- Transcript BART1_0-u29974.007
- Transcript IDBART1_0-u29974.007
- Gene IDBART1_0-u29974
Exon Structure of BART1_0-u29974.007
Chromosome | Exon | Start | Stop | Direction |
---|---|---|---|---|
chr4H | 1 | 511456072 | 511455881 | + |
chr4H | 2 | 511457260 | 511457229 | + |
chr4H | 3 | 511457495 | 511457384 | + |
chr4H | 4 | 511458147 | 511457592 | + |
chr4H | 5 | 511459246 | 511458277 | + |
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 materialsSample | Treatment | Rep 1 | Rep 2 | Rep 3 |
---|---|---|---|---|
morex | EMB | 10.3465 | 19.4655 | 17.9818 |
morex | ETI | 69.0438 | 52.7684 | 37.5781 |
morex | LEA | 72.7678 | 91.1236 | 101.072 |
morex | EPI | 39.6749 | 50.581 | 58.6066 |
morex | ROO | 30.7388 | 25.5353 | 16.0954 |
morex | ROO2 | 0.148548 | 0 | 0.138171 |
morex | NOD | 89.8358 | 121.302 | 45.746 |
morex | RAC | 21.0927 | 20.565 | 17.7615 |
morex | INF1 | 7.27351 | 14.6293 | 19.6255 |
morex | INF2 | 77.6567 | 38.7987 | 68.861 |
morex | CAR5 | 27.1941 | 16.0803 | 9.48272 |
morex | CAR15 | 25.5312 | 22.6603 | 29.5444 |
morex | LEM | 53.8399 | 71.8705 | 34.7388 |
morex | LOD | 49.3784 | 12.8737 | 83.9555 |
morex | PAL | 37.8213 | 31.0227 | 44.8716 |
morex | SEN | 51.0995 | 130.826 | 102.915 |
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 | 156 | 71/81 (88%) | protein|RNA recognition motif containing protein, expressed |
TAIR PP10 | AT1G07350 @ ARAPORT AT1G07350.2 @ TAIR |
+1 | 5e-34 | 126 | 56/82 (68%) | Symbols: | RNA-binding (RRM/RBD/RNP motifs) family protein | chr1:2258816-2259586 REVERSE LENGTH=129 |
BRACH PP3 | Bradi1g67145.1.p | +1 | 6e-45 | 163 | 76/81 (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 (1862 bp)
>BART1_0-u29974.007 1862 150831_barley_pseudomolecules CCGGATTTGAGAAAGTCTCGCGTCCGGCCCTCTCCAGAACCTTCCGGCAGGTCCTCTCTA TTTATTCACACGAGCGCGCGTGCACCATCCAACGGGAAAAGAGAGGCGGTGGTCGCAGGT CGGAACTGACGGAGGCAGAGGCGAAGACGAAGACAGAGACTCGAGAGGCCTCGCAGCGGC GACGAATCAAAGATGTCGTATTCGAGGTACAGGAGTCGTTCAAGGAGTGTGGACTCGAGT GATGTTGAGAACCCTGGGAACAATCTCTTTGTGACTGGTTTATCATCTCGTCTAACTGAT CGAGATCTGGAGAAGCATTTCTCTACAGAGGGAGAGGTGATTGATGCAAGTATTGTACTT GATCCATGGACAAGGGAATCACGGGGATTTGGATTTGTTACCATGGCCAATCTTAAGGAG GCAGAACGCTGCATCAAATATCTCGACAGTTCAGTGCTGGAAGGTCGTGTCATTACTGTT GAGAAGGTATTGCCAAAAGATTGTTAACTCTGATATTTGTCCATTCTCCTTCTATATAGA GTGGAACTATTATGTACAGATTAGCCTTCCAAGCTGAATATTTGAGTGCTCTTCTTGTTT GAAGATTTTGTTGACAGCAGCAGGTTGATGCCCGCAGCTGTATGGCATCAAATTCAAAAG ATACACAACCTAAGATCGAAACAATGCTACCTCAACCAAAGGGTTGTACGCCCACCGTTA TTTTATTTTTCTGTATTATTTGTGTAGTTCAGATCCCCAATAATTTATCCAGTCTTGCTT TTGACATAAAACACAATTACTGATTTGGAGCCCCCTTCTCCACCACAGGCAAAGAGAAGA CGAGGTCGAACCCCAACACCGGGAAGGTACCTTGGCAGCAAATCATCGCGTCGAGGTATT CCCGAAGCAGGTCACCTGTTAGGAGAGACCGTTACGGCTCACGCTACCCGCCCGAGCTAG AACGTTCTTATTCTCCTTATCGCAGAGGACGATCATACTCTCGTCATGACAGGCATAGAT CATACTCCCCCTATGGAAGGAGGCCATCCTACTCCCCCTATGAAAGGAGGCCATCCTACT CTCCCTATGGCAGAAGGAGATCATACTCTCCTTCCGACAGGTCGGAGTCTCCCTACCACA GGCGTAGATCCTACTCACCCTACGACAGGCGTCACTCACCCCGCTATGGTCATCGCCACC GTTCAAGATCCCCATACAGTTACAGAAGGCGGAGGTCATGCTCCCATGACCGTTATGTTT CAGCATACTACAGCAGGCGCTATTCTCCAAGGAACAGAAGACGGAGTTACTCTCGCAGCG TATCACCACGCAGGAGCTACTCCCGTAGCTGCTCCCTGGCGTCAGAAGAATCAAGGAGCT GTTCTCCGCAGAAAGGATATGCTGAAAGCAAGGCATCGCGCAGCAGGTCACCTGCGATTG CGAAGAGGCGTTCTAGAGAAAGCTATGCGCACAGCCGCAGTTCATGCTCGAGGTCCGTCT CCAGGGAGCGCTCAACCTCATCAAGCACCTGATGGTTTACAAAGTGCCTTGATGACTTTG GATGTTTGTAAACAATGTGGATGGTATGATCGTGTACCTAGTGAAGCAGCTGTATTTCGT CATCGTTAACATCTTAAATTGCAGTCTGCTTCCATACTATAGGAGAAAAATGCAGAAAAT TTCCTACAGATTGCCTATTCCACAAGGATTTTATAGCATACTTCTACAACGGAAAAAACG CAGAAATTTTCATAAATATTGGCGAGGTCATTTCTTTGTTTCAGATGACCCAGTGCGGAT TTTTCTATAGGAATTCGATACTGCAATTTTCCTTTGTTTATAAGATCTCTAACTCAAACC TC
Protein Sequence (104 aa)
>BART1_0-u29974.007 104 150831_barley_pseudomolecules MSYSRYRSRSRSVDSSDVENPGNNLFVTGLSSRLTDRDLEKHFSTEGEVIDASIVLDPWT RESRGFGFVTMANLKEAERCIKYLDSSVLEGRVITVEKVLPKDC