- Transcript BART1_0-u29974.004
- Transcript IDBART1_0-u29974.004
- Gene IDBART1_0-u29974
Barley RTD
Exon Structure of BART1_0-u29974.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 511456072 | 511455812 | + |
| chr4H | 2 | 511457495 | 511457229 | + |
| chr4H | 3 | 511457741 | 511457592 | + |
| chr4H | 4 | 511459243 | 511457879 | + |
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 | 0.431967 | 0 | 0 |
| morex | ETI | 0.388425 | 0.419401 | 0.122935 |
| morex | LEA | 0.000126552 | 1.95131 | 0.584681 |
| morex | EPI | 1.07502 | 0.0355999 | 2.02058 |
| morex | ROO | 0 | 0.565545 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.88587 | 5.79089 | 0.0956234 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.403975 | 3.18076 | 0 |
| morex | LOD | 0 | 0 | 0.887997 |
| morex | PAL | 0.255141 | 0.000000000925589 | 1.04488 |
| morex | SEN | 0 | 1.13269 | 1.92837 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g15890.2 | +1 | 4e-42 | 157 | 72/84 (86%) | protein|RNA recognition motif containing protein, expressed |
| TAIR PP10 | AT1G07350 @ ARAPORT AT1G07350.2 @ TAIR |
+1 | 2e-35 | 130 | 61/88 (69%) | Symbols: | RNA-binding (RRM/RBD/RNP motifs) family protein | chr1:2258816-2259586 REVERSE LENGTH=129 |
| BRACH PP3 | Bradi1g67145.1.p | +1 | 1e-45 | 166 | 78/85 (92%) | 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 (2043 bp)
>BART1_0-u29974.004 2043 150831_barley_pseudomolecules GGCAGAAAGAGATGCCAAGTGTTGAAGCGTAAGGTGGTGCCGTGCGGTGCGTACACTAAG CCGATTCAACCGGATTTGAGAAAGTCTCGCGTCCGGCCCTCTCCAGAACCTTCCGGCAGG TCCTCTCTATTTATTCACACGAGCGCGCGTGCACCATCCAACGGGAAAAGAGAGGCGGTG GTCGCAGGTCGGAACTGACGGAGGCAGAGGCGAAGACGAAGACAGAGACTCGAGAGGCCT CGCAGCGGCGACGAATCAAAGATGTCGTATTCGAGGTACAGGAGTCGTTCAAGGTAAACA TTCTTTATCCTCAGAAATGCTAATATTATGTTTGTGTCCATGTTCTATGATTTTTGGAGT CTAGGCAGTTCTGGCTCTAATTTTGAGGAGTACATGATATCCATGTAATGTGTTAGGAGT GTGGACTCGAGTGATGTTGAGAACCCTGGGAACAATCTCTTTGTGACTGGTTTATCATCT CGTCTAACTGATCGAGATCTGGAGAAGCATTTCTCTACAGAGGGAGAGGTGATTGATGCA AGTATTGTACTTGATCCATGGACAAGGGAATCACGGGGATTTGGATTTGTTACCATGGCC AATCTTAAGGAGGCAGAACGCTGCATCAAATATCTCGACAGTTCAGTGCTGGAAGGTCGT GTCATTACTGTTGAGAAGGTTGATGCCCGCAGCTGTATGGCATCAAATTCAAAAGATACA CAACCTAAGATCGAAACAATGCTACCTCAACCAAAGGGTTGTACGCCCACCGTTATTTTA TTTTTCTGTATTATTTGTGTAGTTCAGATCCCCAATAATTTATCCAGTCTTGCTTTTGAC ATAAAACACAATTACTGATTTGGAGCCCCCTTCTCCACCACAGGCAAAGAGAAGACGAGG TCGAACCCCAACACCGGGAAGGTACCTTGGCAGCAAATCATCGCGTCGTAAGTTACTGTG ACATGATTTATCTTTTGACACCTCAGTACCATGAATTATATGCTGGAAAGTGAGCATGAT GACACTTCATATCACATATGATTGTTGACATTTGATTATATGGTGATACCAGGAAGGAGG TATTCCCGAAGCAGGTCACCTGTTAGGAGAGACCGTTACGGCTCACGCTACCCGCCCGAG CTAGAACGTTCTTATTCTCCTTATCGCAGAGGACGATCATACTCTCGTCATGACAGGCAT AGATCATACTCCCCCTATGGAAGGAGGCCATCCTACTCCCCCTATGAAAGGAGGCCATCC TACTCTCCCTATGGCAGAAGGAGATCATACTCTCCTTCCGACAGGTCGGAGTCTCCCTAC CACAGGCGTAGATCCTACTCACCCTACGACAGGCGTCACTCACCCCGCTATGGTCATCGC CACCGTTCAAGATCCCCATACAGTTACAGAAGGCGGAGGTCATGCTCCCATGACCGTTAT GTTTCAGCATACTACAGCAGGCGCTATTCTCCAAGGAACAGAAGACGGAGTTACTCTCGC AGCGTATCACCACGCAGGAGCTACTCCCGTAGCTGCTCCCTGGCGTCAGAAGAATCAAGG AGCTGTTCTCCGCAGAAAGGATATGCTGAAAGCAAGGCATCGCGCAGCAGGTCACCTGCG ATTGCGAAGAGGCGTTCTAGAGAAAGCTATGCGCACAGCCGCAGTTCATGCTCGAGGTCC GTCTCCAGGGAGCGCTCAACCTCATCAAGCACCTGATGGTTTACAAAGTGCCTTGATGAC TTTGGATGTTTGTAAACAATGTGGATGGTATGATCGTGTACCTAGTGAAGCAGCTGTATT TCGTCATCGTTAACATCTTAAATTGCAGTCTGCTTCCATACTATAGGAGAAAAATGCAGA AAATTTCCTACAGATTGCCTATTCCACAAGGATTTTATAGCATACTTCTACAACGGAAAA AACGCAGAAATTTTCATAAATATTGGCGAGGTCATTTCTTTGTTTCAGATGACCCAGTGC GGATTTTTCTATAGGAATTCGATACTGCAATTTTCCTTTGTTTATAAGATCTCTAACTCA AAC
Protein Sequence (106 aa)
>BART1_0-u29974.004 106 150831_barley_pseudomolecules MTRPSSTELSRYLMQRSASLRLAMVTNPNPRDSLVHGSSTILASITSPSVEKCFSRSRSV RRDDKPVTKRLFPGFSTSLESTLLTHYMDIMYSSKLEPELPRLQKS