- Transcript BART1_0-u35917.007
- Transcript IDBART1_0-u35917.007
- Gene IDBART1_0-u35917
Barley RTD
Exon Structure of BART1_0-u35917.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 428280957 | 428280809 | + |
| chr5H | 2 | 428281957 | 428281841 | + |
| chr5H | 3 | 428282415 | 428282081 | + |
| chr5H | 4 | 428282708 | 428282511 | + |
| chr5H | 5 | 428283382 | 428283299 | + |
| chr5H | 6 | 428283709 | 428283628 | + |
| chr5H | 7 | 428283908 | 428283785 | + |
| chr5H | 8 | 428284531 | 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 | 3.61525 | 7.85308 | 6.75904 |
| morex | ETI | 5.25662 | 5.53496 | 8.05955 |
| morex | LEA | 3.78323 | 3.65257 | 6.96608 |
| morex | EPI | 2.55033 | 3.81407 | 2.75944 |
| morex | ROO | 4.97811 | 5.71377 | 1.59477 |
| morex | ROO2 | 6.2859 | 5.91269 | 6.42029 |
| morex | NOD | 3.55176 | 3.56776 | 6.06094 |
| morex | RAC | 5.65682 | 7.82826 | 7.53119 |
| morex | INF1 | 16.2181 | 18.3484 | 15.2882 |
| morex | INF2 | 22.1529 | 21.0412 | 17.1146 |
| morex | CAR5 | 12.0614 | 12.7277 | 13.9483 |
| morex | CAR15 | 5.71904 | 6.10858 | 8.56984 |
| morex | LEM | 5.69804 | 6.57334 | 7.21678 |
| morex | LOD | 5.26441 | 8.2362 | 5.2892 |
| morex | PAL | 5.8511 | 6.16914 | 4.77801 |
| morex | SEN | 3.08029 | 4.6914 | 3.86483 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g12800.1 | +3 | 3e-132 | 393 | 267/315 (85%) | protein|zinc finger Ran-binding domain-containing protein 2, putative, expressed |
| TAIR PP10 | AT1G50300 @ ARAPORT AT1G50300.1 @ TAIR |
+3 | 4e-100 | 306 | 220/314 (70%) | Symbols: TAF15 | TBP-associated factor 15 | chr1:18628818-18631662 REVERSE LENGTH=372 |
| BRACH PP3 | Bradi1g19280.1.p | +3 | 6e-140 | 409 | 285/314 (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 (1530 bp)
>BART1_0-u35917.007 1530 150831_barley_pseudomolecules GTGAGCGCTGAGATCCGCCCAAACCTAGCGCCGTCGCGGCTTCTCAACCACGCGGCCGCC GCCGCGTTCCCGTCGGCAGAGCACGAGGCGCGCGGTCCTCCGCGCACGCCTTCGATCCGC GCCGTCAACCTCGGCGCATCCCGGACTAGATGGCTGGATATATGTCTCGCGGACCCCCAA ATGGCTCTATTTATGTATGCAATCTGCCTCCTGGAACTGATGAGACCATGTTGGCTGAAT ATTTTGGCACCATAGGGTTGCTAAAGGACAAAAGGACTGGCCACCCAAAGATTTGGATAT ACAGGGACAAAGTTACAAATGAACCAAAGGGTGATGCAACAGTCACCTATGAAGATCCCC ATGCTGCTTCAGCTGCTGTGGAATGGTTCAACAATAAGGATTTCCATGGAAGCATCATCC AGGTTCACATAGCTGAGTCAAAAAACAAAGACACAGTTGATAACTTCACCAATGTGAGCG TCGATGCTGAGATTGTTGGACAAGATGAATTGGATAACGGGTCAGGCAGGGGTAGAGGAC GTGGTGATGGTCCAGCAAAAGCTTGGCAGCAAGATGGAGATTGGATGTGTCCAAATACAA GCTGTGGCAATGTAAATTTTGCCTTCCGTGGTGTGTGTAATCGTTGTGGAGCCTCTCGCC CTGCTGGTGTTAGTGGATCAGGTGGTGGTGGTGGTAGGGGTAGAGGCCGTGGTAGTGATG ATGCAAGAGGCAGTCGTGCTGCTGCTGCTGTTGGTGGTCCTCCTGGGCTGTTTGGTCCTA ATGATTGGCCATGTACGATGTGTGGCAATGTAAACTGGGCCAAGCGGACCAAATGTAATG TCTGTAACACCTCTAGGCCAGGTCACAATGAAGGTGGTGTGAGAGGTGGCCGGGGTGGCG GCTTTAAAGAACTTGATGAAGAAGAACTAGAAGAAGTACGGAGGCGCCGGAAAGAAGCTG AGGAGGATGATGGAGAAATGTATGATGAATTTGGTAACCTGAAAAAGAAGTTCCGTGCTA AGTCACATCAAACTGAGAGTACACCAACTCTTCCTGGGTCTGGACGTGCTGGATGGGAAG TTGAGCACCGTTCCACTGAGAGAGAAGGCCGAGAGAGGAGCAGAGATCGGGGCAGGGACG ACTACGATGAAAGGGAAAGCAAGAACAGAGACAGAGGTTCTCATGGAAGAGAGCGGCGCC GTAGCCGAAGCAGGAGCAGAGACCGCGAGAAGGAGAGGGGGAGGGACAGGGGCAGAGATC GTGGCAACGAGAGAAGCTGGGAGCGCGGCACTGATCGTGAACGTGATCGCTACAGATGAT ATGTCAGGAGTTTTGTCATGTTTGCTTGCCACTTTTCGGTTTTCTGAACCTTTTGTTATG CTGTTGGAGAGCTGTGGTGTATCACACTGTTATCATTAACATGGGACAAGCTTATTATGT TTGGGTCTAAAGTTCTCAAAACAGACCGGATCGATGGGTCGTCAGATCATCTGGTACAAC GGACCCATCAGATCATCTGGTACATCAACG
Protein Sequence (389 aa)
>BART1_0-u35917.007 389 150831_barley_pseudomolecules MAGYMSRGPPNGSIYVCNLPPGTDETMLAEYFGTIGLLKDKRTGHPKIWIYRDKVTNEPK GDATVTYEDPHAASAAVEWFNNKDFHGSIIQVHIAESKNKDTVDNFTNVSVDAEIVGQDE LDNGSGRGRGRGDGPAKAWQQDGDWMCPNTSCGNVNFAFRGVCNRCGASRPAGVSGSGGG GGRGRGRGSDDARGSRAAAAVGGPPGLFGPNDWPCTMCGNVNWAKRTKCNVCNTSRPGHN EGGVRGGRGGGFKELDEEELEEVRRRRKEAEEDDGEMYDEFGNLKKKFRAKSHQTESTPT LPGSGRAGWEVEHRSTEREGRERSRDRGRDDYDERESKNRDRGSHGRERRRSRSRSRDRE KERGRDRGRDRGNERSWERGTDRERDRYR