- Transcript BART1_0-u36905.009
- Transcript IDBART1_0-u36905.009
- Gene IDBART1_0-u36905
Barley RTD
Exon Structure of BART1_0-u36905.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 516499045 | 516498985 | + |
| chr5H | 2 | 516499417 | 516499330 | + |
| chr5H | 3 | 516499628 | 516499542 | + |
| chr5H | 4 | 516500536 | 516499724 | + |
| chr5H | 5 | 516501316 | 516500965 | + |
| chr5H | 6 | 516501625 | 516501544 | + |
| chr5H | 7 | 516502467 | 516502239 | + |
| chr5H | 8 | 516505199 | 516504180 | + |
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 | 0.103884 | 0 | 0.501189 |
| morex | ETI | 0 | 0.225558 | 0.00910518 |
| morex | LEA | 0.0519147 | 0.899417 | 0 |
| morex | EPI | 0 | 0.676036 | 0 |
| morex | ROO | 0.579704 | 0.316033 | 1.02338 |
| morex | ROO2 | 0 | 0 | 0.295305 |
| morex | NOD | 0.456516 | 0 | 0.0000896337 |
| morex | RAC | 0 | 0 | 0.251576 |
| morex | INF1 | 0.417357 | 3.12081 | 0 |
| morex | INF2 | 0 | 0.00100188 | 1.47401 |
| morex | CAR5 | 0 | 0.00106319 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 1.56444 | 0 | 0.256563 |
| morex | LOD | 0 | 0.194242 | 0 |
| morex | PAL | 0.0000757954 | 0 | 0.0000764459 |
| 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_Os09g28300.2 | +2 | 0.0 | 608 | 382/564 (68%) | protein|remorin C-terminal domain containing protein, putative, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g49050.1.p | +2 | 0.0 | 728 | 445/558 (80%) | pacid=32772094 transcript=Bradi2g49050.1 locus=Bradi2g49050 ID=Bradi2g49050.1.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 (2732 bp)
>BART1_0-u36905.009 2732 150831_barley_pseudomolecules GGCAATGGCATGGGCATGGCGCCATGCAGATCTAGCCAGAGCGCACCATGGCCTGTCGCA GCCTTTGGCCGGATTCGTGCGCGCGGATGGCGACATGGAAGGCACAGATCTGGAGACAGA CGGGCTGGCCGCCACTTCCTCCTCCAGCGCGTTCACGGAGCCGCACGACGACGAGGAGGC GCAGTCGCGGCAAGAACCGGCCAAGAGTCCGGCGGGCACTGCCACTGCCATCCGAGAATG CCAGAGCCAGCGGCGGTGCCGGACAGACGCGGTTTACCTGCACGGTAGGAAGGGGCTCAA GCAGCGGCCGGCCTCGCTCGACTTCGGCAGCGCCGGGTTCAGCAGCGGGACTCCGTTTTC TCCGGGCTTTGTGGTGGGAGGCGCGGGGTTTGTGAGCAAGGGACTTGTGTCATCACAGAT CAGCTCAGGGGTGTTTCCGAGTCCCGGCACGCCGAGCTACCCGCGGCGGCACCGGCCATC GGCCTTGGGGTACCAGAAGGGGTGGAGCTCGGAGAGAGTGCCCCTTCCTTCCAAAGGTAA CAACACTAGGAGGTACCCAGGCAGCAGCATGGCATTTCCTCTCAACAACAGGAGGACACT GCCCTCAAAATGGGAGGATGCAGAGAGGTGGATCTTCAGTCCCAAGTCTAACGCCGGCGA TGCGCGTGAGAAGACCGCCACATTGCCCCATGCTCGACGGCCGAAGGCCAAAAGTGGTCC TCTTGGGCCTCCTGGAAGACTTGGTGGACAGTATTCATCTGTATCTTCATCCGTGTCTTT GTTTGACAGTGGGAGAGTTGGGCATTTAGCAGCAAACTCACCTTTCTTGGCGGGAGTACT CATACCTGAACATTATGGTGGGGCGAAAAGTAATGTCCGGAGGTACACGAGTGGAACAGC TGGTGACGAATTTGGTATTGGCATAGTTGGCAGGTCTTCTCTAGCAGCTATCGGGTCGCC TGCTATCCCGTCTACGACGGTGCGCCGACGACTAGATACTGCAATTGAGTCATCTGTGTC ATTGCCTAGCACTCGAGAATCTGTACAAGGCGAAGAGGCTGAGTTTGTAGAAGATTCAGC CCCTGTCGCTACCCCTATAATTTCAAGGAAGGATACCGCGACTCAAACTAGCCCAGATCT AAGTAGGTCTTCTTCGCCCAGCGCCAGGCCTTCATTTGTTCGCTCGTTTTCAATGCAACA AGCCAAGGAGGAGAGCTGTTTCTCTGATCTTGAGATCAGGGATGTGCAGATGGATGACCG AGTGAGTCTTACTAGATGGTCCAAGAAGCATGTAACACAGGCCTCTAACAAGAATTCTAC AAATATCTTAGAGTGGAACAGAAAAACGGTGGACTCTAAATCTTCTTCCTGGGAATCAAC TGAAACAAAGTGCACATTAAAGGTTGAGAGAGAAGAAGCAAAACTTACTGCTTGGGAGAA TCTTCAAAAAGCGAAAGCTGAGGCTGCAATTCAGAAGCTAGTGATGAAACTCGAGAAGAA ACGATCATTTTCTCTGGACAGAATTTTGAACACCCTCAGGTCTGCTCAAAGAAAAGCACA AGGGATGCGTGATGCAGCAACAGCAAGCCAAGATGAACATGTTTGCAGAAAGGCCAAAAA GACATCACACGTTACAAAGAATGGCCAGATCAGATCTCTGAGTGGCTGTTTTACTTGCCA TGCTTTCTAGTATCATGCAATCCCGCTACTGAGGATCTGGAGGACCTAGGTTCACTCTTC AGGCCCTTCAGCAGGGAAGTCCGGGTGAAGTTCAGACAGAGACTCACTCTGTGAGTGAAG AATCCAAACAATCCTCAACTCACCCCCGTCGCATTTTCAGAAGAATATGCCGCTTGCGGC CTGAGCAGGGACCATGCGTGCGCTGGCTCTCACCATATGGCTCTGCTCATCTGCGCAATC TGCCAAGGGGACAAGAGAAAATGGAGGCACCGAGGAAAAGGAGCGATGGTGCCTCTGCGT CACCACATGCACCGACCCGGCAGGCCAGCAGCTAGCACAATGGTAAACAGGTGAAGGCCT CCTTTATCGTTGGCCTTTGCTGGTCCTGTAGTTGCTTCAGGTGTAGCCCATTTGGGTGGG ATTGGATGTACGCCACCATAGAACATTATTAGTATTATTATTTTGCTGCAATCGTTGCTG CTCTCGTGTCTTTACTTTGAGCTGTAGGAGATGCTTCCTCAGGAGGGAAAAAAAAGGTGA ACCAGATAAGGCGTTTTGCAGCTTTCCAGCGTTCAGATAGAAAGCAAGCGTCGGGATAGA AAGTGTCCTACGACCACGAAGTGAGGTTCCTCCCGTGACTTGACCCTCGTGCACCCTCAC CCGTAGGCCGAAAGAAAGCAACGTTATGCAGGTCCAAACAAAACCGGATGCTTTTTGGCT GACAAGTTACCACATGATGTCACGTCACAAACAAAATCGATTGATTGTCAGTATAATTCA CCTGTGGCCGCCCACGAGTTAGAAATGACAAGGTGGCATGACACTTTCTTTGGAGCAATT CTAGCGGACCCACTACGTCGCCAAACATAATTCTTGTTTTCTTAGAGGTTGTTAGCATAT GGCGTAGCTTCGTCTTACTTGCGAGGTGCCAAACAAGAGAAATATAGACAACCTTAGGCA GATCTCGGGAAAAGATCGGTCGGATCACGAGCCCGTTCGATGCACCTGCGATGGCTGTGT GATTCACGTATGACAGCTGACAAGCGTCTGCG
Protein Sequence (531 aa)
>BART1_0-u36905.009 531 150831_barley_pseudomolecules MEGTDLETDGLAATSSSSAFTEPHDDEEAQSRQEPAKSPAGTATAIRECQSQRRCRTDAV YLHGRKGLKQRPASLDFGSAGFSSGTPFSPGFVVGGAGFVSKGLVSSQISSGVFPSPGTP SYPRRHRPSALGYQKGWSSERVPLPSKGNNTRRYPGSSMAFPLNNRRTLPSKWEDAERWI FSPKSNAGDAREKTATLPHARRPKAKSGPLGPPGRLGGQYSSVSSSVSLFDSGRVGHLAA NSPFLAGVLIPEHYGGAKSNVRRYTSGTAGDEFGIGIVGRSSLAAIGSPAIPSTTVRRRL DTAIESSVSLPSTRESVQGEEAEFVEDSAPVATPIISRKDTATQTSPDLSRSSSPSARPS FVRSFSMQQAKEESCFSDLEIRDVQMDDRVSLTRWSKKHVTQASNKNSTNILEWNRKTVD SKSSSWESTETKCTLKVEREEAKLTAWENLQKAKAEAAIQKLVMKLEKKRSFSLDRILNT LRSAQRKAQGMRDAATASQDEHVCRKAKKTSHVTKNGQIRSLSGCFTCHAF