- Transcript BART1_0-u35721.002
- Transcript IDBART1_0-u35721.002
- Gene IDBART1_0-u35721
Barley RTD
Exon Structure of BART1_0-u35721.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 405760204 | 405759987 | + |
| chr5H | 2 | 405760512 | 405760429 | + |
| chr5H | 3 | 405761523 | 405761364 | + |
| chr5H | 4 | 405762633 | 405762486 | + |
| chr5H | 5 | 405762807 | 405762730 | + |
| chr5H | 6 | 405763442 | 405763358 | + |
| chr5H | 7 | 405765987 | 405763535 | + |
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 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0.0970986 | 0 | 0 |
| morex | CAR15 | 0 | 0.000814918 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0.00771265 | 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_Os02g21250.2 | +3 | 1e-93 | 297 | 171/183 (93%) | protein|clathrin adaptor complex small chain domain containing protein, expressed |
| TAIR PP10 | AT3G09800 @ ARAPORT AT3G09800.1 @ TAIR |
+3 | 2e-68 | 226 | 127/178 (71%) | Symbols: | SNARE-like superfamily protein | chr3:3006731-3007916 REVERSE LENGTH=179 |
| BRACH PP3 | Bradi4g08770.4.p | +3 | 2e-98 | 309 | 178/183 (97%) | pacid=32783612 transcript=Bradi4g08770.4 locus=Bradi4g08770 ID=Bradi4g08770.4.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 (3226 bp)
>BART1_0-u35721.002 3226 150831_barley_pseudomolecules CTCAGTTTTTGGCTATGGTATGTGGCCCGTCTCAGTTTTTGAGCCAATTGGGCTGGGCCA GCGGGCCTGTTGGAGTAGCTAAACTAACCAGCTCGTCCATTTCCGCTCGCCTAATCCCTC CCGTCTTTCTCTACACTCGTCTGCTGCATCTCAGATCTCGCGGGCACCAACAAACCAAAG CAAAGCTCTCCCGCTGTCCCGATCACTCTCCCTTCCAGGTGCGTTTCTTTCTTCGGCAGG AAGCTTGGACCGGAGGAAGGTGCTGAGAGGGCGGAAAGGAGGCCATGGGGGAATTCTCCA AGGAATCTTGCCCGTCTGTGAAGAACATTTTGCTACTGGATTCTGAGGGAAAGCGCGTTG CTGTGAAGTACTTCTCGGATGATTGGCCGAACAACGCATCTAGGTTGACCTTTGAAAAGT CCATTTTTACTAAAACTCTGAAGACAAATGCACGCTCAGAAGCTGAGATAACATTGCTTG ATGGTAATATTGTTGTTTACAAGTTTGTACAAGACCTTCACTTCTTCGTCACTGCCGGAG ATGATGAGAATGAGCTAATCATAGCAAATGTGCTACAGGGTTTTGCTGATTCGGTTGGTC TTCTACTCAGGGGTGACGTTGAGAAGAGGACTGCACTTGAGAACTTGGACTTGATACTTC TCTGCATTGATGAGATTATTGATGGCGGCATAATTCTTGAAACAGATGCGAATACCATTG CGGGGAAGGTTGCAACCAATGCTGCTGACGGTTCTGTTCCCTTCTCTGAGCAGACAATAT CCCAAGCTCTGGCCACAGCCAGGGAACACTTTGCAAGATCTCTTCTGAAGTGAGAAACCA CTGCTTCTTCTGTCACCCCTGTTACAACTTGTGTGTGTTTGAGGTCTGGCTACTATGCTA TAGGCCTGGTAGCGGTCACTTAACCAGAAGCGCAACTGTGACAGACAGATTTGTCTGGAT TCTTCTTAAATGATATGTAATACTATTTTCTCGTCAAATGCATGCTGCGTGTCGTACATT TTCTGGAGGTATAGAGAAATAATTTTTGACGTTAATCCAATTTCTGCTAAATAACACTCT TCTCAAACCGGAAAGGGCGGATATCGCTTCAACTTTTTTTTTTTTTTTTTGCCTTTCGTT TATTTCTTTACAAGAATTATGTGTGTTCCCAAGCATGAGCCAGAAGTGGCCTTATTGATG AAGCGTTATTGCTAGGGGTGTTATGTTAGGAGATGAACCTCTGAAGTCTTATAGGCAGCC CAAATGTGTGCAAGAGGGATGTTTAGCCTCCCGTACAATAGTCATTGAGACAAGTGCCGA ATATTCTATGTTAGCCTTCACGGGAGAAAAAAATGAAATTAAAGGGACCAGAGGAAAATT GAAGGAAGAACAACGAAAGGGGTTTGTCCCCAGGGCTGTGAAGTTCAGATCTACCACCCC ATCTCTGTAAAGTTATGGTTCCACCATCTTTGATGAGTTTATTCTAATCCTTACCTTTTG CAACCCTAAATCTTACTGTTGTCATCTAAGACAGTGATATCTTAATGCATGAAAGCCTCT AAAGCTACTTAGAGAAGAACCTCTAGTGTCCCACATTTGAATGGCTTCATCTAGTGGGTT TTACCCTAATTTAGGGAGTTTCCCACGTTAATATTTGGTGTATATGTGTGTTTATATTGA TGTTACATTTTTGTAGAAGAATGTCTAGAAGCACTTAGTACTTGTCCTAGATATGTGTTG GAAGCACTCAGGGAGAAAAGAAAGTACTTCCGCTCGCTGCTTGCATGACCGCACAAGGCA GCTGAGGCAAGAACAGAATTCAGAAAGGTGCGCTCCTGCCCTGCGCACCGCGTCGGCCGT CACTCCGGCGTCGGCGGCCACCAGTCTCGCCGCTCCCCACTCCAGGGACGGCGCCTACCT CCCGCTCCTAGGTGCCATGGCCTCTAGGGTCTTCCTGTCCAGGCCCCTCTCGCTGGAGCC CGACTCCCCCCCGCAGTCTTCGCCAAGATCCCGTTGCATGGTCGCGGCCTCAGCTCAGAT CTCTCATCGTGCCGTAGATCCTGGGCACCGCCTTCGGTCCGCTGACCGCTCGTGCAGGGT GGCGGCACGGGGGCCTCTTGCGCCCCCACTCATCCTCCGGCGAATGGTGGGTGGCAGACC AAGATGGGTCGTCGCCCGCGGGCTCCGCCTGTCCGTGCCCCACCTGTGCGACGTCGGCGC CTGGCGGGGCGGCCCCGTGCACTGCCGGCCCCTCGACCGCCGCCCTCCTCAAGGCCACCC CCGAAGCTTCATGGATGCTGCTACAACTGCAGGAGTGATGGGCATATCTATGTCGACTGC ACGAATCCTACGTTCCGTGTCCCGGTGCCGTGGGGCCGGTCACACGTCGCGCGGGTTTAC GTGTCCCCGCAGCCCCTCTCCGGTGGAGAAGCCGTCGCGTCCCCCGCCGGCCCTCCGCTC TAAGGTGACCACGTCCCCAAGCCCCGACCACGCAGTCTCCTTCCGATCTGCCACTCCGTC GCCTGGCTCGTTTCGAACATATCTATACTTTTTAATTGTTCATGCTGATATGTTATTATT GTAAGATACTTTTTGTGCAGTCATATGCCAATTTATAATATTTTTGAGCACTAGCCTATT GACCCAGTGCCCAGTGCTAGTTCCTATTTTATGCGTGTTTTTTTGCTTTGCAGGTTTACC CTACCAAACGAATTTCAAATGCCACAAAACTTTAATATGATTTTTTCTGGACTATATGAA GACCTGCAAGCATCAGAAGTGGACGAGAGGCCGAACGAGGTAGGCACAAGCCAACAGGGC GCGGCCGCGCCCTAATGACTTGTGCCCCCCTAGATGCCTCCCGCCGTCCCTCTCTGACCT ATAAATTCACAAATATTCCGATGCACTCCCGAAACACTTTTTCCGCCGCCGCAAGTCTCT GTTCTGACGGAAGGCCATCTAAACCTCCATTCCGGCGATCTGTCGGAGGGGAGATCAGTC ACGGAGGGCCTCTACATCAACCTTGTTGCCCTCACCGTGATGTGTGAGTAGTTTACCACA TACCTACGGGTCCGTAGGCAGTACCTAGATGACAATCTCTCTCTCTTATGATCTTCAATA CCATGTTCATCGCATCTTCGCTTTGATCTATCCGATGTAATCACTATGTATGGTGTGTTT GTTGGGGTCCGATGAATTGTGGGTTTATGTTCAGATTATTCATGAA
Protein Sequence (283 aa)
>BART1_0-u35721.002 283 150831_barley_pseudomolecules MCWKHSGRKESTSARCLHDRTRQLRQEQNSERCAPALRTASAVTPASAATSLAAPHSRDG AYLPLLGAMASRVFLSRPLSLEPDSPPQSSPRSRCMVAASAQISHRAVDPGHRLRSADRS CRVAARGPLAPPLILRRMVGGRPRWVVARGLRLSVPHLCDVGAWRGGPVHCRPLDRRPPQ GHPRSFMDAATTAGVMGISMSTARILRSVSRCRGAGHTSRGFTCPRSPSPVEKPSRPPPA LRSKVTTSPSPDHAVSFRSATPSPGSFRTYLYFLIVHADMLLL