- Transcript BART1_0-u12609.018
- Transcript IDBART1_0-u12609.018
- Gene IDBART1_0-u12609
Barley RTD
Exon Structure of BART1_0-u12609.018
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 560838762 | 560838420 | - |
| chr2H | 2 | 560839280 | 560838862 | - |
| chr2H | 3 | 560840111 | 560839880 | - |
| chr2H | 4 | 560841176 | 560840973 | - |
| chr2H | 5 | 560841423 | 560841263 | - |
| chr2H | 6 | 560841998 | 560841505 | - |
| chr2H | 7 | 560842181 | 560842111 | - |
| chr2H | 8 | 560842352 | 560842277 | - |
| chr2H | 9 | 560844230 | 560844063 | - |
| chr2H | 10 | 560844492 | 560844336 | - |
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 | 11.7687 | 21.5704 | 19.7259 |
| morex | ETI | 33.3722 | 42.7223 | 31.4693 |
| morex | LEA | 23.663 | 34.0181 | 54.4558 |
| morex | EPI | 19.433 | 17.2845 | 15.6739 |
| morex | ROO | 19.9846 | 14.6632 | 8.80752 |
| morex | ROO2 | 43.5646 | 44.1917 | 43.6516 |
| morex | NOD | 33.2375 | 30.2426 | 43.7645 |
| morex | RAC | 30.6113 | 30.48 | 35.2642 |
| morex | INF1 | 24.0536 | 17.9955 | 25.0841 |
| morex | INF2 | 8.48625 | 5.20084 | 10.3065 |
| morex | CAR5 | 5.08215 | 14.6074 | 8.71728 |
| morex | CAR15 | 3.07219 | 0.0986638 | 3.76409 |
| morex | LEM | 6.37682 | 5.97252 | 7.17775 |
| morex | LOD | 3.0743 | 0.445391 | 1.5064 |
| morex | PAL | 1.83505 | 5.29919 | 1.82185 |
| morex | SEN | 32.7 | 41.7164 | 40.4532 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os04g36660.1 | +3 | 0.0 | 910 | 523/659 (79%) | protein|calmodulin binding protein, putative, expressed |
| TAIR PP10 | AT2G18750 @ ARAPORT AT2G18750.3 @ TAIR |
+3 | 0.0 | 581 | 352/664 (53%) | Symbols: | Calmodulin-binding protein | chr2:8125827-8128363 FORWARD LENGTH=622 |
| BRACH PP3 | Bradi3g46060.1.p | +3 | 0.0 | 837 | 481/660 (73%) | pacid=32814592 transcript=Bradi3g46060.1 locus=Bradi3g46060 ID=Bradi3g46060.1.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 (2325 bp)
>BART1_0-u12609.018 2325 150831_barley_pseudomolecules ATAGATCTCTCTCTCTCTCCCTCCATCTCTTGCTTTGCCTCTAGTCGTCGCCCAGTCGCT GCCGCACTGCTCCGGCTCGAGCTCGACGCGGGAAGGAGCAGCCCGGGCCTTCTCCAACCC TCGTGCCGCTATCGTTTGCCAGTTACTAGTTGCTAAGATCTGACCCACGGCGCCGGCAAG GTTGTGGCGCCGCGGAGATGCAGAGGCAGGGGCGCCACATGGAGCGGTCTGGCTCCAAGC GGGCGCTAGACCCTGGCGGCAGTGGCGGAGGCGGCGGCGACGACGAACGTGATCCTAAAC GGCCGCGCGTCCCGGCCCTCGCCAGTGTCATTGTAGAAGCTCTCAAGTTGGACAGTTTGC AGAAGCTTTGTTCATCCCTGGAGCCGATTCTCCGAAGAGTTGTCAGCGAAGAAGTAGAGC GTGCTTTAGCCAAATTGGGACCTGCAGCAGCACCTGCTAGAATTGAAGGAAGGACCTCTC CCAAAAGAATTGAGGGCCCCAATGGTAGTAACCTCCAGCTTCAGTTTCGGAGTAGGTTAG CACTCCCACTCTTTACTGGAGGAAAAGTGGAAGGCGAGCAGGGAGCATCAATACATGTTG TGCTGTTAGATGCAAACACTGGACATGTCGTCACTTCAGGACCCCAGTCATCTGCGAAAC TGGATGTTCTTGTTCTCGAGGGTGATTTTAATAAAGAGAAGGACGAGGATTGGACTGAAG AAGAATTTGAGAGCCACATTGTGAAAGAACGTGAAGGGAAGAGGCCTCTTTTAAACGGTG ATATCCATGTGACACTTAAAGAAGGCGTAGGGACCATAGGAGAGCTTATCTTCACTGACA ATTCCAGCTGGATAAGGAGCAGAAAATTCAGACTTGGGATGAGAGTCTCTTCAGGATTTT GTGACGGAGTTCGTATCAAAGAGGCGAAGACAGAGGCTTTTACTGTGAAAGATCACAGAG GAGAATTGTACAAGAAACATTACCCTCCTGCGCTTAAGGATGATGTTTGGAGACTGGAAA AGATTGGAAAGGACGGTGCATTCCACGGGAAACTAAACTCAAACGGAATCTATACAGTTG AACATTTTCTTCAACTTCTTGTTAAAGATCAACAGAAGTTAAGAAGTATCCTTGGTACTG GCATGTCAAATAAGATGTGGGAAAGTCTTGTTGAACATGCAAAAACTTGTGTTCTGAGTG GCAAACATTATATATATTACTCGAAGGATACAGCAAGTGTTGGTGCAATATTCAATAACA TATATGAGTTCACTGGTTTGATTGCTGATGATCAGTTTATTTCAACGGAAAATCTTACTG AAAACCAGAGGGTGTTTGCGGATACGTTGGTGAAGCAAGCATACGATGATTGGATCAATG TTGTAGAATATGATGGCAAGGGATTGTTGAAATTTAAGCAGAAAAAGAAATCTGTCACAA CAAGAAGTGATGTTGCAAATGTCTCTACAAGCTACACTTCTTATGATTCAGCGCACTCTC AGAAACAATTGGCACGAGGACATGCCAATATTGAGCGATCTCTCATGAGCAGTACGACTA AAGCAGACGAGACAAGAATTGCATCCAACGGGAATCAAGTAGCAATATATGAAGCCAATC CTCAGGACATTTCACCAAGTATTACCATGCAATATGGCATGAGTTCATTGATCCCTGAAG GCCAGTTCAATGGCTCTTCCATCCAAACTCAAGCATCAAGAAGCTCCAACATGCTAGCAT TTGGACCTCCACCACAGCAGCCGCATAACTTCGAATTCTCAGCATTTGGTCTGTCCATGC AATCCCCAGCTCCTAATCCTTTTGATGACTGGCCTGGACGGTTGCAGGAGAACCGCGGTG GTGTTGATGACTGTCTGATGGAGGAGATAAGAGGGAGAAGCCATGACATGCTGGAGAATG AAGAAGAGATGCAACATATGCTGCGCATTCTTAGCGGCGGGGCAGCAGCAAACATGAATA ATATTAAGGCTGCCATGCGGTGGGGCATCTTCGTCAGGAAGAAAGCAGCTGAGAGAAGAG CTCAGCTTGTTGAGCTGGATGACTAGGGGATACGGATGTTGGTAAGACACTTGTTTTTCT CGTCTTGTATAATTGCTTTGTTGACGCAATTATAGTCAGGATCTCAAGCTCCAAAAGTAT GAATGGACTCACGTTGGTTGTATAGGTAGCTGTTTGATGGTCATTATCTAAGTTTTGTTG GTGTTCAGAAAAACAAAACTGCTACAACATTGGCCTCTACTGTGCAAACTTATTTGTTGG AGATTGGACACTTGAAACAGGCTTTTTTTATGGGAACTAGCAGGT
Protein Sequence (622 aa)
>BART1_0-u12609.018 622 150831_barley_pseudomolecules MQRQGRHMERSGSKRALDPGGSGGGGGDDERDPKRPRVPALASVIVEALKLDSLQKLCSS LEPILRRVVSEEVERALAKLGPAAAPARIEGRTSPKRIEGPNGSNLQLQFRSRLALPLFT GGKVEGEQGASIHVVLLDANTGHVVTSGPQSSAKLDVLVLEGDFNKEKDEDWTEEEFESH IVKEREGKRPLLNGDIHVTLKEGVGTIGELIFTDNSSWIRSRKFRLGMRVSSGFCDGVRI KEAKTEAFTVKDHRGELYKKHYPPALKDDVWRLEKIGKDGAFHGKLNSNGIYTVEHFLQL LVKDQQKLRSILGTGMSNKMWESLVEHAKTCVLSGKHYIYYSKDTASVGAIFNNIYEFTG LIADDQFISTENLTENQRVFADTLVKQAYDDWINVVEYDGKGLLKFKQKKKSVTTRSDVA NVSTSYTSYDSAHSQKQLARGHANIERSLMSSTTKADETRIASNGNQVAIYEANPQDISP SITMQYGMSSLIPEGQFNGSSIQTQASRSSNMLAFGPPPQQPHNFEFSAFGLSMQSPAPN PFDDWPGRLQENRGGVDDCLMEEIRGRSHDMLENEEEMQHMLRILSGGAAANMNNIKAAM RWGIFVRKKAAERRAQLVELDD