- Transcript BART1_0-u29974.008
- Transcript IDBART1_0-u29974.008
- Gene IDBART1_0-u29974
Barley RTD
Exon Structure of BART1_0-u29974.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 511456072 | 511455909 | + |
| chr4H | 2 | 511457495 | 511457229 | + |
| chr4H | 3 | 511457960 | 511457592 | + |
| chr4H | 4 | 511459243 | 511458084 | + |
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 | 0.739191 | 0 | 0 |
| morex | LEA | 1.69109 | 0.000542012 | 9.63895 |
| morex | EPI | 0.918838 | 1.48363 | 0.000000000294695 |
| morex | ROO | 0.0152041 | 0.00127333 | 1.14251 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.28171 | 9.22085 | 7.14495 |
| morex | RAC | 0 | 0 | 0.212882 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0.139752 |
| morex | CAR15 | 0 | 0.850965 | 0.260889 |
| morex | LEM | 1.77049 | 0.0155141 | 2.07065 |
| morex | LOD | 0.38636 | 0.472028 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 1.05615 | 0 | 0.676678 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g15890.2 | +3 | 9e-42 | 155 | 71/81 (88%) | protein|RNA recognition motif containing protein, expressed |
| TAIR PP10 | AT1G07350 @ ARAPORT AT1G07350.2 @ TAIR |
+3 | 1e-35 | 130 | 62/90 (69%) | Symbols: | RNA-binding (RRM/RBD/RNP motifs) family protein | chr1:2258816-2259586 REVERSE LENGTH=129 |
| BRACH PP3 | Bradi1g67145.1.p | +3 | 1e-45 | 166 | 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 (1960 bp)
>BART1_0-u29974.008 1960 150831_barley_pseudomolecules CCTCTCCAGAACCTTCCGGCAGGTCCTCTCTATTTATTCACACGAGCGCGCGTGCACCAT CCAACGGGAAAAGAGAGGCGGTGGTCGCAGGTCGGAACTGACGGAGGCAGAGGCGAAGAC GAAGACAGAGACTCGAGAGGCCTCGCAGCGGCGACGAATCAAAGATGTCGTATTCGAGGT ACAGGAGTCGTTCAAGGTAAACATTCTTTATCCTCAGAAATGCTAATATTATGTTTGTGT CCATGTTCTATGATTTTTGGAGTCTAGGCAGTTCTGGCTCTAATTTTGAGGAGTACATGA TATCCATGTAATGTGTTAGGAGTGTGGACTCGAGTGATGTTGAGAACCCTGGGAACAATC TCTTTGTGACTGGTTTATCATCTCGTCTAACTGATCGAGATCTGGAGAAGCATTTCTCTA CAGAGGGAGAGGTGATTGATGCAAGTATTGTACTTGATCCATGGACAAGGGAATCACGGG GATTTGGATTTGTTACCATGGCCAATCTTAAGGAGGCAGAACGCTGCATCAAATATCTCG ACAGTTCAGTGCTGGAAGGTCGTGTCATTACTGTTGAGAAGGTATTGCCAAAAGATTGTT AACTCTGATATTTGTCCATTCTCCTTCTATATAGAGTGGAACTATTATGTACAGATTAGC CTTCCAAGCTGAATATTTGAGTGCTCTTCTTGTTTGAAGATTTTGTTGACAGCAGCAGGT TGATGCCCGCAGCTGTATGGCATCAAATTCAAAAGATACACAACCTAAGATCGAAACAAT GCTACCTCAACCAAAGGGTTGCAAAGAGAAGACGAGGTCGAACCCCAACACCGGGAAGGT ACCTTGGCAGCAAATCATCGCGTCGTAAGTTACTGTGACATGATTTATCTTTTGACACCT CAGTACCATGAATTATATGCTGGAAAGTGAGCATGATGACACTTCATATCACATATGATT GTTGACATTTGATTATATGGTGATACCAGGAAGGAGGTATTCCCGAAGCAGGTCACCTGT TAGGAGAGACCGTTACGGCTCACGCTACCCGCCCGAGCTAGAACGTTCTTATTCTCCTTA TCGCAGAGGACGATCATACTCTCGTCATGACAGGCATAGATCATACTCCCCCTATGGAAG GAGGCCATCCTACTCCCCCTATGAAAGGAGGCCATCCTACTCTCCCTATGGCAGAAGGAG ATCATACTCTCCTTCCGACAGGTCGGAGTCTCCCTACCACAGGCGTAGATCCTACTCACC CTACGACAGGCGTCACTCACCCCGCTATGGTCATCGCCACCGTTCAAGATCCCCATACAG TTACAGAAGGCGGAGGTCATGCTCCCATGACCGTTATGTTTCAGCATACTACAGCAGGCG CTATTCTCCAAGGAACAGAAGACGGAGTTACTCTCGCAGCGTATCACCACGCAGGAGCTA CTCCCGTAGCTGCTCCCTGGCGTCAGAAGAATCAAGGAGCTGTTCTCCGCAGAAAGGATA TGCTGAAAGCAAGGCATCGCGCAGCAGGTCACCTGCGATTGCGAAGAGGCGTTCTAGAGA AAGCTATGCGCACAGCCGCAGTTCATGCTCGAGGTCCGTCTCCAGGGAGCGCTCAACCTC ATCAAGCACCTGATGGTTTACAAAGTGCCTTGATGACTTTGGATGTTTGTAAACAATGTG GATGGTATGATCGTGTACCTAGTGAAGCAGCTGTATTTCGTCATCGTTAACATCTTAAAT TGCAGTCTGCTTCCATACTATAGGAGAAAAATGCAGAAAATTTCCTACAGATTGCCTATT CCACAAGGATTTTATAGCATACTTCTACAACGGAAAAAACGCAGAAATTTTCATAAATAT TGGCGAGGTCATTTCTTTGTTTCAGATGACCCAGTGCGGATTTTTCTATAGGAATTCGAT ACTGCAATTTTCCTTTGTTTATAAGATCTCTAACTCAAAC
Protein Sequence (106 aa)
>BART1_0-u29974.008 106 150831_barley_pseudomolecules MTRPSSTELSRYLMQRSASLRLAMVTNPNPRDSLVHGSSTILASITSPSVEKCFSRSRSV RRDDKPVTKRLFPGFSTSLESTLLTHYMDIMYSSKLEPELPRLQKS