- Transcript BART1_0-u29974.006
- Transcript IDBART1_0-u29974.006
- Gene IDBART1_0-u29974
Barley RTD
Exon Structure of BART1_0-u29974.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 511456072 | 511455850 | + |
| chr4H | 2 | 511457495 | 511457229 | + |
| chr4H | 3 | 511457957 | 511457592 | + |
| chr4H | 4 | 511458147 | 511458084 | + |
| chr4H | 5 | 511458396 | 511458273 | + |
| chr4H | 6 | 511459180 | 511458505 | + |
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 | 0.223722 | 2.82998 | 1.12503 |
| morex | ETI | 2.3992 | 0.876343 | 0.659928 |
| morex | LEA | 8.39167 | 14.2774 | 11.0487 |
| morex | EPI | 0 | 1.52816 | 0.386236 |
| morex | ROO | 2.05155 | 2.94561 | 1.82848 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 7.78628 | 5.82492 | 0 |
| morex | RAC | 0.694551 | 1.46836 | 0.643886 |
| morex | INF1 | 0.76071 | 1.82557 | 1.05236 |
| morex | INF2 | 3.66098 | 2.47641 | 4.67217 |
| morex | CAR5 | 2.25964 | 0.678271 | 0.46356 |
| morex | CAR15 | 0.385088 | 0.00603572 | 0.959199 |
| morex | LEM | 3.20348 | 2.20708 | 0.447453 |
| morex | LOD | 2.94012 | 1.06085 | 3.78854 |
| morex | PAL | 1.24982 | 2.04417 | 3.4082 |
| morex | SEN | 1.06664 | 5.96379 | 6.64936 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g15890.2 | +2 | 4e-42 | 155 | 71/81 (88%) | protein|RNA recognition motif containing protein, expressed |
| TAIR PP10 | AT1G07350 @ ARAPORT AT1G07350.2 @ TAIR |
+2 | 6e-36 | 130 | 62/90 (69%) | Symbols: | RNA-binding (RRM/RBD/RNP motifs) family protein | chr1:2258816-2259586 REVERSE LENGTH=129 |
| BRACH PP3 | Bradi1g67145.1.p | +2 | 1e-45 | 165 | 77/82 (94%) | pacid=32805382 transcript=Bradi1g67145.1 locus=Bradi1g67145 ID=Bradi1g67145.1.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 (1720 bp)
>BART1_0-u29974.006 1720 150831_barley_pseudomolecules GCCGTGCGGTGCGTACACTAAGCCGATTCAACCGGATTTGAGAAAGTCTCGCGTCCGGCC CTCTCCAGAACCTTCCGGCAGGTCCTCTCTATTTATTCACACGAGCGCGCGTGCACCATC CAACGGGAAAAGAGAGGCGGTGGTCGCAGGTCGGAACTGACGGAGGCAGAGGCGAAGACG AAGACAGAGACTCGAGAGGCCTCGCAGCGGCGACGAATCAAAGATGTCGTATTCGAGGTA CAGGAGTCGTTCAAGGTAAACATTCTTTATCCTCAGAAATGCTAATATTATGTTTGTGTC CATGTTCTATGATTTTTGGAGTCTAGGCAGTTCTGGCTCTAATTTTGAGGAGTACATGAT ATCCATGTAATGTGTTAGGAGTGTGGACTCGAGTGATGTTGAGAACCCTGGGAACAATCT CTTTGTGACTGGTTTATCATCTCGTCTAACTGATCGAGATCTGGAGAAGCATTTCTCTAC AGAGGGAGAGGTGATTGATGCAAGTATTGTACTTGATCCATGGACAAGGGAATCACGGGG ATTTGGATTTGTTACCATGGCCAATCTTAAGGAGGCAGAACGCTGCATCAAATATCTCGA CAGTTCAGTGCTGGAAGGTCGTGTCATTACTGTTGAGAAGGTATTGCCAAAAGATTGTTA ACTCTGATATTTGTCCATTCTCCTTCTATATAGAGTGGAACTATTATGTACAGATTAGCC TTCCAAGCTGAATATTTGAGTGCTCTTCTTGTTTGAAGATTTTGTTGACAGCAGCAGGTT GATGCCCGCAGCTGTATGGCATCAAATTCAAAAGATACACAACCTAAGATCGAAACAATG CTACCTCAACCAAAGGGCAAAGAGAAGACGAGGTCGAACCCCAACACCGGGAAGGTACCT TGGCAGCAAATCATCGCGTCGAAGGAGGTATTCCCGAAGCAGGTCACCTGTTAGGAGAGA CCGTTACGGCTCACGCTACCCGCCCGAGCTAGAACGTTCTTATTCTCCTTATCGCAGAGG ACGATCATACTCTCGTCATGACAGGTCGGAGTCTCCCTACCACAGGCGTAGATCCTACTC ACCCTACGACAGGCGTCACTCACCCCGCTATGGTCATCGCCACCGTTCAAGATCCCCATA CAGTTACAGAAGGCGGAGGTCATGCTCCCATGACCGTTATGTTTCAGCATACTACAGCAG GCGCTATTCTCCAAGGAACAGAAGACGGAGTTACTCTCGCAGCGTATCACCACGCAGGAG CTACTCCCGTAGCTGCTCCCTGGCGTCAGAAGAATCAAGGAGCTGTTCTCCGCAGAAAGG ATATGCTGAAAGCAAGGCATCGCGCAGCAGGTCACCTGCGATTGCGAAGAGGCGTTCTAG AGAAAGCTATGCGCACAGCCGCAGTTCATGCTCGAGGTCCGTCTCCAGGGAGCGCTCAAC CTCATCAAGCACCTGATGGTTTACAAAGTGCCTTGATGACTTTGGATGTTTGTAAACAAT GTGGATGGTATGATCGTGTACCTAGTGAAGCAGCTGTATTTCGTCATCGTTAACATCTTA AATTGCAGTCTGCTTCCATACTATAGGAGAAAAATGCAGAAAATTTCCTACAGATTGCCT ATTCCACAAGGATTTTATAGCATACTTCTACAACGGAAAAAACGCAGAAATTTTCATAAA TATTGGCGAGGTCATTTCTTTGTTTCAGATGACCCAGTGC
Protein Sequence (106 aa)
>BART1_0-u29974.006 106 150831_barley_pseudomolecules MTRPSSTELSRYLMQRSASLRLAMVTNPNPRDSLVHGSSTILASITSPSVEKCFSRSRSV RRDDKPVTKRLFPGFSTSLESTLLTHYMDIMYSSKLEPELPRLQKS