- Transcript BART1_0-u07987.042
- Transcript IDBART1_0-u07987.042
- Gene IDBART1_0-u07987
Barley RTD
Exon Structure of BART1_0-u07987.042
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 29123857 | 29123760 | + |
| chr2H | 2 | 29124217 | 29123960 | + |
| chr2H | 3 | 29124505 | 29124321 | + |
| chr2H | 4 | 29124781 | 29124617 | + |
| chr2H | 5 | 29124992 | 29124859 | + |
| chr2H | 6 | 29125344 | 29125189 | + |
| chr2H | 7 | 29125969 | 29125786 | + |
| chr2H | 8 | 29126174 | 29126067 | + |
| chr2H | 9 | 29127230 | 29126291 | + |
| chr2H | 10 | 29127814 | 29127330 | + |
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 | 0.395095 | 1.05566 |
| morex | ETI | 0.835969 | 0 | 0 |
| morex | LEA | 2.14378 | 2.77014 | 6.16972 |
| morex | EPI | 19.8642 | 14.6451 | 32.0406 |
| morex | ROO | 0 | 0 | 0.264503 |
| morex | ROO2 | 0 | 0.164988 | 0 |
| morex | NOD | 0.963176 | 1.52839 | 3.5322 |
| morex | RAC | 4.03242 | 4.20147 | 5.75219 |
| morex | INF1 | 0.902355 | 2.49166 | 3.44433 |
| morex | INF2 | 4.62558 | 3.0134 | 3.62197 |
| morex | CAR5 | 2.48514 | 2.27391 | 1.42084 |
| morex | CAR15 | 0.414022 | 0.0768914 | 0.711244 |
| morex | LEM | 10.1124 | 10.9308 | 6.62231 |
| morex | LOD | 1.99617 | 1.8052 | 2.12312 |
| morex | PAL | 5.62543 | 4.52021 | 4.30398 |
| morex | SEN | 12.7747 | 6.50812 | 9.68478 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os07g49460.2 | +1 | 1e-120 | 384 | 214/289 (74%) | protein|response regulator receiver domain containing protein, expressed |
| TAIR PP10 | AT5G02810 @ ARAPORT AT5G02810.1 @ TAIR |
+1 | 2e-62 | 225 | 140/281 (50%) | Symbols: PRR7, APRR7 | pseudo-response regulator 7 | chr5:638283-641461 REVERSE LENGTH=727 |
| BRACH PP3 | Bradi1g16490.7.p | +1 | 9e-129 | 403 | 221/299 (74%) | pacid=32803660 transcript=Bradi1g16490.7 locus=Bradi1g16490 ID=Bradi1g16490.7.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 (2713 bp)
>BART1_0-u07987.042 2713 150831_barley_pseudomolecules CACACACACAGCACACCCTCCTCGGCTCGACTCGACTCGCCGCCGCCGCCGCAGTCCATG GCCTCGTCGTCCTCCTCCTGACCGGCAGCAGACCCAAGGGCACGCTCAGGCTCTCTCTAG CTGCTGCTAATAGTATGTGTCCGGAAATTGCTGGAGATTAACCGGCTCGCACGCCTTGTC TGCTACTGCCCCCCCTTATAGCCGCCGGCAGCTCCATTCCAGGAGACGATTCATTCCGCT GCAGTCTCAACCCCCTTGCTCTTGTGTGTTTTTTTTGCGTTTTGTTTTTATTGGTTTGGT CCGCTGCTCCGCCGCCGTCGACGACGAACGCCGTGGGACTCCCGGATGCGACCGAGGCAG CCTCCTCCTAGCGCCATGGACAATCAGCAGCAGCAGCAGCCGCCGCGCGGGGAGCACGCC GCCCAGCCGCGATGCTGGGAGGAGTTCCTACACAGGAAGACCATCCGGGTCCTGCTCGTG GAGACCGACGACTCCACCAGGCAGGTCGTCGCCGCCCTGCTCCGCCACTGCATGTACCAA GTTATCCCCGTCGAGAACGGCCACCAGGCGTGGGCGTATCTTCAGGACATGCAGAGCAAC ATCGACCTTGTTCTCACAGAGGTGTTCATGCACGGCGGCCTCTCCGGGATCGACCTGCTC GGCAGGATCATGAACCACGAGGTCTGCAAGGACATCCCCGTCATCATGATGTCGTCGCAC GATTCCATGGGCACCGTCCTCAGCTGCCTCTCAAATGGTGCTGCTGACTTCTTGGCCAAG CCGATACGTAAGAACGAGCTTAAGAACCTTTGGGCGCATGTGTGGCGACGGTCTCACAGC TCCAGTGGCAGTGGTAGTGGAAGTGCCATTCAGACTCAGAAGTGTACCAAATCAAAGAGC GGCGATGATTCCAATAACAACAGCAATGATCGCAACGACGATGCCAGCATGGGGCTCAAT GCAAGGGATGGCAGCGATAATGGCAGTGGCACTCAGAGCTCATGGACAAAGCGTGCCGTT GAGATCGACAGTCCCCAGGACATGTCTCCGGATCAGTCAGCCGATCCCCCTGAAGGCACT TGTGCCCATGTGAACCATCCCAAGTCAGAGATATGCAGCAATAGATGGTTACCAGGTACA AATAACAAAAAATGCCAGAAACCAAAAGAAACCACTAATGGTGATGGATTCAAAGGCAAG GAGTTGGAGATAGGAGCCCCTGGTAATTTGAACACAGACGATCAATCCTCCCCGAACGAG AGTTCGGTCAAACCAACCGATGGACGGTGCAGCAGCTAGAGCCATAGATGCTCCTAACTG CTCCTTACAGGCGTCGGAAGGGAAAGACACGGACGGCGAGAACGCTATGCCATATCTTGA GCTGAGCCTGAAGAGGTCGAGATCGACCGGGGAAGGTGCAGGCCCGATCCAGGAGGAACA GAGGAACGTCGTGAGACGGTCAGACCTGTCGGCATTCACGAGGTGCAAAGCATAATATCA GTGTCCTTTGTGAATCCTGAAATCATCCGTATGTTGCATACTAACCGTTTTCATTCTTTG CAAGGTACAATATGTGTGCGGTCTCCAATCAAGGCGGGGCAGGGTTCGTCGGGAGCTGCT CACCCAACGGCGACAGCTCCGAGGCCGCGAAAACGGTTGCTGCTCAGATGAAGCAGGGCT CTAACGGCAGCAGCAACAACAATGACATGGGCTCCACCACGAAGAGCGTGGTGACCAAGC CCTGTGGAAATAATAAGGTTTCGCCCATCAACGGCAACACACACACGTCGGCGTTTCATC GTGTGCAGCCATGGACGCCAGCGACAGCAGCAGGAAAAGACAAGGCTGATGAAGTGAGCA AGAAGAACGTTGCAGCAGCAGCAGCAGCAGCGAAAGAAATGGGTTGTGAAGCACAGAGCA AACACCCCTGTGCAGCGGCCGATGACGTGAATGGTGGATCGGCAGGAGGCACTGCTCAGT CCAGTGTTGTCAATCCTTCGGGTCCGGTTGAAGGCCATACTGCCAACTATGGTAGCAACT CATTCAGCAATAACAACACCAATAACGGGAGCACCGCAGCTACCACTGCTGCTGCTGCTG CTGTACATGCTGAGACCGGTGGTGGCGTCGACAAAAGAAGTAACATGATGAACATGAAAC GGGAGCGCCGTGTGGCCGCCGTGAACAAGTTCAGAGAGAAGAGAAAAGAGAGGAACTTCG GGAAGAAGGTGCGTTACCAGAGCAGGAAGCGGCTGGCCGAGCAGCGCCCACGGGTGCGCT GGCAGTTCGTGCGGCAGCCGCCGGCGCCGGCGACCGTGGAGAGATAACCTCCCGCCACGC ACCTAGCTATACCTAGTACTCTACTAATTAGACAGCTGATTCTTGTGTCTTTGGCCATGG ATCATTGGGAGCTCGTCTCATCTCCTGGAAGAAGAAGAATAACGAGTGACTCCTCCTGCC TGCCTTAGCGACCTACCATAGAACATGCCGGCGGAGGAGGACGAGGGCGATTGTACATAG TAGGAGCGTGTGGAGCCGATCAGACAGGCTCCCGCTCTTGAATGTAGCAGCAATTGACCA ATCAATGTCTGAGCCTCTAGAATGGTAGTATGAGTGAGTATTGTGCTGTACACTTGTCAT CAGCTTGGCCATGGCGGCAGCCTTGTCAGGTGTCATCAATCAACGCATATTTGTGGTTTC TTTCTAGTTACCG
Protein Sequence (317 aa)
>BART1_0-u07987.042 317 150831_barley_pseudomolecules MRPRQPPPSAMDNQQQQQPPRGEHAAQPRCWEEFLHRKTIRVLLVETDDSTRQVVAALLR HCMYQVIPVENGHQAWAYLQDMQSNIDLVLTEVFMHGGLSGIDLLGRIMNHEVCKDIPVI MMSSHDSMGTVLSCLSNGAADFLAKPIRKNELKNLWAHVWRRSHSSSGSGSGSAIQTQKC TKSKSGDDSNNNSNDRNDDASMGLNARDGSDNGSGTQSSWTKRAVEIDSPQDMSPDQSAD PPEGTCAHVNHPKSEICSNRWLPGTNNKKCQKPKETTNGDGFKGKELEIGAPGNLNTDDQ SSPNESSVKPTDGRCSS