- Transcript BART1_0-u12609.005
- Transcript IDBART1_0-u12609.005
- Gene IDBART1_0-u12609
Barley RTD
Exon Structure of BART1_0-u12609.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 560839298 | 560838345 | - |
| chr2H | 2 | 560840111 | 560839880 | - |
| chr2H | 3 | 560841176 | 560840973 | - |
| chr2H | 4 | 560841423 | 560841263 | - |
| chr2H | 5 | 560841998 | 560841505 | - |
| chr2H | 6 | 560842181 | 560842111 | - |
| chr2H | 7 | 560842352 | 560842277 | - |
| chr2H | 8 | 560844610 | 560844063 | - |
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 | 0.0868234 |
| morex | LEA | 1.80475 | 1.52855 | 0.491351 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0.00000000101094 | 0.794217 |
| morex | ROO2 | 0.0624622 | 1.51731 | 0.0000000223011 |
| morex | NOD | 2.20191 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 1.00106 | 0 |
| morex | INF2 | 0.00000525789 | 0 | 0 |
| morex | CAR5 | 1.00456 | 0 | 0.638088 |
| morex | CAR15 | 0.0000198279 | 0.394338 | 0.058868 |
| morex | LEM | 0.463515 | 0 | 0.0202042 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0.330834 | 0 |
| morex | SEN | 1.19026 | 0 | 0 |
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 | 971 | 546/665 (82%) | protein|calmodulin binding protein, putative, expressed |
| TAIR PP10 | AT5G57580 @ ARAPORT AT5G57580.1 @ TAIR |
+1 | 0.0 | 609 | 362/642 (56%) | Symbols: | Calmodulin-binding protein | chr5:23314994-23317683 REVERSE LENGTH=647 |
| BRACH PP3 | Bradi3g46060.1.p | +1 | 0.0 | 891 | 502/667 (75%) | 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 (2740 bp)
>BART1_0-u12609.005 2740 150831_barley_pseudomolecules ACTTGTCATCCAGGTTACCTGACTGACGGCGCGCGCGGTTGTTGGCGCCTCGTACGCGAG CCAAAACGAGTAAACAAAGCAAAGGCAAAGGCGGGCGCCACCTCCACCCACGCCACACAT AGATCTCTCTCTCTCTCCCTCCATCTCTTGCTTTGCCTCTAGTCGTCGCCCAGTCGCTGC CGCACTGCTCCGGCTCGAGCTCGACGCGGGAAGGAGCAGCCCGGGCCTTCTCCAACCCTC GTGCCGCTATCGTTTGCCAGTTACTAGTTGCTAAGGTTCGGCACCACGCCTCCTTGTCCT TGACTGCGATTCGAGGTGTTGATTTTTATGGAGTTTCGGGCCGGTTGTTTTTAATCCCCG AATTGTGGTGGTGGGCGCAGATCTGACCCACGGCGCCGGCAAGGTTGTGGCGCCGCGGAG ATGCAGAGGCAGGGGCGCCACATGGAGCGGTCTGGCTCCAAGCGGGCGCTAGACCCTGGC GGCAGTGGCGGAGGCGGCGGCGACGACGAACGTGATCCTAAACGGCCGCGCGTCCCGGCC CTCGCCAGTGTCATTGTAGAAGCTCTCAAGTTGGACAGTTTGCAGAAGCTTTGTTCATCC CTGGAGCCGATTCTCCGAAGAGTTGTCAGCGAAGAAGTAGAGCGTGCTTTAGCCAAATTG GGACCTGCAGCAGCACCTGCTAGAATTGAAGGAAGGACCTCTCCCAAAAGAATTGAGGGC CCCAATGGTAGTAACCTCCAGCTTCAGTTTCGGAGTAGGTTAGCACTCCCACTCTTTACT GGAGGAAAAGTGGAAGGCGAGCAGGGAGCATCAATACATGTTGTGCTGTTAGATGCAAAC ACTGGACATGTCGTCACTTCAGGACCCCAGTCATCTGCGAAACTGGATGTTCTTGTTCTC GAGGGTGATTTTAATAAAGAGAAGGACGAGGATTGGACTGAAGAAGAATTTGAGAGCCAC ATTGTGAAAGAACGTGAAGGGAAGAGGCCTCTTTTAAACGGTGATATCCATGTGACACTT AAAGAAGGCGTAGGGACCATAGGAGAGCTTATCTTCACTGACAATTCCAGCTGGATAAGG AGCAGAAAATTCAGACTTGGGATGAGAGTCTCTTCAGGATTTTGTGACGGAGTTCGTATC AAAGAGGCGAAGACAGAGGCTTTTACTGTGAAAGATCACAGAGGAGAATTGTACAAGAAA CATTACCCTCCTGCGCTTAAGGATGATGTTTGGAGACTGGAAAAGATTGGAAAGGACGGT GCATTCCACGGGAAACTAAACTCAAACGGAATCTATACAGTTGAACATTTTCTTCAACTT CTTGTTAAAGATCAACAGAAGTTAAGAAGTATCCTTGGTACTGGCATGTCAAATAAGATG TGGGAAAGTCTTGTTGAACATGCAAAAACTTGTGTTCTGAGTGGCAAACATTATATATAT TACTCGAAGGATACAGCAAGTGTTGGTGCAATATTCAATAACATATATGAGTTCACTGGT TTGATTGCTGATGATCAGTTTATTTCAACGGAAAATCTTACTGAAAACCAGAGGGTGTTT GCGGATACGTTGGTGAAGCAAGCATACGATGATTGGATCAATGTTGTAGAATATGATGGC AAGGGATTGTTGAAATTTAAGCAGAAAAAGAAATCTGTCACAACAAGAAGTGATGTTGCA AATGTCTCTACAAGCTACACTTCTTATGATTCAGCGCACTCTCAGAAACAATTGGCACGA GGACATGCCAATATTGAGCGATCTCTCATGAGCAGTACGACTAAAGTTCTTTTGTTCTGT TCAGCAGACGAGACAAGAATTGCATCCAACGGGAATCAAGTAGCAATATATGAAGCCAAT CCTCAGGACATTTCACCAAGTATTACCATGCAATATGGCATGAGTTCATTGATCCCTGAA GGCCAGTTCAATGGCTCTTCCATCCAAACTCAAGCATCAAGAAGCTCCAACATGCTAGCA TTTGGACCTCCACCACAGCAGCCGCATAACTTCGAATTCTCAGCATTTGGTCTGTCCATG CAATCCCCAGCTCCTAATCCTTTTGATGACTGGCCTGGACGGTTGCAGGAGAACCGCGGT GGTGTTGATGACTGTCTGATGGAGGAGATAAGAGGGAGAAGCCATGACATGCTGGAGAAT GAAGAAGAGATGCAACATATGCTGCGCATTCTTAGCGGCGGGGCAGCAGCAAACATGAAT AATGTAGGTGGCTTTCCCTCCTACCCTTCTCCTGTACCGGACTTCAACTTCGTGGATGAT CGTGCTCCCTCATCCGGTAAGGCTGTTGTTGGGTGGCTTAAGATTAAGGCTGCCATGCGG TGGGGCATCTTCGTCAGGAAGAAAGCAGCTGAGAGAAGAGCTCAGCTTGTTGAGCTGGAT GACTAGGGGATACGGATGTTGGTAAGACACTTGTTTTTCTCGTCTTGTATAATTGCTTTG TTGACGCAATTATAGTCAGGATCTCAAGCTCCAAAAGTATGAATGGACTCACGTTGGTTG TATAGGTAGCTGTTTGATGGTCATTATCTAAGTTTTGTTGGTGTTCAGAAAAACAAAACT GCTACAACATTGGCCTCTACTGTGCAAACTTATTTGTTGGAGATTGGACACTTGAAACAG GCTTTTTTTATGGGAACTAGCAGGTGATCTGCTTTTGCATTAAATGGGCAAATGAGTTAC TCCCTCCATCACAGTTTATAAGGCGTGCACGTGTATCTAG
Protein Sequence (661 aa)
>BART1_0-u12609.005 661 150831_barley_pseudomolecules MQRQGRHMERSGSKRALDPGGSGGGGGDDERDPKRPRVPALASVIVEALKLDSLQKLCSS LEPILRRVVSEEVERALAKLGPAAAPARIEGRTSPKRIEGPNGSNLQLQFRSRLALPLFT GGKVEGEQGASIHVVLLDANTGHVVTSGPQSSAKLDVLVLEGDFNKEKDEDWTEEEFESH IVKEREGKRPLLNGDIHVTLKEGVGTIGELIFTDNSSWIRSRKFRLGMRVSSGFCDGVRI KEAKTEAFTVKDHRGELYKKHYPPALKDDVWRLEKIGKDGAFHGKLNSNGIYTVEHFLQL LVKDQQKLRSILGTGMSNKMWESLVEHAKTCVLSGKHYIYYSKDTASVGAIFNNIYEFTG LIADDQFISTENLTENQRVFADTLVKQAYDDWINVVEYDGKGLLKFKQKKKSVTTRSDVA NVSTSYTSYDSAHSQKQLARGHANIERSLMSSTTKVLLFCSADETRIASNGNQVAIYEAN PQDISPSITMQYGMSSLIPEGQFNGSSIQTQASRSSNMLAFGPPPQQPHNFEFSAFGLSM QSPAPNPFDDWPGRLQENRGGVDDCLMEEIRGRSHDMLENEEEMQHMLRILSGGAAANMN NVGGFPSYPSPVPDFNFVDDRAPSSGKAVVGWLKIKAAMRWGIFVRKKAAERRAQLVELD D