- Transcript BART1_0-u42835.003
- Transcript IDBART1_0-u42835.003
- Gene IDBART1_0-u42835
Barley RTD
Exon Structure of BART1_0-u42835.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 34891732 | 34891700 | + |
| chr6H | 2 | 34892153 | 34891929 | + |
| chr6H | 3 | 34892472 | 34892398 | + |
| chr6H | 4 | 34893434 | 34893231 | + |
| chr6H | 5 | 34894042 | 34893848 | + |
| chr6H | 6 | 34894525 | 34894361 | + |
| chr6H | 7 | 34895187 | 34894927 | + |
| chr6H | 8 | 34896103 | 34895891 | + |
| chr6H | 9 | 34896414 | 34896192 | + |
| chr6H | 10 | 34897503 | 34896755 | + |
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 | 6.25524 | 8.5461 | 0.00000107269 |
| morex | ETI | 1.27789 | 2.54994 | 0.0119691 |
| morex | LEA | 4.74293 | 3.56559 | 0.000000283921 |
| morex | EPI | 0.448127 | 0.00000681913 | 0.000000715528 |
| morex | ROO | 0.962489 | 1.43808 | 1.30018 |
| morex | ROO2 | 0.0123066 | 0.0440127 | 1.61356 |
| morex | NOD | 2.35643 | 0.287762 | 0 |
| morex | RAC | 2.20086 | 4.53456 | 2.34348 |
| morex | INF1 | 6.39945 | 0.269016 | 5.32881 |
| morex | INF2 | 5.47285 | 1.66005 | 0.000013963 |
| morex | CAR5 | 1.29533 | 3.76375 | 0.000000000978081 |
| morex | CAR15 | 4.72768 | 2.09499 | 4.07619 |
| morex | LEM | 0.23472 | 2.1571 | 0.897934 |
| morex | LOD | 5.56867 | 3.22514 | 0.0000926675 |
| morex | PAL | 2.02231 | 0.354935 | 5.34979 |
| morex | SEN | 0.325569 | 1.81083 | 0.737474 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g03690.1 | +1 | 0.0 | 852 | 394/453 (87%) | protein|beta-amylase, putative, expressed |
| TAIR PP10 | AT5G45300 @ ARAPORT AT5G45300.2 @ TAIR |
+1 | 0.0 | 622 | 304/524 (58%) | Symbols: BMY2, BAM8 | beta-amylase 2 | chr5:18353636-18356696 FORWARD LENGTH=687 |
| BRACH PP3 | Bradi3g02800.2.p | +1 | 0.0 | 994 | 482/531 (91%) | pacid=32818287 transcript=Bradi3g02800.2 locus=Bradi3g02800 ID=Bradi3g02800.2.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 (2343 bp)
>BART1_0-u42835.003 2343 150831_barley_pseudomolecules NNNNNGCCCCCTCTCCCTCCCCCGGCCCAATTCGGTGCTTTCCAGGCCACTTCTCTGGAA ACCCCAGTTTTTACCAACTCTCTGAACAGCTATGCCGTTGGGACGCCATTAGATTCCCAG GCTTCAGCCCTACAAACAGATGATAGCCTGTCACCGTCGTCATTGGACTCAGTCGTGGTG GCAGAGCAATGCATAAAGAATGAGAGCTTTGGGAATTCAAGTTCAGCCAATTCTTTGAAC TGTATGGGTAGTGATCAGCTATTGAGAGCATCAGCAGTATGGGCGGGTGATTACACGAAA ACTCCATATATACCATTGTACGCCTCTTTGTCTATGGGCATTATCAATTGTTATTGCCAA CTGGTTGATCCTGAGGCTGTACGTGCTGAACTAAGGCATCTGAAATCTTTGAATGTTGAT GGAGTTATTGTTGACTGTTGGTGGGGGATTGTAGAAGCCTGGACTCCTCAAAAGTATGAA TGGTCTGGCTACAGGGACCTTTTTGGTATCATTAAAGAGTTCAAGCTAAAAGTTCAGGTT GTGTTATCATTTCATGGGTCTGGGGAGTGTGGATCTGGTCCTGTGTTAATTGCTCTTCCT AGGTGGGTAATGGAAATTGCACAAGAGAACCAAGATATATTTTTTACCGATCGAGAAGGT AGGAGGAATACAGAATGCCTCTCCTGGGGAATTGACAAAGAGCGTGTCCTTCGAGGGAGA ACTGGCATCGAGGTTTATTTTGATTTCATGAGGAGCTTTCATATGGAATTCAGAACCCTA TCTGAAGAGGGTCTTATTTCTGCTATTGAGATTGGATTGGGTGCTTCTGGAGAGCTAAGA TACCCTTCGTGTTCAGAAAAAATGGGCTGGAGATATCCTGGTATTGGTGAGTTTCAGTGT TATGACAGGTATATGCAAAAGAACCTACGGCAATCAGCCTTGACACGGGGGCATTTGTTT TGGGCCCGTGGGCCTGATAATGCTGGCTACTATAATTCAAGGTCACACGAGACTGGCTTT TTTTGTGACGGAGGTGATTATGACAGCTACTATGGGCGGTTCTTCCTTAATTGGTATTCT GGAATCCTTATAGATCATGTGGATCAGGTGCTCTCACTTGCTACTCTTGCATTTGATGGA GCAGCAGTTGTGGTGAAGATCCCCTCCATCTATTGGTGGTACAGAACTGCAAGCCATGCT GCAGAGCTTACTGCAGGATTCTACAACCCTACAAATCGAGATGGATACTCTCCAGTTTTC AGAATGCTCAAGAAGCATTCCATAATTCTTAAAGTGGTTTGTTATGGCCCAGAATTTACA GTTCAGGAGAATGATGAAGCACTTGCTGATCCAGAAGGTTTAACCTGGCAGGTTATGAAC GCAGCATGGGATCATGGTCTATCTGTAAGTGTAGAGAGTGCTCTTCCATGTCTTGACGTG GACATGTACTCTCGGATCCTTGACACAGCAAAGCCGAGGAATGATCCTGACCGACACCAT CTCTCATTCTTTGCATACCGTCAGCGAACTCCATTCCTTTTGCAGAGAGATGTGTGCTTC TCAGAGCTTGAGACCTTCGTAAAGTGTATGCACGGGGAGGCTATCCAGAACTTTGTAGAT TGAACTTGCTTTGGCGACGCATTCCCTGTTATGTTGCAGCTCGCGTTCTGCAAATTTCCG GATTCCCTGCGTAGCTATCACAAGCTTTAACTCATATTGCTGATTGCTGCGTTCCGGCCA TCCCCGCCTTTGCTATGGGTCAGCTAACCAGATGGCACTGAAACTGTTGTGCTGGTGGTG GGCAAGGATTAGCATCCCTTATCTGTGGTACAGGGCTGATAGTTCAGCAAGTTTTTACCG TGGTGTGACCTAGCTTGGGCTAGAAAGATGGAAAGAATGGCGATGTATATATCTAATAGT ACTACACTATCATGCTCTAAGATGCAAAGAAAGCGTCTGAATTCTCCATGGTAAGCTGCT CGATGACAAGTGCTTGCAGTGGGTTTCCGAGGGATTCCTTGAACTCGCTTTTCCCTTTCT ATTTTCCTTTGAACCTTATTGGGACATTTGTATTTCCGTTATGAAAGTAATGGAAAGGGG TTATGCCCAGCTCAAAAAAAAATAAAATCTCCATGATGCCGAAACATCTTTCTAGACTAC GACTGAAATTTGGACTGTCTGAGCTGAGGTTAGGTCTGAAATGGTTGTTAGTACTCTGGG AGCTTGTATATAGTATTTTGTTGATCCTAACTTTCCATACCAACAAAATCCAATGAGCAC CCACTGCAAGCTGAGACCTCTTATTTGATGCTATATGTGCTGGCCATGGCATGGGCCTTT GAA
Protein Sequence (540 aa)
>BART1_0-u42835.003 540 150831_barley_pseudomolecules XXPPLPPPAQFGAFQATSLETPVFTNSLNSYAVGTPLDSQASALQTDDSLSPSSLDSVVV AEQCIKNESFGNSSSANSLNCMGSDQLLRASAVWAGDYTKTPYIPLYASLSMGIINCYCQ LVDPEAVRAELRHLKSLNVDGVIVDCWWGIVEAWTPQKYEWSGYRDLFGIIKEFKLKVQV VLSFHGSGECGSGPVLIALPRWVMEIAQENQDIFFTDREGRRNTECLSWGIDKERVLRGR TGIEVYFDFMRSFHMEFRTLSEEGLISAIEIGLGASGELRYPSCSEKMGWRYPGIGEFQC YDRYMQKNLRQSALTRGHLFWARGPDNAGYYNSRSHETGFFCDGGDYDSYYGRFFLNWYS GILIDHVDQVLSLATLAFDGAAVVVKIPSIYWWYRTASHAAELTAGFYNPTNRDGYSPVF RMLKKHSIILKVVCYGPEFTVQENDEALADPEGLTWQVMNAAWDHGLSVSVESALPCLDV DMYSRILDTAKPRNDPDRHHLSFFAYRQRTPFLLQRDVCFSELETFVKCMHGEAIQNFVD