- Transcript BART1_0-u53404.001
- Transcript IDBART1_0-u53404.001
- Gene IDBART1_0-u53404
Barley RTD
Exon Structure of BART1_0-u53404.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 387994894 | 387993815 | - |
| chr7H | 2 | 387995344 | 387995023 | - |
| chr7H | 3 | 387996154 | 387996027 | - |
| chr7H | 4 | 387996306 | 387996230 | - |
| chr7H | 5 | 387996488 | 387996426 | - |
| chr7H | 6 | 387996671 | 387996577 | - |
| chr7H | 7 | 387996879 | 387996751 | - |
| chr7H | 8 | 387997091 | 387997003 | - |
| chr7H | 9 | 387997326 | 387997189 | - |
| chr7H | 10 | 387997558 | 387997429 | - |
| chr7H | 11 | 387998007 | 387997921 | - |
| chr7H | 12 | 387998327 | 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 | 0 |
| morex | ETI | 0 | 0 | 0.223722 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0.00000000123858 | 0 | 0.00000862144 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0.290378 | 0 | 0 |
| morex | CAR5 | 0 | 0.420729 | 0 |
| morex | CAR15 | 0.320699 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0.00920225 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g06050.1 | +2 | 0.0 | 617 | 322/377 (85%) | protein|OsTOP6A2 - Topoisomerase 6 subunit A homolog 2, expressed |
| TAIR PP10 | AT1G63990 @ ARAPORT AT1G63990.1 @ TAIR |
+2 | 5e-157 | 464 | 236/373 (63%) | Symbols: SPO11-2 | sporulation 11-2 | chr1:23743323-23745351 REVERSE LENGTH=383 |
| BRACH PP3 | Bradi3g16580.1.p | +2 | 0.0 | 664 | 349/376 (93%) | 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 (2570 bp)
>BART1_0-u53404.001 2570 150831_barley_pseudomolecules CCAAAAATAGGTGCAGGCCCCGAATGTTTCATTGGACCCCAGCCCAGCCCAGCCCAGCCC AGCATAAGAGCCTCTAGCAGGGCCAGCTGCCATATCGTCCTCCGATGTAGGAAGTGCAGC GCGGATGGCGATGGCGGAGGCGGAGGCGGAGGCGGAGGCGGAGGTTCCCGCAGCGTCGCT CTTCGGTGCGGACTGCCGCCTCTGCTCAGCCGACGTGCTCTCGCCCCCCGAGGTTCGGGC AAGGATCGAGGTGGCGGTGCTCAATTTCCTCGCCTTGCTTTCGTCTCCCTCTTCTCCGTC CATCTCCGTCCTCCCCCTGATTTCCCGCAAGTCCACCAACTGCAGCCTGCGCAGCGGCTT GCTGAGTGATGTTTCATCGGTGTATCTGTCCTACGCCTTCTGCAAGAGGTCGCTAATGAG AGAAAATGATGCCAAGGCATTCGTCAGAGTATGGAAAGTCATGGAGATGTGCTACAAGAT CTTGGGCGAAGGGAAGCTTGTCACCCAGCGGGAGTTGTTCTACAAACTACTGTCGGACTC ACCCAAGTACTTCAGCTGTCAGCGTCATGTGAATCAAACCATCCAAGATGTTGTTTCATT GCTCCGTTGCACAAGGCAGAGTTTAGGAATCATGGCATCAAGTAGAGGGGCACTGATTGG ACGACTTGTGTTGCATGAACCAGAGGAAGAACACATCGATTGTTCCATTCTCGGACCTTC TGGGCATGCCATTACTGGGGATCTGAACCAATTGAGCAGATTAAATTTGTCTTCAGATGC CCGTTATCTCATTCTAGTGGAGAAGGATGCCATATTTCAGAGGCTGGCTGAAGACCGCTT ATATAATCAGCTTCCATGTATCCTGATCACTGCAAAAGGATATCCTGATATCGCAACGAG GTTTATCTTGCATCGACTGAGCCAGACTTTTCCAAATATGCCAATATTTGCATTAGTGGA CTGGAACCCTGCAGGGCTCTCTATACTGTGTACTTACAAATATGGAAGCATATCAATGGG CTTGGAATCATACAGATACGCTTGCAATGTAAAATGGCTTGGCCTAAGAGGAGATGATCT GCAGCTTATCCCTCAGAGTTCATTCCAAGAGTTGAAACCTCGTGATTTGCAGGTCGCCAA AAGCTTGCTGTCATCTAAGTTTCTTCAGGACACGCACAGAGCGGAGTTGACACGGATGGT CGAGACGGGCACGCGTGCTGAGATCGAAGCTCTCTATTGCCATGGTTTTGATTTCCTGGG GAAGTTCATCGCCAGGAAGATTGTGCAGGGTGATTACATTTGACAGTGTTTTTTCTCTCT GGCTGTATGGCTCATGATGACGAGGCTACTGGTACAGTAGTGTGAGTGTCTCTGTTAATT GGAGAGCGATATCGCCCATGGCTCATTATGGCTGGTGAGGTCTGAACTTTGACATGCATA GAACAAAACGGATAGTAAAAGTTCTCCCTCTGAGAGTGGAACGATAGCAAGCCTTGGTCG TTCTTTGCTTCCTTTACTTTCTGAGAGAAGGCCACTACAACGATGCCCTGGAAGCAGAGA TCCATGTTGTGGCAGCTGGTATGATAATGCGTGGTAGTGACGGGGCGATAGAGGCTGTTT GGATTGAGCCAGGGTCCGCCTCGCCGACCGCGGGCGCGCCAATTTATTGCCGGCCGATTC CGCCGCCCGTGTCTCGCTAACAAATTGGTGCTGGATTGTAGACAGGTAAGGCCAGGGCGC ATCAATTACTTCCCCCATTCCTAAATATAAGTTTTTTAAAGGTTTCATTAGGGAATACAT ACGGATGTATATAAACATGTTAGTGTAGATTTCCTCATTTTGTTTTGTATGTAGTCTTCT AGTGAAATCTTTAAAAAAAAACTTTATATTTAAAAACGAAGAAAGTATTTGATAGCGATT CAAACACGGATGATATGCATGGTCAACACCAATATTTTGGACGGGCATCTCAAGGCGTCA ATCCAAACAGCCCTATATTTGCAGCCTACGCTTCATCTTCCACTACAACGATGCCCTCGA AGCAGAGATCCATGTTTTGCAAGGTATGGTTTTTTCCATCAACATACTGCTCTGGTCATT GTCCACTAGGATTCTTTTGTCGCTTTGAAGACCCTGTCTACTTTTGGTGTGGACCTTTCG ACATATGAACAACTAGTTTCTGAGAGGGTCATTAGTGAATGATAGGGAGTTTTTGGGATT CGAAGAGAACAAAACAGAGTGGCAGATTCTCTAACAAACTACAGTCGCATGAAGCGTACC ACGAGAGTGTAGCTTAACCCTAGTCCCCCATATATTGAAGAACATGTGCCTCTTGACTGA AACTCTATAAACTTGGATGAAACTTCTATTACCCCGGGAAAAGAATCATAAAACCTGAAT CCTCGGCATCACGGTAGTAAGTGTAGTCGTTCTCCAACATCCATCAGAAGTTAGACAGGC CCTAGTGGCTGCTGCGTATGCGAGGCTATGACGTGTTTGGTTGCCTGCATCATTTTTTGT CCATTTGTATACTTGTCCCAATTGGGTCTGGTTGAGCATATGCATGCAAA
Protein Sequence (392 aa)
>BART1_0-u53404.001 392 150831_barley_pseudomolecules MAMAEAEAEAEAEVPAASLFGADCRLCSADVLSPPEVRARIEVAVLNFLALLSSPSSPSI SVLPLISRKSTNCSLRSGLLSDVSSVYLSYAFCKRSLMRENDAKAFVRVWKVMEMCYKIL GEGKLVTQRELFYKLLSDSPKYFSCQRHVNQTIQDVVSLLRCTRQSLGIMASSRGALIGR LVLHEPEEEHIDCSILGPSGHAITGDLNQLSRLNLSSDARYLILVEKDAIFQRLAEDRLY NQLPCILITAKGYPDIATRFILHRLSQTFPNMPIFALVDWNPAGLSILCTYKYGSISMGL ESYRYACNVKWLGLRGDDLQLIPQSSFQELKPRDLQVAKSLLSSKFLQDTHRAELTRMVE TGTRAEIEALYCHGFDFLGKFIARKIVQGDYI