKDPGALLRYALPIDNKAIREVQ KPLEDITDSLKVSGVRALDSVERNVRQASRALTNGRSLILTGLAESKRENGEKILDKLAV GLEELQRIIEDRNRNAVAPKQKELLNYVGIVEEDMVDGFPYEVPEEYNNMPLLKGRATVD MTVKIKDNPNVEDCVFRIVLDGYNAPVTSGNFVDLVERKFYDGMEIQRADGFVVQTGDPE GPADGFIDPSTGKSRTIPLEIMVDGDKAPIYGETLEELGLYKAQTKLPFNAFGTMAMARE VRLT