- Transcript BART1_0-u53404.009
- Transcript IDBART1_0-u53404.009
- Gene IDBART1_0-u53404
Barley RTD
Exon Structure of BART1_0-u53404.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 387995344 | 387994737 | - |
| chr7H | 2 | 387996154 | 387996027 | - |
| chr7H | 3 | 387996327 | 387996230 | - |
| chr7H | 4 | 387996488 | 387996426 | - |
| chr7H | 5 | 387996671 | 387996577 | - |
| chr7H | 6 | 387997091 | 387996751 | - |
| chr7H | 7 | 387997326 | 387997189 | - |
| chr7H | 8 | 387997558 | 387997429 | - |
| chr7H | 9 | 387998007 | 387997921 | - |
| chr7H | 10 | 387998241 | 387998096 | - |
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 | 2.89654 | 3.90126 | 4.35469 |
| morex | ETI | 11.6204 | 7.70776 | 5.52179 |
| morex | LEA | 5.92004 | 3.32652 | 5.65855 |
| morex | EPI | 6.44293 | 4.82751 | 4.98667 |
| morex | ROO | 1.60231 | 3.53571 | 2.06272 |
| morex | ROO2 | 2.48112 | 2.83608 | 2.0116 |
| morex | NOD | 5.86242 | 6.07533 | 12.0869 |
| morex | RAC | 6.82846 | 4.51807 | 3.39622 |
| morex | INF1 | 7.54168 | 6.90483 | 7.5474 |
| morex | INF2 | 14.5791 | 11.7059 | 14.2684 |
| morex | CAR5 | 8.61197 | 10.3388 | 10.6903 |
| morex | CAR15 | 2.71521 | 3.73832 | 4.13277 |
| morex | LEM | 7.22508 | 2.8428 | 3.93297 |
| morex | LOD | 7.91415 | 3.50442 | 4.9289 |
| morex | PAL | 2.41925 | 3.90907 | 3.5291 |
| morex | SEN | 4.40708 | 3.0206 | 2.61457 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g06050.1 | +3 | 0.0 | 577 | 321/425 (76%) | protein|OsTOP6A2 - Topoisomerase 6 subunit A homolog 2, expressed |
| TAIR PP10 | AT1G63990 @ ARAPORT AT1G63990.1 @ TAIR |
+3 | 2e-145 | 426 | 235/421 (56%) | Symbols: SPO11-2 | sporulation 11-2 | chr1:23743323-23745351 REVERSE LENGTH=383 |
| BRACH PP3 | Bradi3g16580.1.p | +3 | 0.0 | 621 | 348/424 (82%) | pacid=32817968 transcript=Bradi3g16580.1 locus=Bradi3g16580 ID=Bradi3g16580.1.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 (1834 bp)
>BART1_0-u53404.009 1834 150831_barley_pseudomolecules CTGCCATATCGTCCTCCGATGTAGGAAGTGCAGCGCGGATGGCGATGGCGGAGGCGGAGG CGGAGGCGGAGGCGGAGGTTCCCGCAGCGTCGCTCTTCGGTGCGGACTGCCGCCTCTGCT CAGCCGACGTGCTCTCGCCCCCCGAGGTTCGGGCAAGGATCGAGGTGGCGGTGCTCAATT TCCTCGCCTTGCTTTCGTCTCCCTCTTCTCCGTCCATCTCCGTCCTCCCCCTGATTTCCC GCAAGTCCACCAACTGCAGCCTGCGCAGCGGCTTGCTGAGTGATGTTTCATCGGTGTATC TGTCCTACGCCTTCTGCAAGAGGTCGCTAATGAGAGAAAATGATGCCAAGGCATTCGTCA GAGTATGGAAAGTCATGGAGATGTGCTACAAGATCTTGGGCGAAGGGAAGCTTGTCACCC AGCGGGAGTTGTTCTACAAACTACTGTCGGACTCACCCAAGTACTTCAGCTGTCAGCGTC ATGTGAATCAAACCATCCAAGATGTTGTTTCATTGCTCCGTTGCACAAGGCAGAGTTTAG GAATCATGGCATCAAGTAGAGGGGCACTGATTGGACGACTTGTGTTGCATGTGTGTGTAT GCTGAAAAGTGGTTTGCCTGATACAAATATGTGCTGTCTGTTAAGGGAATCAATACAACT CTTGTTTGCCTCCTCATGAAACTGCAACAGCCTCAACTTTGTGTTCATCTTAGGAACCAG AGGAAGAACACATCGATTGTTCCATTCTCGGACCTTCTGGGCATGCCATTACTGGGGATC TGAACCAATTGAGCAGATTAAATTTGTCTTCAGATGCCCGTTATCTCATTCTAGTGGAGA AGGATGCCATATTTCAGAGGCTGGCTGAAGACCGCTTATATAATCAGCTTCCATGTATCC TGATCACTGCAAAAGGATATCCTGATATCGCAACGAGGTTTATCTTGCATCGACTGAGCC AGACTTTTCCAAATATGCCAATATTTGCATTAGTGGACTGTTAGATTCCTTCCCAATTCA GGAACCCTGCAGGGCTCTCTATACTGTGTACTTACAAATATGGAAGCATATCAATGGGCT TGGAATCATACAGATACGCTTGCAATGTAAAATGGCTTGGCCTAAGAGGAGATGATCTGC AGCTTATCCCTCAGAGTTCATTCCAAGAGTTGAAACCTCGTGATTTGCAGGTCGCCAAAA GCTTGCTGTCATCTAAGTTTCTTCAGGACACGCACAGAGCGGAGTTGACACGGATGGTCG AGACGGGCACGCGTGCTGAGATCGAAGCTCTCTATTGCCATGGTTTTGATTTCCTGGGGA AGTTCATCGCCAGGAAGATTGTGCAGGGTGATTACATTTGACAGTGTTTTTTCTCTCTGG CTGTATGGCTCATGATGACGAGGCTACTGGTACAGTAGTGTGAGTGTCTCTGTTAATTGG AGAGCGATATCGCCCATGGCTCATTATGGCTGGTGAGGTCTGAACTTTGACATGCATAGA ACAAAACGGATAGTAAAAGTTCTCCCTCTGAGAGTGGAACGATAGCAAGTAAGCACGGTT GTACTCCAGTATATTCGTTTAGGCGGTCAGGGTAATTCAGTTTCTGGTGTATGCGTATGC CTTCTGCGCTCCCTGACAGTACTCTCCCCATAAAATTGGCAATCCAAATGTTGCAGGCCT TGGTCGTTCTTTGCTTCCTTTACTTTCTGAGAGAAGGCCACTACAACGATGCCCTGGAAG CAGAGATCCATGTTGTGGCAGCTGGTATGATAATGCGTGGTAGTGACGGGGCGATAGAGG CTGTTTGGATTGAGCCAGGGTCCGCCTCGCCGAC
Protein Sequence (186 aa)
>BART1_0-u53404.009 186 150831_barley_pseudomolecules MAEAEAEAEAEVPAASLFGADCRLCSADVLSPPEVRARIEVAVLNFLALLSSPSSPSISV LPLISRKSTNCSLRSGLLSDVSSVYLSYAFCKRSLMRENDAKAFVRVWKVMEMCYKILGE GKLVTQRELFYKLLSDSPKYFSCQRHVNQTIQDVVSLLRCTRQSLGIMASSRGALIGRLV LHVCVC