- Transcript BART1_0-u35917.001
- Transcript IDBART1_0-u35917.001
- Gene IDBART1_0-u35917
Barley RTD
Exon Structure of BART1_0-u35917.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 428280957 | 428280640 | + |
| chr5H | 2 | 428281957 | 428281841 | + |
| chr5H | 3 | 428282415 | 428282078 | + |
| chr5H | 4 | 428282708 | 428282511 | + |
| chr5H | 5 | 428283382 | 428283299 | + |
| chr5H | 6 | 428283709 | 428283628 | + |
| chr5H | 7 | 428283911 | 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 | 0.0000000185071 | 0.00090454 | 3.09621 |
| morex | ETI | 0.0000000015155 | 0.798262 | 0 |
| morex | LEA | 0.668906 | 1.28996 | 0.283431 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 1.44239 | 1.48613 | 1.10857 |
| morex | ROO2 | 0 | 1.22002 | 0.0000000490959 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 1.19399 | 0 | 0.185929 |
| morex | INF1 | 6.56951 | 0.000000638969 | 5.97457 |
| morex | INF2 | 3.16568 | 8.73251 | 10.2944 |
| morex | CAR5 | 7.33202 | 0.941094 | 4.33093 |
| morex | CAR15 | 3.33896 | 0.0000000171614 | 1.32562 |
| morex | LEM | 0.000000328376 | 0.00619921 | 1.01964 |
| morex | LOD | 0.00901865 | 0 | 0.0000379176 |
| morex | PAL | 0.0258636 | 0 | 0 |
| morex | SEN | 0 | 0.00000928272 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g12800.1 | +1 | 1e-132 | 399 | 268/315 (85%) | protein|zinc finger Ran-binding domain-containing protein 2, putative, expressed |
| TAIR PP10 | AT1G50300 @ ARAPORT AT1G50300.1 @ TAIR |
+1 | 2e-100 | 312 | 220/314 (70%) | Symbols: TAF15 | TBP-associated factor 15 | chr1:18628818-18631662 REVERSE LENGTH=372 |
| BRACH PP3 | Bradi1g19280.1.p | +1 | 2e-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 (1995 bp)
>BART1_0-u35917.001 1995 150831_barley_pseudomolecules CTTATGGGATCCAGGGGTTACAAATCACCGGTCCAACCGAATTTGGCCCATTTCTTTTCA ACCCAGCTGACAAACGTTGACAGCCCAGAAGCCCAGCATCTCAGCCTGCCCTGCCCTCGC CCTAATTGCGTGTGCCCATCGCCCACGAAACGCCATCCCCAAGCACGCAGTGAGCGCTGA GATCCGCCCAAACCTAGCGCCGTCGCGGCTTCTCAACCACGCGGCCGCCGCCGCGTTCCC GTCGGCAGAGCACGAGGCGCGCGGTCCTCCGCGCACGCCTTCGATCCGCGCCGTCAACCT CGGCGCATCCCGGACTAGATGGCTGGATATATGTCTCGCGGACCCCCAAATGGCTCTATT TATGTATGCAATCTGCCTCCTGGAACTGATGAGACCATGTTGGCTGAATATTTTGGCACC ATAGGGTTGCTAAAGAAGGACAAAAGGACTGGCCACCCAAAGATTTGGATATACAGGGAC AAAGTTACAAATGAACCAAAGGGTGATGCAACAGTCACCTATGAAGATCCCCATGCTGCT TCAGCTGCTGTGGAATGGTTCAACAATAAGGATTTCCATGGAAGCATCATCCAGGTTCAC ATAGCTGAGTCAAAAAACAAAGACACAGTTGATAACTTCACCAATGTGAGCGTCGATGCT GAGATTGTTGGACAAGATGAATTGGATAACGGGTCAGGCAGGGGTAGAGGACGTGGTGAT GGTCCAGCAAAAGCTTGGCAGCAAGATGGAGATTGGATGTGTCCAAATACAAGCTGTGGC AATGTAAATTTTGCCTTCCGTGGTGTGTGTAATCGTTGTGGAGCCTCTCGCCCTGCTGGT GTTAGTGGATCAGGTGGTGGTGGTGGTAGGGGTAGAGGCCGTGGTAGTGATGATGCAAGA GGCAGTCGTGCTGCTGCTGCTGTTGGTGGTCCTCCTGGGCTGTTTGGTCCTAATGATTGG CCATGTACGATGTGTGGCAATGTAAACTGGGCCAAGCGGACCAAATGTAATGTCTGTAAC ACCTCTAGGCCAGGTCACAATGAAGGTGGTGTGAGAGGTGGCCGGGGTGGCGGCTTTAAA GAACTTGATGAAGAAGAACTAGAAGAAGTACGGAGGCGCCGGAAAGAAGCTGAGGAGGAT GATGGAGAAATGTATGATGAATTTGGTAACCTGAAAAAGAAGTTCCGTGCTAAGTCACAT CAAACTGAGAGTACACCAACTCTTCCTGGGTCTGGACGTGCTGGATGGGAAGTTGAGCAC CGTGGTTCCACTGAGAGAGAAGGCCGAGAGAGGAGCAGAGATCGGGGCAGGGACGACTAC GATGAAAGGGAAAGCAAGAACAGAGACAGAGGTTCTCATGGAAGAGAGCGGCGCCGTAGC CGAAGCAGGAGCAGAGACCGCGAGAAGGAGAGGGGGAGGGACAGGGGCAGAGATCGTGGC AACGAGAGAAGCTGGGAGCGCGGCACTGATCGTGAACGTGATCGCTACAGATGATATGTC AGGAGTTTTGTCATGTTTGCTTGCCACTTTTCGGTTTTCTGAACCTTTTGTTATGCTGTT GGAGAGCTGTGGTGTATCACACTGTTATCATTAACATGGGACAAGCTTATTATGTTTGGG TCTAAAGTTCTCAAAACAGACCGGATCGATGGGTCGTCAGATCATCTGGTACAACGGACC CATCAGATCATCTGGTACATCAACGGAATTGCCGAGGAATGACCATCGAGACCTGAAAAA GTCTGGATCATAGTATCCTTGCGGCATGAGCAGCATTTGTTCTGAAACAGAGCACCACCT CGAACTCGCTGAACAACCATGCACCGTAGATCCAGTGGTGCGGTGTCTGATGCAAAGGCA AAATTGACAAATTCGCTGAACAACCATGCACCGTAGATCCAGTGGTGCGGTGTATGATGC AAAGGCGAAATTGACAAATTTGATCACAAAGTATTTCATAAACTGGACCACATTTGAATT TCTTTTACGCAGCTG
Protein Sequence (391 aa)
>BART1_0-u35917.001 391 150831_barley_pseudomolecules MAGYMSRGPPNGSIYVCNLPPGTDETMLAEYFGTIGLLKKDKRTGHPKIWIYRDKVTNEP KGDATVTYEDPHAASAAVEWFNNKDFHGSIIQVHIAESKNKDTVDNFTNVSVDAEIVGQD ELDNGSGRGRGRGDGPAKAWQQDGDWMCPNTSCGNVNFAFRGVCNRCGASRPAGVSGSGG GGGRGRGRGSDDARGSRAAAAVGGPPGLFGPNDWPCTMCGNVNWAKRTKCNVCNTSRPGH NEGGVRGGRGGGFKELDEEELEEVRRRRKEAEEDDGEMYDEFGNLKKKFRAKSHQTESTP TLPGSGRAGWEVEHRGSTEREGRERSRDRGRDDYDERESKNRDRGSHGRERRRSRSRSRD REKERGRDRGRDRGNERSWERGTDRERDRYR