- Transcript BART1_0-u12609.004
- Transcript IDBART1_0-u12609.004
- Gene IDBART1_0-u12609
Barley RTD
Exon Structure of BART1_0-u12609.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 560839280 | 560838338 | - |
| chr2H | 2 | 560840111 | 560839583 | - |
| chr2H | 3 | 560841176 | 560840973 | - |
| chr2H | 4 | 560841423 | 560841263 | - |
| chr2H | 5 | 560841998 | 560841505 | - |
| chr2H | 6 | 560842181 | 560842111 | - |
| chr2H | 7 | 560842689 | 560842277 | - |
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 | 2.33931 | 1.5833 | 5.73507 |
| morex | ETI | 2.04859 | 4.59584 | 0.808363 |
| morex | LEA | 1.99179 | 1.26527 | 4.83425 |
| morex | EPI | 1.86554 | 2.47201 | 2.6487 |
| morex | ROO | 0.504512 | 1.85434 | 1.51005 |
| morex | ROO2 | 0.910444 | 0.469251 | 0.0000228601 |
| morex | NOD | 3.33076 | 0.25048 | 1.24734 |
| morex | RAC | 0.276809 | 1.15862 | 0.22845 |
| morex | INF1 | 1.29806 | 0.256108 | 0.62995 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0.86954 | 0.600772 |
| morex | CAR15 | 0 | 0.633858 | 0 |
| morex | LEM | 0 | 0.10399 | 0 |
| morex | LOD | 0 | 0 | 0.00000000242298 |
| morex | PAL | 0 | 0 | 0.0206917 |
| morex | SEN | 1.21935 | 2.15133 | 2.05028 |
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 | 669 | 360/406 (89%) | protein|calmodulin binding protein, putative, expressed |
| TAIR PP10 | AT2G18750 @ ARAPORT AT2G18750.3 @ TAIR |
+3 | 1e-174 | 521 | 261/357 (73%) | Symbols: | Calmodulin-binding protein | chr2:8125827-8128363 FORWARD LENGTH=622 |
| BRACH PP3 | Bradi3g46060.1.p | +3 | 0.0 | 621 | 337/415 (81%) | 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 (2815 bp)
>BART1_0-u12609.004 2815 150831_barley_pseudomolecules GAACTCTCCAACGCCCACACACATGATGATGCCTACGTGGCACTGAAATTCCAACAGATT CCTCTAGGATTCATGCAAAACAGATTCAACGTGGATCGACCGTGTGGGCGAAATGCAAAC ATGCGACACGTGTGGGCGTTATCATTTGGGATTTTCTAAAACCACATGACAACTATGTGA CACATGCTTAATTTCATCTAAGAATTTTATATTGGTTAACCATTGCACAACAAATGGTAT ACGTAAATCTAAGGTTCTAAGGTGTGCATCCTTTGTTTATTTGAGGTTTATTATACCGTG CTTTGATAAACCTCTGCAACTTGTCCTTTTCTTTCAGTGTCATTGTAGAAGCTCTCAAGT TGGACAGTTTGCAGAAGCTTTGTTCATCCCTGGAGCCGATTCTCCGAAGAGTTGTCAGCG AAGAAGTAGAGCGTGCTTTAGCCAAATTGGGACCTGCAGCAGCACCTGCTAGAATTGAAG GAAGGACCTCTCCCAAAAGAATTGAGGGCCCCAATGGTAGTAACCTCCAGCTTCAGTTTC GGAGTAGGTTAGCACTCCCACTCTTTACTGGAGGAAAAGTGGAAGGCGAGCAGGGAGCAT CAATACATGTTGTGCTGTTAGATGCAAACACTGGACATGTCGTCACTTCAGGACCCCAGT CATCTGCGAAACTGGATGTTCTTGTTCTCGAGGGTGATTTTAATAAAGAGAAGGACGAGG ATTGGACTGAAGAAGAATTTGAGAGCCACATTGTGAAAGAACGTGAAGGGAAGAGGCCTC TTTTAAACGGTGATATCCATGTGACACTTAAAGAAGGCGTAGGGACCATAGGAGAGCTTA TCTTCACTGACAATTCCAGCTGGATAAGGAGCAGAAAATTCAGACTTGGGATGAGAGTCT CTTCAGGATTTTGTGACGGAGTTCGTATCAAAGAGGCGAAGACAGAGGCTTTTACTGTGA AAGATCACAGAGGAGAATTGTACAAGAAACATTACCCTCCTGCGCTTAAGGATGATGTTT GGAGACTGGAAAAGATTGGAAAGGACGGTGCATTCCACGGGAAACTAAACTCAAACGGAA TCTATACAGTTGAACATTTTCTTCAACTTCTTGTTAAAGATCAACAGAAGTTAAGAAGTA TCCTTGGTACTGGCATGTCAAATAAGATGTGGGAAAGTCTTGTTGAACATGCAAAAACTT GTGTTCTGAGTGGCAAACATTATATATATTACTCGAAGGATACAGCAAGTGTTGGTGCAA TATTCAATAACATATATGAGTTCACTGGTTTGATTGCTGATGATCAGTTTATTTCAACGG AAAATCTTACTGAAAACCAGAGGGTGTTTGCGGATACGTTGGTGAAGCAAGCATACGATG ATTGGATCAATGTTGTAGAATATGATGGCAAGGGATTGTTGAAATTTAAGCAGAAAAAGA AATCTGTCACAACAAGAAGTGATGTTGCAAATGTCTCTACAAGCTACACTTCTTATGATT CAGCGCACTCTCAGAAACAATTGGCACGAGGACATGCCAATATTGAGCGATCTCTCATGA GCAGTACGACTAAAGGTATCTGTTTTTTGCCTCTTGTAGCTCAAGACACTTCTTTCTGAA TGTTTTTGGTGTGCCCTTCGCATTAGCCATTCTTCTTGAGCACACTAATTTAGATTATTG AAAATGCACTTAAATTCTATTATGACCTAAAGTTCATGGTTCCAGTTTCTATCCACCTAC CATCCTTACATGAAAGGACAATAAATATTGTTTCCAGTGTCTATTACTCTTGCTAACATC CTTTTATACCTTTTGTATTAACGTGTTTGAAATATGCAAAATGGGATGGGATGCATCATC AGGGTCTAAAGACAGACGAGACAAGAATTGCATCCAACGGGAATCAAGTAGCAATATATG AAGCCAATCCTCAGGACATTTCACCAAGTATTACCATGCAATATGGCATGAGTTCATTGA TCCCTGAAGGCCAGTTCAATGGCTCTTCCATCCAAACTCAAGCATCAAGAAGCTCCAACA TGCTAGCATTTGGACCTCCACCACAGCAGCCGCATAACTTCGAATTCTCAGCATTTGGTC TGTCCATGCAATCCCCAGCTCCTAATCCTTTTGATGACTGGCCTGGACGGTTGCAGGAGA ACCGCGGTGGTGTTGATGACTGTCTGATGGAGGAGATAAGAGGGAGAAGCCATGACATGC TGGAGAATGAAGAAGAGATGCAACATATGCTGCGCATTCTTAGCGGCGGGGCAGCAGCAA ACATGAATAATGTAGGTGGCTTTCCCTCCTACCCTTCTCCTGTACCGGACTTCAACTTCG TGGATGATCGTGCTCCCTCATCCGGTAAGGCTGTTGTTGGGTGGCTTAAGATTAAGGCTG CCATGCGGTGGGGCATCTTCGTCAGGAAGAAAGCAGCTGAGAGAAGAGCTCAGCTTGTTG AGCTGGATGACTAGGGGATACGGATGTTGGTAAGACACTTGTTTTTCTCGTCTTGTATAA TTGCTTTGTTGACGCAATTATAGTCAGGATCTCAAGCTCCAAAAGTATGAATGGACTCAC GTTGGTTGTATAGGTAGCTGTTTGATGGTCATTATCTAAGTTTTGTTGGTGTTCAGAAAA ACAAAACTGCTACAACATTGGCCTCTACTGTGCAAACTTATTTGTTGGAGATTGGACACT TGAAACAGGCTTTTTTTATGGGAACTAGCAGGTGATCTGCTTTTGCATTAAATGGGCAAA TGAGTTACTCCCTCCATCACAGTTTATAAGGCGTGCACGTGTATCTAGGTCGTCA
Protein Sequence (242 aa)
>BART1_0-u12609.004 242 150831_barley_pseudomolecules MRVSSGFCDGVRIKEAKTEAFTVKDHRGELYKKHYPPALKDDVWRLEKIGKDGAFHGKLN SNGIYTVEHFLQLLVKDQQKLRSILGTGMSNKMWESLVEHAKTCVLSGKHYIYYSKDTAS VGAIFNNIYEFTGLIADDQFISTENLTENQRVFADTLVKQAYDDWINVVEYDGKGLLKFK QKKKSVTTRSDVANVSTSYTSYDSAHSQKQLARGHANIERSLMSSTTKGICFLPLVAQDT SF