- Transcript BART1_0-u12609.010
- Transcript IDBART1_0-u12609.010
- Gene IDBART1_0-u12609
Barley RTD
Exon Structure of BART1_0-u12609.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 560838559 | 560838385 | - |
| chr2H | 2 | 560839280 | 560838664 | - |
| 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 | 560844517 | 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 | 16.6492 | 28.5912 | 37.2786 |
| morex | ETI | 23.3828 | 23.7336 | 31.0537 |
| morex | LEA | 29.1126 | 36.6703 | 26.8396 |
| morex | EPI | 2.69758 | 12.1414 | 8.49579 |
| morex | ROO | 0.0000112623 | 28.0037 | 8.27983 |
| morex | ROO2 | 18.5052 | 18.4884 | 26.9408 |
| morex | NOD | 24.0257 | 32.0286 | 25.891 |
| morex | RAC | 21.4544 | 24.7111 | 18.0632 |
| morex | INF1 | 27.8379 | 32.4184 | 23.683 |
| morex | INF2 | 15.9031 | 18.1664 | 20.3994 |
| morex | CAR5 | 23.3014 | 12.4007 | 17.2439 |
| morex | CAR15 | 8.85722 | 9.37444 | 9.22502 |
| morex | LEM | 6.15802 | 9.38156 | 5.12602 |
| morex | LOD | 1.2188 | 1.48295 | 0.918689 |
| morex | PAL | 0 | 0.194833 | 3.60929 |
| morex | SEN | 22.0742 | 19.2844 | 16.3686 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os04g36660.1 | +1 | 0.0 | 973 | 546/659 (83%) | protein|calmodulin binding protein, putative, expressed |
| TAIR PP10 | AT2G18750 @ ARAPORT AT2G18750.3 @ TAIR |
+1 | 0.0 | 620 | 366/667 (55%) | Symbols: | Calmodulin-binding protein | chr2:8125827-8128363 FORWARD LENGTH=622 |
| BRACH PP3 | Bradi3g46060.1.p | +1 | 0.0 | 897 | 502/661 (76%) | 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 (2380 bp)
>BART1_0-u12609.010 2380 150831_barley_pseudomolecules GGCGCCACCTCCACCCACGCCACACATAGATCTCTCTCTCTCTCCCTCCATCTCTTGCTT TGCCTCTAGTCGTCGCCCAGTCGCTGCCGCACTGCTCCGGCTCGAGCTCGACGCGGGAAG GAGCAGCCCGGGCCTTCTCCAACCCTCGTGCCGCTATCGTTTGCCAGTTACTAGTTGCTA AGATCTGACCCACGGCGCCGGCAAGGTTGTGGCGCCGCGGAGATGCAGAGGCAGGGGCGC CACATGGAGCGGTCTGGCTCCAAGCGGGCGCTAGACCCTGGCGGCAGTGGCGGAGGCGGC GGCGACGACGAACGTGATCCTAAACGGCCGCGCGTCCCGGCCCTCGCCAGTGTCATTGTA GAAGCTCTCAAGTTGGACAGTTTGCAGAAGCTTTGTTCATCCCTGGAGCCGATTCTCCGA AGAGTTGTCAGCGAAGAAGTAGAGCGTGCTTTAGCCAAATTGGGACCTGCAGCAGCACCT GCTAGAATTGAAGGAAGGACCTCTCCCAAAAGAATTGAGGGCCCCAATGGTAGTAACCTC CAGCTTCAGTTTCGGAGTAGGTTAGCACTCCCACTCTTTACTGGAGGAAAAGTGGAAGGC GAGCAGGGAGCATCAATACATGTTGTGCTGTTAGATGCAAACACTGGACATGTCGTCACT TCAGGACCCCAGTCATCTGCGAAACTGGATGTTCTTGTTCTCGAGGGTGATTTTAATAAA GAGAAGGACGAGGATTGGACTGAAGAAGAATTTGAGAGCCACATTGTGAAAGAACGTGAA GGGAAGAGGCCTCTTTTAAACGGTGATATCCATGTGACACTTAAAGAAGGCGTAGGGACC ATAGGAGAGCTTATCTTCACTGACAATTCCAGCTGGATAAGGAGCAGAAAATTCAGACTT GGGATGAGAGTCTCTTCAGGATTTTGTGACGGAGTTCGTATCAAAGAGGCGAAGACAGAG GCTTTTACTGTGAAAGATCACAGAGGAGAATTGTACAAGAAACATTACCCTCCTGCGCTT AAGGATGATGTTTGGAGACTGGAAAAGATTGGAAAGGACGGTGCATTCCACGGGAAACTA AACTCAAACGGAATCTATACAGTTGAACATTTTCTTCAACTTCTTGTTAAAGATCAACAG AAGTTAAGAAGTATCCTTGGTACTGGCATGTCAAATAAGATGTGGGAAAGTCTTGTTGAA CATGCAAAAACTTGTGTTCTGAGTGGCAAACATTATATATATTACTCGAAGGATACAGCA AGTGTTGGTGCAATATTCAATAACATATATGAGTTCACTGGTTTGATTGCTGATGATCAG TTTATTTCAACGGAAAATCTTACTGAAAACCAGAGGGTGTTTGCGGATACGTTGGTGAAG CAAGCATACGATGATTGGATCAATGTTGTAGAATATGATGGCAAGGGATTGTTGAAATTT AAGCAGAAAAAGAAATCTGTCACAACAAGAAGTGATGTTGCAAATGTCTCTACAAGCTAC ACTTCTTATGATTCAGCGCACTCTCAGAAACAATTGGCACGAGGACATGCCAATATTGAG CGATCTCTCATGAGCAGTACGACTAAAGCAGACGAGACAAGAATTGCATCCAACGGGAAT CAAGTAGCAATATATGAAGCCAATCCTCAGGACATTTCACCAAGTATTACCATGCAATAT GGCATGAGTTCATTGATCCCTGAAGGCCAGTTCAATGGCTCTTCCATCCAAACTCAAGCA TCAAGAAGCTCCAACATGCTAGCATTTGGACCTCCACCACAGCAGCCGCATAACTTCGAA TTCTCAGCATTTGGTCTGTCCATGCAATCCCCAGCTCCTAATCCTTTTGATGACTGGCCT GGACGGTTGCAGGAGAACCGCGGTGGTGTTGATGACTGTCTGATGGAGGAGATAAGAGGG AGAAGCCATGACATGCTGGAGAATGAAGAAGAGATGCAACATATGCTGCGCATTCTTAGC GGCGGGGCAGCAGCAAACATGAATAATGTAGGTGGCTTTCCCTCCTACCCTTCTCCTGTA CCGGACTTCAACTTCGTGGATGATCGTGCTCCCTCATCCGGTAAGGCTGTTGTTGGGTGG CTTAAGATTAAGGCTGCCATGCGGTGGGGCATCTTCGTCAGGAAGAAAGCAGCTGAGAGA AGAGCTCAGCTTGTTGAGCTGGATGACTAGGGGATACGGATGTTGGTAGCTGTTTGATGG TCATTATCTAAGTTTTGTTGGTGTTCAGAAAAACAAAACTGCTACAACATTGGCCTCTAC TGTGCAAACTTATTTGTTGGAGATTGGACACTTGAAACAGGCTTTTTTTATGGGAACTAG CAGGTGATCTGCTTTTGCATTAAATGGGCAAATGAGTTAC
Protein Sequence (655 aa)
>BART1_0-u12609.010 655 150831_barley_pseudomolecules MQRQGRHMERSGSKRALDPGGSGGGGGDDERDPKRPRVPALASVIVEALKLDSLQKLCSS LEPILRRVVSEEVERALAKLGPAAAPARIEGRTSPKRIEGPNGSNLQLQFRSRLALPLFT GGKVEGEQGASIHVVLLDANTGHVVTSGPQSSAKLDVLVLEGDFNKEKDEDWTEEEFESH IVKEREGKRPLLNGDIHVTLKEGVGTIGELIFTDNSSWIRSRKFRLGMRVSSGFCDGVRI KEAKTEAFTVKDHRGELYKKHYPPALKDDVWRLEKIGKDGAFHGKLNSNGIYTVEHFLQL LVKDQQKLRSILGTGMSNKMWESLVEHAKTCVLSGKHYIYYSKDTASVGAIFNNIYEFTG LIADDQFISTENLTENQRVFADTLVKQAYDDWINVVEYDGKGLLKFKQKKKSVTTRSDVA NVSTSYTSYDSAHSQKQLARGHANIERSLMSSTTKADETRIASNGNQVAIYEANPQDISP SITMQYGMSSLIPEGQFNGSSIQTQASRSSNMLAFGPPPQQPHNFEFSAFGLSMQSPAPN PFDDWPGRLQENRGGVDDCLMEEIRGRSHDMLENEEEMQHMLRILSGGAAANMNNVGGFP SYPSPVPDFNFVDDRAPSSGKAVVGWLKIKAAMRWGIFVRKKAAERRAQLVELDD