- Transcript BART1_0-u35917.003
- Transcript IDBART1_0-u35917.003
- Gene IDBART1_0-u35917
Barley RTD
Exon Structure of BART1_0-u35917.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 428280957 | 428280687 | + |
| chr5H | 2 | 428281957 | 428281841 | + |
| chr5H | 3 | 428282415 | 428282078 | + |
| chr5H | 4 | 428282708 | 428282511 | + |
| chr5H | 5 | 428283382 | 428283299 | + |
| chr5H | 6 | 428283709 | 428283628 | + |
| chr5H | 7 | 428283908 | 428283785 | + |
| chr5H | 8 | 428284821 | 428284091 | + |
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 | 1.69701 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0.00417804 | 0.0000000120952 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0.000000480609 |
| morex | INF1 | 0.0000000121804 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0.658615 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g12800.1 | +2 | 7e-133 | 399 | 268/315 (85%) | protein|zinc finger Ran-binding domain-containing protein 2, putative, expressed |
| TAIR PP10 | AT1G50300 @ ARAPORT AT1G50300.1 @ TAIR |
+2 | 1e-100 | 312 | 220/314 (70%) | Symbols: TAF15 | TBP-associated factor 15 | chr1:18628818-18631662 REVERSE LENGTH=372 |
| BRACH PP3 | Bradi1g19280.1.p | +2 | 1e-140 | 416 | 286/314 (91%) | pacid=32805605 transcript=Bradi1g19280.1 locus=Bradi1g19280 ID=Bradi1g19280.1.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 (1945 bp)
>BART1_0-u35917.003 1945 150831_barley_pseudomolecules CCATTTCTTTTCAACCCAGCTGACAAACGTTGACAGCCCAGAAGCCCAGCATCTCAGCCT GCCCTGCCCTCGCCCTAATTGCGTGTGCCCATCGCCCACGAAACGCCATCCCCAAGCACG CAGTGAGCGCTGAGATCCGCCCAAACCTAGCGCCGTCGCGGCTTCTCAACCACGCGGCCG CCGCCGCGTTCCCGTCGGCAGAGCACGAGGCGCGCGGTCCTCCGCGCACGCCTTCGATCC GCGCCGTCAACCTCGGCGCATCCCGGACTAGATGGCTGGATATATGTCTCGCGGACCCCC AAATGGCTCTATTTATGTATGCAATCTGCCTCCTGGAACTGATGAGACCATGTTGGCTGA ATATTTTGGCACCATAGGGTTGCTAAAGAAGGACAAAAGGACTGGCCACCCAAAGATTTG GATATACAGGGACAAAGTTACAAATGAACCAAAGGGTGATGCAACAGTCACCTATGAAGA TCCCCATGCTGCTTCAGCTGCTGTGGAATGGTTCAACAATAAGGATTTCCATGGAAGCAT CATCCAGGTTCACATAGCTGAGTCAAAAAACAAAGACACAGTTGATAACTTCACCAATGT GAGCGTCGATGCTGAGATTGTTGGACAAGATGAATTGGATAACGGGTCAGGCAGGGGTAG AGGACGTGGTGATGGTCCAGCAAAAGCTTGGCAGCAAGATGGAGATTGGATGTGTCCAAA TACAAGCTGTGGCAATGTAAATTTTGCCTTCCGTGGTGTGTGTAATCGTTGTGGAGCCTC TCGCCCTGCTGGTGTTAGTGGATCAGGTGGTGGTGGTGGTAGGGGTAGAGGCCGTGGTAG TGATGATGCAAGAGGCAGTCGTGCTGCTGCTGCTGTTGGTGGTCCTCCTGGGCTGTTTGG TCCTAATGATTGGCCATGTACGATGTGTGGCAATGTAAACTGGGCCAAGCGGACCAAATG TAATGTCTGTAACACCTCTAGGCCAGGTCACAATGAAGGTGGTGTGAGAGGTGGCCGGGG TGGCGGCTTTAAAGAACTTGATGAAGAAGAACTAGAAGAAGTACGGAGGCGCCGGAAAGA AGCTGAGGAGGATGATGGAGAAATGTATGATGAATTTGGTAACCTGAAAAAGAAGTTCCG TGCTAAGTCACATCAAACTGAGAGTACACCAACTCTTCCTGGGTCTGGACGTGCTGGATG GGAAGTTGAGCACCGTTCCACTGAGAGAGAAGGCCGAGAGAGGAGCAGAGATCGGGGCAG GGACGACTACGATGAAAGGGAAAGCAAGAACAGAGACAGAGGTTCTCATGGAAGAGAGCG GCGCCGTAGCCGAAGCAGGAGCAGAGACCGCGAGAAGGAGAGGGGGAGGGACAGGGGCAG AGATCGTGGCAACGAGAGAAGCTGGGAGCGCGGCACTGATCGTGAACGTGATCGCTACAG ATGATATGTCAGGAGTTTTGTCATGTTTGCTTGCCACTTTTCGGTTTTCTGAACCTTTTG TTATGCTGTTGGAGAGCTGTGGTGTATCACACTGTTATCATTAACATGGGACAAGCTTAT TATGTTTGGGTCTAAAGTTCTCAAAACAGACCGGATCGATGGGTCGTCAGATCATCTGGT ACAACGGACCCATCAGATCATCTGGTACATCAACGGAATTGCCGAGGAATGACCATCGAG ACCTGAAAAAGTCTGGATCATAGTATCCTTGCGGCATGAGCAGCATTTGTTCTGAAACAG AGCACCACCTCGAACTCGCTGAACAACCATGCACCGTAGATCCAGTGGTGCGGTGTCTGA TGCAAAGGCAAAATTGACAAATTCGCTGAACAACCATGCACCGTAGATCCAGTGGTGCGG TGTATGATGCAAAGGCGAAATTGACAAATTTGATCACAAAGTATTTCATAAACTGGACCA CATTTGAATTTCTTTTACGCAGCTG
Protein Sequence (390 aa)
>BART1_0-u35917.003 390 150831_barley_pseudomolecules MAGYMSRGPPNGSIYVCNLPPGTDETMLAEYFGTIGLLKKDKRTGHPKIWIYRDKVTNEP KGDATVTYEDPHAASAAVEWFNNKDFHGSIIQVHIAESKNKDTVDNFTNVSVDAEIVGQD ELDNGSGRGRGRGDGPAKAWQQDGDWMCPNTSCGNVNFAFRGVCNRCGASRPAGVSGSGG GGGRGRGRGSDDARGSRAAAAVGGPPGLFGPNDWPCTMCGNVNWAKRTKCNVCNTSRPGH NEGGVRGGRGGGFKELDEEELEEVRRRRKEAEEDDGEMYDEFGNLKKKFRAKSHQTESTP TLPGSGRAGWEVEHRSTEREGRERSRDRGRDDYDERESKNRDRGSHGRERRRSRSRSRDR EKERGRDRGRDRGNERSWERGTDRERDRYR