- Transcript BART1_0-u12609.016
- Transcript IDBART1_0-u12609.016
- Gene IDBART1_0-u12609
Barley RTD
Exon Structure of BART1_0-u12609.016
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 560839592 | 560838399 | - |
| chr2H | 2 | 560840111 | 560839880 | - |
| chr2H | 3 | 560841176 | 560840973 | - |
| chr2H | 4 | 560841423 | 560841263 | - |
| chr2H | 5 | 560841998 | 560841505 | - |
| chr2H | 6 | 560842352 | 560842111 | - |
| chr2H | 7 | 560844502 | 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 | 1.9484 | 2.45642 |
| morex | ETI | 0.752238 | 1.55437 | 0.000000398212 |
| morex | LEA | 1.80737 | 2.8863 | 0.00814989 |
| morex | EPI | 2.17557 | 0.751644 | 0.496854 |
| morex | ROO | 0 | 2.22854 | 0 |
| morex | ROO2 | 1.09804 | 0.00000148586 | 0.437145 |
| morex | NOD | 2.1115 | 1.44413 | 0 |
| morex | RAC | 1.18094 | 0 | 0.326825 |
| morex | INF1 | 1.8241 | 0 | 1.14 |
| morex | INF2 | 0.658083 | 0 | 0.441768 |
| morex | CAR5 | 0 | 0.7802 | 0.457755 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0.272104 |
| morex | SEN | 1.12143 | 1.25772 | 1.3759 |
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 | 620 | 335/380 (88%) | protein|calmodulin binding protein, putative, expressed |
| TAIR PP10 | AT2G18750 @ ARAPORT AT2G18750.3 @ TAIR |
+3 | 2e-155 | 473 | 237/331 (72%) | Symbols: | Calmodulin-binding protein | chr2:8125827-8128363 FORWARD LENGTH=622 |
| BRACH PP3 | Bradi3g46060.1.p | +3 | 0.0 | 573 | 315/406 (78%) | 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 (2967 bp)
>BART1_0-u12609.016 2967 150831_barley_pseudomolecules CACGCCACACATAGATCTCTCTCTCTCTCCCTCCATCTCTTGCTTTGCCTCTAGTCGTCG CCCAGTCGCTGCCGCACTGCTCCGGCTCGAGCTCGACGCGGGAAGGAGCAGCCCGGGCCT TCTCCAACCCTCGTGCCGCTATCGTTTGCCAGTTACTAGTTGCTAAGGTTCGGCACCACG CCTCCTTGTCCTTGACTGCGATTCGAGGTGTTGATTTTTATGGAGTTTCGGGCCGGTTGT TTTTAATCCCCGAATTGTGGTGGTGGGCGCAGATCTGACCCACGGCGCCGGCAAGGTTGT GGCGCCGCGGAGATGCAGAGGCAGGGGCGCCACATGGAGCGGTCTGGCTCCAAGCGGGCG CTAGACCCTGGCGGCAGTGGCGGAGGCGGCGGCGACGACGAACGTGATCCTAAACGGCCG CGCGTCCCGGCCCTCGCCAGTGTCATTGTAGAAGCTCTCAAGTTGGACAGTTTGCAGAAG CTTTGTTCATCCCTGGAGCCGATTCTCCGAAGAGTTGTGAGTTAAAGAACATGCGACATC TTTTATTAACTTGTTAATATACTCATCTGGCTGCTTTTATGATCAGTCGACACATGTTAT TGCATTTGTAGGTCAGCGAAGAAGTAGAGCGTGCTTTAGCCAAATTGGGACCTGCAGCAG CACCTGCTAGAATTGAAGGAAGGACCTCTCCCAAAAGAATTGAGGGCCCCAATGGTAGTA ACCTCCAGCTTCAGTTTCGGAGTAGGTTAGCACTCCCACTCTTTACTGGAGGAAAAGTGG AAGGCGAGCAGGGAGCATCAATACATGTTGTGCTGTTAGATGCAAACACTGGACATGTCG TCACTTCAGGACCCCAGTCATCTGCGAAACTGGATGTTCTTGTTCTCGAGGGTGATTTTA ATAAAGAGAAGGACGAGGATTGGACTGAAGAAGAATTTGAGAGCCACATTGTGAAAGAAC GTGAAGGGAAGAGGCCTCTTTTAAACGGTGATATCCATGTGACACTTAAAGAAGGCGTAG GGACCATAGGAGAGCTTATCTTCACTGACAATTCCAGCTGGATAAGGAGCAGAAAATTCA GACTTGGGATGAGAGTCTCTTCAGGATTTTGTGACGGAGTTCGTATCAAAGAGGCGAAGA CAGAGGCTTTTACTGTGAAAGATCACAGAGGAGAATTGTACAAGAAACATTACCCTCCTG CGCTTAAGGATGATGTTTGGAGACTGGAAAAGATTGGAAAGGACGGTGCATTCCACGGGA AACTAAACTCAAACGGAATCTATACAGTTGAACATTTTCTTCAACTTCTTGTTAAAGATC AACAGAAGTTAAGAAGTATCCTTGGTACTGGCATGTCAAATAAGATGTGGGAAAGTCTTG TTGAACATGCAAAAACTTGTGTTCTGAGTGGCAAACATTATATATATTACTCGAAGGATA CAGCAAGTGTTGGTGCAATATTCAATAACATATATGAGTTCACTGGTTTGATTGCTGATG ATCAGTTTATTTCAACGGAAAATCTTACTGAAAACCAGAGGGTGTTTGCGGATACGTTGG TGAAGCAAGCATACGATGATTGGATCAATGTTGTAGAATATGATGGCAAGGGATTGTTGA AATTTAAGCAGAAAAAGAAATCTGTCACAACAAGAAGTGATGTTGCAAATGTCTCTACAA GCTACACTTCTTATGATTCAGCGCACTCTCAGAAACAATTGGCACGAGGACATGCCAATA TTGAGCGATCTCTCATGAGCAGTACGACTAAAGGGTCTAAAGAGTAAGCATAACAATATT TTTATTCCTGCTGTTTAATTTCACAAATGAAAAGTGTCTTAGAATGTACTCCCTCTGTTC ATTAATATAAGTCATTTTTTTAGACTGACCAAAGTCTAAAAAACATCTTATATTAATGAA CAGAAGGAGTACATTTTACAATTTAGTTGATTTATGTGCTTAGAAAAGCTTGATTGCTGT ATTAGTTTATTCGCATGCCGCACTTTTAAGCCCTGATAGCATTTTATTTTCCATTTGTTA ATTATACTATTAGCTTGACTTTAGAAGTTCTTTTGTTCTGTTCAGCAGACGAGACAAGAA TTGCATCCAACGGGAATCAAGTAGCAATATATGAAGCCAATCCTCAGGACATTTCACCAA GTATTACCATGCAATATGGCATGAGTTCATTGATCCCTGAAGGCCAGTTCAATGGCTCTT CCATCCAAACTCAAGCATCAAGAAGCTCCAACATGCTAGCATTTGGACCTCCACCACAGC AGCCGCATAACTTCGAATTCTCAGCATTTGGTCTGTCCATGCAATCCCCAGCTCCTAATC CTTTTGATGACTGGCCTGGACGGTTGCAGGAGAACCGCGGTGGTGTTGATGACTGTCTGA TGGAGGAGATAAGAGGGAGAAGCCATGACATGCTGGAGAATGAAGAAGAGATGCAACATA TGCTGCGCATTCTTAGCGGCGGGGCAGCAGCAAACATGAATAATGTAGGTGGCTTTCCCT CCTACCCTTCTCCTGTACCGGACTTCAACTTCGTGGATGATCGTGCTCCCTCATCCGGTA AGGCTGTTGTTGGGTGGCTTAAGATTAAGGCTGCCATGCGGTGGGGCATCTTCGTCAGGA AGAAAGCAGCTGAGAGAAGAGCTCAGCTTGTTGAGCTGGATGACTAGGGGATACGGATGT TGGTAAGACACTTGTTTTTCTCGTCTTGTATAATTGCTTTGTTGACGCAATTATAGTCAG GATCTCAAGCTCCAAAAGTATGAATGGACTCACGTTGGTTGTATAGGTAGCTGTTTGATG GTCATTATCTAAGTTTTGTTGGTGTTCAGAAAAACAAAACTGCTACAACATTGGCCTCTA CTGTGCAAACTTATTTGTTGGAGATTGGACACTTGAAACAGGCTTTTTTTATGGGAACTA GCAGGTGATCTGCTTTTGCATTAAATG
Protein Sequence (232 aa)
>BART1_0-u12609.016 232 150831_barley_pseudomolecules MRVSSGFCDGVRIKEAKTEAFTVKDHRGELYKKHYPPALKDDVWRLEKIGKDGAFHGKLN SNGIYTVEHFLQLLVKDQQKLRSILGTGMSNKMWESLVEHAKTCVLSGKHYIYYSKDTAS VGAIFNNIYEFTGLIADDQFISTENLTENQRVFADTLVKQAYDDWINVVEYDGKGLLKFK QKKKSVTTRSDVANVSTSYTSYDSAHSQKQLARGHANIERSLMSSTTKGSKE