- Transcript BART1_0-u11397.002
- Transcript IDBART1_0-u11397.002
- Gene IDBART1_0-u11397
Barley RTD
Exon Structure of BART1_0-u11397.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 405594558 | 405593702 | + |
| chr2H | 2 | 405594715 | 405594650 | + |
| chr2H | 3 | 405594910 | 405594845 | + |
| chr2H | 4 | 405595321 | 405595025 | + |
| chr2H | 5 | 405595560 | 405595400 | + |
| chr2H | 6 | 405598197 | 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 | 0.484272 | 0 | 0.555717 |
| morex | ETI | 0.0000000237208 | 0 | 4.22122 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 2.51199 | 2.55989 | 3.28645 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0.00597001 |
| morex | NOD | 0 | 0 | 1.42405 |
| morex | RAC | 0.0709772 | 0.277001 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0.000329963 | 0.000000126857 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0.321692 | 0 |
| morex | LEM | 0 | 0 | 0.0909292 |
| morex | LOD | 0 | 0.000164848 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0.000000874448 | 0.909177 | 0.00189608 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os07g05010.1 | +3 | 9e-77 | 258 | 150/239 (63%) | protein|helix-loop-helix DNA-binding domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g58230.1.p | +3 | 4e-136 | 413 | 251/375 (67%) | 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 (2852 bp)
>BART1_0-u11397.002 2852 150831_barley_pseudomolecules GGCTGCCCCTGCCGCCGATTCACAGTCACACTCACTCACAGGGCGGACAGCGATGTCAAC GGATCCTCCCCCTCCATACGAATGCCGCACAACTCTTCTCTCCTCTTCTCTTCTCTCGTC CTTTTATTATTCCCGAGAAAATCGAACCCAGCTAGACAGTCCACAGCTCTGGCACACAGC TTCGCTCTCCGCCGGTTTCTGCTCAAGTGGAGAGGCCCGTCAGCTCGATCGGTTCCAGGA TCATGGACGACGGCGCAACACCGCCGCCCAACCACAAGAGGCACCTCCCGTAATTTACGA GCTTCTCTCACCAATTGATTCGTTTCTTGTGTCTGTGCTTCTTGTTCCTTGTGAGAGCCT TCTCGTGGCGCAGACTGCGGGAGGCGGGCGGCGACCTCGTGGAGCTGCTGTGGCAGAACG GAGCCATCGTAGCGCAGGCGCAGGCGCAGACGCCGCACCGCCGGTGTTCCCAGAGCGGCG CGGCGAGCGGCGTCACCGCGGAGGACGCGACCGCGTGGTTGATCCCGGACGGCGGCGGCG GCAGGGACCTGTACTCGCACCTCTGGCACGGCGTCGCCGACGGGGATGCGGGCGCGCTCG TGGCGGGGAGCGGCGGCGCCGGGACGAGCTTCTGCGGGAGCAACGCGGTGACGGCGCCGG CGCTGCTGCCATCGCCGGGCTCGTCCGCAGCGGGAGGCCAAGCGCTACTGTTCAAGAGGG GGAGGGACCAACTGGATAGCCGCCGAGAGGACGAACTGGATACCGACGACTGTGAGGCCG TCAATGAGACCCGGCCGCAGCGGCCGGCAGCGAAGCGCAGGACTCGTGCTGCCGAGGTCC ATAACCAATCAGAGCGGAGAAGAAGGGATCGGATCAACGAAAAGATGAAAGCATTGCAAG AACTCGTACCCCATTGCAACAAGAGCGACAAGGCGTCCATTCTAGACGAAGCAATCGAGT ACTTGAAGTCTCTGCAACTGCAAGTTCAGATCATGTGGATGACTACTGGGATGACGCCCA TGATGTACCCTGGTGCTCACCAACTCATGTCGCCGATGGCCGTGGGCTTGAACTCAGCGT GCATTCCCACGGCGCAGAGCCTTAGCCAGCTGCAAAAAAGGGTAGCACCGTTTATGAACA ATCATCTCCCCGATCAAATGCCTCAGGTCCAATCTCCAGCTATCGATTCCCTCGATGTGG CAAACCAGATGCAAAACAATGGTGTCTGTGGTGAGCCAAGAAACCCTTTCCTGCATCCAG ACGACACGCTAACAGCGGCATCTCAGCTTCCGGGTATGTTGCCCTATGCATCTCAAAAGG CACAACAAAACCAGAATCATCAGTTACTGCCTAGCATAGACATGCCAGCTTCAGGACCCT GCCCGCCATCTTTTGCTGACGGAACGGGAAAATAAGGCCAGGCAGTTTCAAGCAAGATGA TTTACTGGGGGGTTGGATACAGGAGGTCAGAGCAAACTAGTCATAGAAGAGAAGAGATAT GGTACCAAGACACTCTGTGCTGTAAGGCCAGGGGCAGATCATGCAACATTGAGCCTTGGT GGCACCACTAAGCAACCAACACGTATGGGCCCGAGATCATGCGGAATTGCGGATAGCAGA TACTATTCTTATCCGAAGAATAGTCTTGAGCACCACCTTTCTATTTATGGAAGGATTTGG TCCATGGGAGATGAACTTGGGGCTTTGACAGGGACAACAAAAGATGATTGTGCCGATATG CTGCAGATCTGGAGATGACATTGTTGGAGCCAGGATCTGCACAATGACACAACTTGTGCA CTTCTGCTCGTCTTTCCACCGATGTAACTCCACTCCACTGGTGAGTCCTAATGGGACTGT CCTGTTGACCCGCGGTCGAGCTATCGATATTCGAATGGACGGCTGAAACAAGGGTAGGCA GAAGAAACTTGTGCTTTTCGGACACAATTGTAGATCAGGTTTGCATATGCCTTTCAGAAA TTCAGACAAGTGGTACATGAAGATCATTCTCATTCGGCCATCAGGATCGCGAGATTATCG CCTTACCCTTAACCCTGGAAAGATTGTACCGCATGTGGTGATGTCCTGTTACAAGTTAAT CAGGACTGTGATGGGCATCATCCGTTTCGTCACAGGGTAATTAGTCTCTGAAAATATCAA TGATGCTGCATCTTTTGTTGTGTTATACTCCAATTGTGAGTCAGCTTCAGTCGCCGTCAG GGGAGACTGGGACTTTGCTTCGCATTTACACGTCCAGATTTGGTTGTCATGCTCGTATCA TAGCGATTGATGTAGATGCTTGGCAATTTGGAGGACAGATATTCATACCATGAAAAAAAA GAGGACAGATATTCATTCTTTGCGTCTTGCTCTTGCTTCTATATATATCTAGGAAACCAG AACTAGTCAAAATTTCAAACATGTGAAAAGATTATTGGCTTCGCCCGGGTTCGAACCGGA GACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACCTTTAGTGCTTT GTCCACATATGGTAAAGTTCTCTTCTAACTACGCTCAGCTGACGAACCAAACGCAAGAAG AAAGCAAAGATAAAGTGGAAGGAAAAGGAGCAAGGAGGAGAGTAGGCGTTCTGAACACAC CGACCTCTGATCCTTGCAATCTCGCTGATGACTTTTACGCAGGGACGCAAGATTCCTGGC GAACGCAGGCCGCTGATCCTTACAATGTCGTTGATGACTTTTACGCAGAGATCCAAACCC AAAAGTATTCAGAAATACTATCTGGTGAATGTTCGCTGGGCGGACAACCCCGGCGAACGC TCTCTCCCCCGTTGCATGGACCTTGGCGCAGG
Protein Sequence (176 aa)
>BART1_0-u11397.002 176 150831_barley_pseudomolecules MKALQELVPHCNKSDKASILDEAIEYLKSLQLQVQIMWMTTGMTPMMYPGAHQLMSPMAV GLNSACIPTAQSLSQLQKRVAPFMNNHLPDQMPQVQSPAIDSLDVANQMQNNGVCGEPRN PFLHPDDTLTAASQLPGMLPYASQKAQQNQNHQLLPSIDMPASGPCPPSFADGTGK