- Transcript BART1_0-u29974.005
- Transcript IDBART1_0-u29974.005
- Gene IDBART1_0-u29974
Barley RTD
Exon Structure of BART1_0-u29974.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 511457260 | 511455812 | + |
| chr4H | 2 | 511457495 | 511457384 | + |
| chr4H | 3 | 511457741 | 511457592 | + |
| chr4H | 4 | 511459246 | 511457876 | + |
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 | 0.15937 | 0 |
| morex | LEA | 2.05265 | 0.128577 | 0 |
| morex | EPI | 0 | 0 | 0.2945 |
| morex | ROO | 0.199599 | 0 | 0.206721 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.101174 | 0.246604 | 0.869631 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0.060505 |
| morex | CAR15 | 0 | 0 | 0.144645 |
| morex | LEM | 0.0485919 | 0.681219 | 0.125011 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0.173088 | 0.0255504 |
| morex | SEN | 0.00000000375115 | 0.999399 | 0.149129 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g15890.2 | +2 | 6e-41 | 155 | 71/80 (89%) | protein|RNA recognition motif containing protein, expressed |
| TAIR PP10 | AT1G07350 @ ARAPORT AT1G07350.2 @ TAIR |
+2 | 3e-33 | 125 | 56/87 (64%) | Symbols: | RNA-binding (RRM/RBD/RNP motifs) family protein | chr1:2258816-2259586 REVERSE LENGTH=129 |
| BRACH PP3 | Bradi1g67145.1.p | +2 | 1e-43 | 162 | 77/85 (91%) | 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 (3082 bp)
>BART1_0-u29974.005 3082 150831_barley_pseudomolecules GGCAGAAAGAGATGCCAAGTGTTGAAGCGTAAGGTGGTGCCGTGCGGTGCGTACACTAAG CCGATTCAACCGGATTTGAGAAAGTCTCGCGTCCGGCCCTCTCCAGAACCTTCCGGCAGG TCCTCTCTATTTATTCACACGAGCGCGCGTGCACCATCCAACGGGAAAAGAGAGGCGGTG GTCGCAGGTCGGAACTGACGGAGGCAGAGGCGAAGACGAAGACAGAGACTCGAGAGGCCT CGCAGCGGCGACGAATCAAAGGTATTTCCTCGCCTTCTTCCTCGTGTTTCGTCAGTAGCA TGATGATACTAGCATGTGAAGGGCGCTGCGAATTCATTCTGTCTTCTGTTCTAGCAGTTT GATTTGGCGATAGTTTTGCACATACAGCTCATGACCCGCAGATCGTAGAGAGCCATGACA CCAAATACTTGCCAGTAGAAAAACGTATGTCAGGGGTCGGAGGCTGATTGATCCTCAATT CTGTTTCGCAAATGCGCTAGATCTATATTTTTTTTTAGAAAAGGAGGACCCCGCCTCTGC ATTTGGGAGATGCATGCGGCCATTTTGTTGATTATTCTTGAGGACCTTATAAAGCAGTAT AATAATATGACTGAATCCGCCGTCTTAGCAACATCTGTCACTACTCCTATCCATATGATG AAGGGGTGCAAGCTGGACCAAATATCGAGACCTCTCACCTAATCCTAACATCTAAAGCCA AAGACCCTGACCGAGCCACATATCGGATCCAGGACACAAACCGGTCCGACACACTCACAT GTGTCGTCGTCGCCATCTTTCACTGGTCCATCTTCAGATCAGGTTGAGGTACCAGCCTTG GCAGGTGCCTCCGTCATCGGCGCTAGATCTATATGACATAAAGCAAATTAAACCGAGAAT TCCCTCAATTCGTGTTCTGTGCGTAGTGGTTTCATCTGGACTGCAATTGTACTACCTAAC GCGATGAGGATAACAGATTTACTGAACCCGCGTGACTTATACGGGCACTTTGAATTGTTG GGAAGGAAACTGTTACGGGAACAGACAGCCTCTAACAGTGAACTGAATAATTGTAGCTAT GTATTATGTCTCCAAGCTTTTGCACACACAACAATCTATGACCACATATGCACAAGAACA CGAACGATTAATTCATGGCTGCGACAAAGAATTTATCTTCGACACTGTGAAGTGTAAACT GATGGTGGATTGCATGCTGTGAAATCGAACTATTGCAGTGATCGGAGCTTCTATGGTCAG GTTAATTAGATAATTGTATGATCTATTGGGGCTATGCGGTATACTATGTTACAAAGTCAT GGCACATTTAGAAATTTAGTTAGATGCTACTTTCTCTTTGTGTTTTCTATACGAGTCCTC TGGTAGGTATTGATTCATTTGCCTGTATGTCTTGCAGATGTCGTATTCGAGGTACAGGAG TCGTTCAAGGAGTGTGGACTCGAGTGATGTTGAGAACCCTGGGAACAATCTCTTTGTGAC TGGTTTATCATCTCGTCTAACTGATCGAGATCTGGAGAAGCATTTCTCTACAGAGGGAGA GGTGATTGATGCAAGTATTGTACTTGATCCATGGACAAGGGAATCACGGGGATTTGGATT TGTTACCATGGCCAATCTTAAGGAGGCAGAACGCTGCATCAAATATCTCGACAGTTCAGT GCTGGAAGGTCGTGTCATTACTGTTGAGAAGCAGGTTGATGCCCGCAGCTGTATGGCATC AAATTCAAAAGATACACAACCTAAGATCGAAACAATGCTACCTCAACCAAAGGGTTGTAC GCCCACCGTTATTTTATTTTTCTGTATTATTTGTGTAGTTCAGATCCCCAATAATTTATC CAGTCTTGCTTTTGACATAAAACACAATTACTGATTTGGAGCCCCCTTCTCCACCACAGG CAAAGAGAAGACGAGGTCGAACCCCAACACCGGGAAGGTACCTTGGCAGCAAATCATCGC GTCGTAAGTTACTGTGACATGATTTATCTTTTGACACCTCAGTACCATGAATTATATGCT GGAAAGTGAGCATGATGACACTTCATATCACATATGATTGTTGACATTTGATTATATGGT GATACCAGGAAGGAGGTATTCCCGAAGCAGGTCACCTGTTAGGAGAGACCGTTACGGCTC ACGCTACCCGCCCGAGCTAGAACGTTCTTATTCTCCTTATCGCAGAGGACGATCATACTC TCGTCATGACAGGCATAGATCATACTCCCCCTATGGAAGGAGGCCATCCTACTCCCCCTA TGAAAGGAGGCCATCCTACTCTCCCTATGGCAGAAGGAGATCATACTCTCCTTCCGACAG GTCGGAGTCTCCCTACCACAGGCGTAGATCCTACTCACCCTACGACAGGCGTCACTCACC CCGCTATGGTCATCGCCACCGTTCAAGATCCCCATACAGTTACAGAAGGCGGAGGTCATG CTCCCATGACCGTTATGTTTCAGCATACTACAGCAGGCGCTATTCTCCAAGGAACAGAAG ACGGAGTTACTCTCGCAGCGTATCACCACGCAGGAGCTACTCCCGTAGCTGCTCCCTGGC GTCAGAAGAATCAAGGAGCTGTTCTCCGCAGAAAGGATATGCTGAAAGCAAGGCATCGCG CAGCAGGTCACCTGCGATTGCGAAGAGGCGTTCTAGAGAAAGCTATGCGCACAGCCGCAG TTCATGCTCGAGGTCCGTCTCCAGGGAGCGCTCAACCTCATCAAGCACCTGATGGTTTAC AAAGTGCCTTGATGACTTTGGATGTTTGTAAACAATGTGGATGGTATGATCGTGTACCTA GTGAAGCAGCTGTATTTCGTCATCGTTAACATCTTAAATTGCAGTCTGCTTCCATACTAT AGGAGAAAAATGCAGAAAATTTCCTACAGATTGCCTATTCCACAAGGATTTTATAGCATA CTTCTACAACGGAAAAAACGCAGAAATTTTCATAAATATTGGCGAGGTCATTTCTTTGTT TCAGATGACCCAGTGCGGATTTTTCTATAGGAATTCGATACTGCAATTTTCCTTTGTTTA TAAGATCTCTAACTCAAACCTC
Protein Sequence (158 aa)
>BART1_0-u29974.005 158 150831_barley_pseudomolecules MSYSRYRSRSRSVDSSDVENPGNNLFVTGLSSRLTDRDLEKHFSTEGEVIDASIVLDPWT RESRGFGFVTMANLKEAERCIKYLDSSVLEGRVITVEKQVDARSCMASNSKDTQPKIETM LPQPKGCTPTVILFFCIICVVQIPNNLSSLAFDIKHNY