- Transcript BART1_0-u11397.003
- Transcript IDBART1_0-u11397.003
- Gene IDBART1_0-u11397
Barley RTD
Exon Structure of BART1_0-u11397.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 405593981 | 405593702 | + |
| chr2H | 2 | 405594558 | 405594075 | + |
| chr2H | 3 | 405594729 | 405594650 | + |
| chr2H | 4 | 405594910 | 405594845 | + |
| chr2H | 5 | 405595321 | 405595025 | + |
| chr2H | 6 | 405595560 | 405595400 | + |
| chr2H | 7 | 405597707 | 405596793 | + |
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 | 0.000101491 |
| 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 | 0.12602 | 0.036827 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0.128605 | 0 |
| morex | LEM | 0.0683604 | 0 | 0.100663 |
| morex | LOD | 0.131855 | 0.336015 | 0 |
| morex | PAL | 0.0210828 | 0.231335 | 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_Os07g05010.1 | +2 | 1e-43 | 164 | 103/191 (54%) | protein|helix-loop-helix DNA-binding domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g58230.1.p | +2 | 4e-61 | 211 | 128/189 (68%) | pacid=32794195 transcript=Bradi1g58230.1 locus=Bradi1g58230 ID=Bradi1g58230.1.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 (2283 bp)
>BART1_0-u11397.003 2283 150831_barley_pseudomolecules GGCTGCCCCTGCCGCCGATTCACAGTCACACTCACTCACAGGGCGGACAGCGATGTCAAC GGATCCTCCCCCTCCATACGAATGCCGCACAACTCTTCTCTCCTCTTCTCTTCTCTCGTC CTTTTATTATTCCCGAGAAAATCGAACCCAGCTAGACAGTCCACAGCTCTGGCACACAGC TTCGCTCTCCGCCGGTTTCTGCTCAAGTGGAGAGGCCCGTCAGCTCGATCGGTTCCAGGA TCATGGACGACGGCGCAACACCGCCGCCCAACCACAAGAGACTGCGGGAGGCGGGCGGCG ACCTCGTGGAGCTGCTGTGGCAGAACGGAGCCATCGTAGCGCAGGCGCAGGCGCAGACGC CGCACCGCCGGTGTTCCCAGAGCGGCGCGGCGAGCGGCGTCACCGCGGAGGACGCGACCG CGTGGTTGATCCCGGACGGCGGCGGCGGCAGGGACCTGTACTCGCACCTCTGGCACGGCG TCGCCGACGGGGATGCGGGCGCGCTCGTGGCGGGGAGCGGCGGCGCCGGGACGAGCTTCT GCGGGAGCAACGCGGTGACGGCGCCGGCGCTGCTGCCATCGCCGGGCTCGTCCGCAGCGG GAGGCCAAGCGCTACTGTTCAAGAGGGGGAGGGACCAACTGGATAGCCGCCGAGAGGACG AACTGGATACCGACGACTGTGAGGCCGTCAATGAGACCCGGCCGCAGCGGCCGGCAGCGA AGCGCAGGACTCGTGCTGCCGAGGTCCATAACCAATCAGAGCGGAGAAGAAGGGATCGGA TCAACGAAAAGATGAAAGCATTGCAAGAACTCGTACCCCATTGCAACAAGGTACCAAAGA AACTAGCGACAAGGCGTCCATTCTAGACGAAGCAATCGAGTACTTGAAGTCTCTGCAACT GCAAGTTCAGATCATGTGGATGACTACTGGGATGACGCCCATGATGTACCCTGGTGCTCA CCAACTCATGTCGCCGATGGCCGTGGGCTTGAACTCAGCGTGCATTCCCACGGCGCAGAG CCTTAGCCAGCTGCAAAAAAGGGTAGCACCGTTTATGAACAATCATCTCCCCGATCAAAT GCCTCAGGTCCAATCTCCAGCTATCGATTCCCTCGATGTGGCAAACCAGATGCAAAACAA TGGTGTCTGTGGTGAGCCAAGAAACCCTTTCCTGCATCCAGACGACACGCTAACAGCGGC ATCTCAGCTTCCGGGTATGTTGCCCTATGCATCTCAAAAGGCACAACAAAACCAGAATCA TCAGTTACTGCCTAGCATAGACATGCCAGCTTCAGGACCCTGCCCGCCATCTTTTGCTGA CGGAACGGGAAAATAAGGCCAGGCAGTTTCAAGCAAGATGATTTACTGGGGGGTTGGATA CAGGAGGTCAGAGCAAACTAGTCATAGAAGAGAAGAGATATGGTACCAAGACACTCTGTG CTGTAAGGCCAGGGGCAGATCATGCAACATTGAGCCTTGGTGGCACCACTAAGCAACCAA CACGTATGGGCCCGAGATCATGCGGAATTGCGGATAGCAGATACTATTCTTATCCGAAGA ATAGTCTTGAGCACCACCTTTCTATTTATGGAAGGATTTGGTCCATGGGAGATGAACTTG GGGCTTTGACAGGGACAACAAAAGATGATTGTGCCGATATGCTGCAGATCTGGAGATGAC ATTGTTGGAGCCAGGATCTGCACAATGACACAACTTGTGCACTTCTGCTCGTCTTTCCAC CGATGTAACTCCACTCCACTGGTGAGTCCTAATGGGACTGTCCTGTTGACCCGCGGTCGA GCTATCGATATTCGAATGGACGGCTGAAACAAGGGTAGGCAGAAGAAACTTGTGCTTTTC GGACACAATTGTAGATCAGGTTTGCATATGCCTTTCAGAAATTCAGACAAGTGGTACATG AAGATCATTCTCATTCGGCCATCAGGATCGCGAGATTATCGCCTTACCCTTAACCCTGGA AAGATTGTACCGCATGTGGTGATGTCCTGTTACAAGTTAATCAGGACTGTGATGGGCATC ATCCGTTTCGTCACAGGGTAATTAGTCTCTGAAAATATCAATGATGCTGCATCTTTTGTT GTGTTATACTCCAATTGTGAGTCAGCTTCAGTCGCCGTCAGGGGAGACTGGGACTTTGCT TCGCATTTACACGTCCAGATTTGGTTGTCATGCTCGTATCATAGCGATTGATGTAGATGC TTGGCAATTTGGAGGACAGATATTCATACCATGAAAAAAAAGAGGACAGATATTCATTCT TTG
Protein Sequence (207 aa)
>BART1_0-u11397.003 207 150831_barley_pseudomolecules MDDGATPPPNHKRLREAGGDLVELLWQNGAIVAQAQAQTPHRRCSQSGAASGVTAEDATA WLIPDGGGGRDLYSHLWHGVADGDAGALVAGSGGAGTSFCGSNAVTAPALLPSPGSSAAG GQALLFKRGRDQLDSRREDELDTDDCEAVNETRPQRPAAKRRTRAAEVHNQSERRRRDRI NEKMKALQELVPHCNKVPKKLATRRPF