- Transcript BART1_0-u53404.007
- Transcript IDBART1_0-u53404.007
- Gene IDBART1_0-u53404
Barley RTD
Exon Structure of BART1_0-u53404.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 387995344 | 387994664 | - |
| chr7H | 2 | 387996154 | 387996027 | - |
| chr7H | 3 | 387996323 | 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 | 0 | 0 | 1.04364 |
| morex | ETI | 0.617808 | 0.834415 | 1.94481 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 2.17566 | 1.04501 | 1.61082 |
| morex | ROO | 1.12284 | 0 | 0 |
| morex | ROO2 | 0.877652 | 0 | 0.767726 |
| morex | NOD | 0.593001 | 0 | 3.53292 |
| morex | RAC | 0.696262 | 0.81656 | 1.83077 |
| morex | INF1 | 0 | 0 | 1.02993 |
| morex | INF2 | 0.838103 | 0.820043 | 1.07972 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0.0000150032 | 0 | 0 |
| morex | LEM | 0.835539 | 2.46405 | 0.766774 |
| morex | LOD | 0.659401 | 0.983655 | 0 |
| morex | PAL | 0.774175 | 0 | 0.978141 |
| morex | SEN | 1.85516 | 0.464393 | 2.21185 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g06050.1 | +3 | 1e-125 | 377 | 219/304 (72%) | protein|OsTOP6A2 - Topoisomerase 6 subunit A homolog 2, expressed |
| TAIR PP10 | AT1G63990 @ ARAPORT AT1G63990.1 @ TAIR |
+3 | 2e-81 | 261 | 162/335 (48%) | Symbols: SPO11-2 | sporulation 11-2 | chr1:23743323-23745351 REVERSE LENGTH=383 |
| BRACH PP3 | Bradi3g16580.1.p | +3 | 4e-144 | 424 | 248/303 (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 (1903 bp)
>BART1_0-u53404.007 1903 150831_barley_pseudomolecules CTGCCATATCGTCCTCCGATGTAGGAAGTGCAGCGCGGATGGCGATGGCGGAGGCGGAGG CGGAGGCGGAGGCGGAGGTTCCCGCAGCGTCGCTCTTCGGTGCGGACTGCCGCCTCTGCT CAGCCGACGTGCTCTCGCCCCCCGAGGTTCGGGCAAGGATCGAGGTGGCGGTGCTCAATT TCCTCGCCTTGCTTTCGTCTCCCTCTTCTCCGTCCATCTCCGTCCTCCCCCTGATTTCCC GCAAGTCCACCAACTGCAGCCTGCGCAGCGGCTTGCTGAGTGATGTTTCATCGGTGTATC TGTCCTACGCCTTCTGCAAGAGGTCGCTAATGAGAGAAAATGATGCCAAGGCATTCGTCA GAGTATGGAAAGTCATGGAGATGTGCTACAAGATCTTGGGCGAAGGGAAGCTTGTCACCC AGCGGGAGTTGTTCTACAAACTACTGTCGGACTCACCCAAGTACTTCAGCTGTCAGCGTC ATGTGAATCAAACCATCCAAGATGTTGTTTCATTGCTCCGTTGCACAAGGCAGAGTTTAG GAATCATGGCATCAAGTAGAGGGGCACTGATTGGACGACTTGTGTTGCATGTGTGTGTAT GCTGAAAAGTGGTTTGCCTGATACAAATATGTGCTGTCTGTTAAGGGAATCAATACAACT CTTGTTTGCCTCCTCATGAAACTGCAACAGCCTCAACTTTGTGTTCATCTTAGGAACCAG AGGAAGAACACATCGATTGTTCCATTCTCGGACCTTCTGGGCATGCCATTACTGGGGATC TGAACCAATTGAGCAGATTAAATTTGTCTTCAGATGCCCGTTATCTCATTCTAGTGGAGA AGGATGCCATATTTCAGAGGCTGGCTGAAGACCGCTTATATAATCAGCTTCCATGTATCC TGATCACTGCAAAAGGATATCCTGATATCGCAACGAGGTTTATCTTGCATCGACTGAGCC AGACTTTTCCAAATATGCCAATATTTGCATTAGTGGACTGATTCCTTCCCAATTCAGGAA CCCTGCAGGGCTCTCTATACTGTGTACTTACAAATATGGAAGCATATCAATGGGCTTGGA ATCATACAGATACGCTTGCAATGTAAAATGGCTTGGCCTAAGAGGAGATGATCTGCAGCT TATCCCTCAGAGTTCATTCCAAGAGTTGAAACCTCGTGATTTGCAGGTCGCCAAAAGCTT GCTGTCATCTAAGTTTCTTCAGGACACGCACAGAGCGGAGTTGACACGGATGGTCGAGAC GGGCACGCGTGCTGAGATCGAAGCTCTCTATTGCCATGGTTTTGATTTCCTGGGGAAGTT CATCGCCAGGAAGATTGTGCAGGGTGATTACATTTGACAGTGTTTTTTCTCTCTGGCTGT ATGGCTCATGATGACGAGGCTACTGGTACAGTAGTGTGAGTGTCTCTGTTAATTGGAGAG CGATATCGCCCATGGCTCATTATGGCTGGTGAGGTCTGAACTTTGACATGCATAGAACAA AACGGATAGTAAAAGTTCTCCCTCTGAGAGTGGAACGATAGCAAGTAAGCACGGTTGTAC TCCAGTATATTCGTTTAGGCGGTCAGGGTAATTCAGTTTCTGGTGTATGCGTATGCCTTC TGCGCTCCCTGACAGTACTCTCCCCATAAAATTGGCAATCCAAATGTTGCAGGCCTTGGT CGTTCTTTGCTTCCTTTACTTTCTGAGAGAAGGCCACTACAACGATGCCCTGGAAGCAGA GATCCATGTTGTGGCAGCTGGTATGATAATGCGTGGTAGTGACGGGGCGATAGAGGCTGT TTGGATTGAGCCAGGGTCCGCCTCGCCGACCGCGGGCGCGCCAATTTATTGCCGGCCGAT TCCGCCGCCCGTGTCTCGCTAACAAATTGGTGCTGGATTGTAG
Protein Sequence (186 aa)
>BART1_0-u53404.007 186 150831_barley_pseudomolecules MAEAEAEAEAEVPAASLFGADCRLCSADVLSPPEVRARIEVAVLNFLALLSSPSSPSISV LPLISRKSTNCSLRSGLLSDVSSVYLSYAFCKRSLMRENDAKAFVRVWKVMEMCYKILGE GKLVTQRELFYKLLSDSPKYFSCQRHVNQTIQDVVSLLRCTRQSLGIMASSRGALIGRLV LHVCVC