- Transcript BART1_0-u26508.007
- Transcript IDBART1_0-u26508.007
- Gene IDBART1_0-u26508
Barley RTD
Exon Structure of BART1_0-u26508.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 14992074 | 14991141 | - |
| chr4H | 2 | 14993250 | 14993166 | - |
| chr4H | 3 | 14993415 | 14993347 | - |
| chr4H | 4 | 14993667 | 14993567 | - |
| chr4H | 5 | 14993855 | 14993772 | - |
| chr4H | 6 | 14994586 | 14994515 | - |
| chr4H | 7 | 14996598 | 14996482 | - |
| chr4H | 8 | 14997455 | 14996718 | - |
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 | 0.369742 | 0.683078 | 0.978536 |
| morex | ETI | 0.201608 | 0.323628 | 0.318901 |
| morex | LEA | 0 | 0.725824 | 2.0197 |
| morex | EPI | 0 | 0 | 0.288697 |
| morex | ROO | 0.568204 | 0.488505 | 0.29758 |
| morex | ROO2 | 0.195378 | 0.887847 | 0.446509 |
| morex | NOD | 0.342017 | 0 | 0.725279 |
| morex | RAC | 0.639063 | 0.381862 | 0 |
| morex | INF1 | 3.30273 | 4.81067 | 4.27319 |
| morex | INF2 | 3.40707 | 2.58792 | 1.55203 |
| morex | CAR5 | 0.684884 | 0 | 1.29886 |
| morex | CAR15 | 0 | 0.618459 | 0.329647 |
| morex | LEM | 0 | 0.135951 | 0.255226 |
| morex | LOD | 0.464112 | 0.764914 | 0.172784 |
| morex | PAL | 0 | 0.535226 | 0.860581 |
| morex | SEN | 0 | 0.407757 | 0.934597 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g49520.1 | +1 | 1e-142 | 424 | 244/341 (72%) | protein|pinin/SDK/memA protein, putative, expressed |
| TAIR PP10 | AT1G15200 @ ARAPORT AT1G15200.2 @ TAIR |
+1 | 4e-78 | 257 | 156/297 (53%) | Symbols: | protein-protein interaction regulator family protein | chr1:5228477-5231017 REVERSE LENGTH=428 |
| BRACH PP3 | Bradi1g10810.1.p | +1 | 6e-165 | 481 | 274/353 (78%) | pacid=32798970 transcript=Bradi1g10810.1 locus=Bradi1g10810 ID=Bradi1g10810.1.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 (2200 bp)
>BART1_0-u26508.007 2200 150831_barley_pseudomolecules CCCCACCCTCCCTCGCGCAGCCAAACCCTCCCTCCCCCCCTCTCTCCATCGCCGACGACG ATGGCCGCCGCGGCGGAGAAGACGGCCGAGGAGATCCGCCGCGAGCTCCAAGAGCTCCAG CGCCAGCACCGCGAGGTCCCTCTCCCCCTCCCCCGCCCCCTACCCTCCCACGGCCCTTCC GTGACCGTCGACCCGTCTCCCCTGACCCGTTTGTTCGTCCTCGTGTCCTCCTCCCCCCAT CGCAGATCAGCGAGCGCCTGCGCGACCCCCGAGGCCTTCGACGCGGCGCTCCCGCCGCCG GCCTCGGCCCGGGCCCCGGAGGCCCCCGCCCGCTCCGCGGCTTCGCCAGACCCGTGCGCG CCTCTCGCTTCGCGTCCCCTTCTCGTCCCTGCCTCTGCTTCCCGTGCGTGATTTTTTCTC CCCGCGTGTTTCTGATGCAGGCCCCGGAGCCGGCGGACCAGCCCGAGCCCAAGCGCCGGC TTCTGTCTGCCGTGGTTAAAGTACGATCCCTCGTTTTGTAACTTGTTTTCGTCAATCCTG TTGGGCTTTGTTGGTTTGTCAAGTACCCTAACATCTTCTCTGTGTTTGCGGCGACGTACG GAGGTGGATGGCTCTGGAACTAATGAGGATGACGCAGAGGGGCGAGGGGATGAGCCAACT GCCGCTCAAGGTGGCGAGAGGAGGGGAGCCAGTAATGGTGGGTTCAGGAGGGATGGAAGC CAGTGGGTATCCAGGAGGGAGCTTGATAATCAGCTGCCAGAGCCTCTCCCGAGGCCGGCT CCCAAGGAAGAGGACCAGAGCTTGGTGAGGAGGAACAAGAGAATGCTGGGGAAGCTTCTT GTTGGCACGCTAGAGAAATTTCAGCAAGAGAACAAAAAACTTTCCAACTCAGAGGCTTTT ATGCGTAGATCAGAGGCTCAGCAGAAGGCTGATCAAAAGGCTCGTGAGGACAGTGAAAGA TTGCGGCAGCAAGTGCGGGAGCAAGCAGCTGAGAAGCGTAGGCGTGATATGACGCTTCGT GCTCGAGTAGCTGCTAAGTCAGAAGAAAAGAGGTTGGAGCTATTGTACATTCAGTGGTCT GAGCATCACAAAAAGCTGTCCAGTTTCTTAAGGTTATTTTTATTCCTGGTCCAAAAGTAT CCATATTGACAATTAAATTGAGGGAAGATGCGTTTCTGATTGACAAAAGCTGAACCAGCT ATTTATTACATGCCGGCTAAACCAATAGTTGATGATCCGCTTATTGTTGAGCAAAACAAG GAAAAGGCATTTGAAGAATGGAAATCTGTGCGCAGAACGGAGCTCACACAGTTTCAAAAG CAAGTTGAGGAGCAGTATCTGTCTAACGTTGAGAGGCAGCTGGAAAGAATTCAGAATGCC CGGAATGCTCGGAGGGGGAACGTGCCTGCTAACATGCAGGAAATGGACAAGGAGCTGGAC ACACACAGGGCGGAGCATGGCCCCAAGGCTCGGCGGATCCCCGACGGTGGCAACGACGAG GATGATGATGTGGACGTGGACGACATGGCCGCGGAGGACGACCTGATGGATGAAGTGCTT GGCGTTAATGAGGCGATCAACGAGGACCCGACCAAGCCATCTGAAGAGGCTACCGATGTT GCCCCTGTACCCGAGGAGGCACAGTAGGCAAAGTTATTTGCAAGGTAGGCACTTACGCAT TATGATTCTATATCGTTGTAGTTGCCCTCTTCTGTTGTGACTGTATTGTTGTTGGGTTTT TGTCTTTGGGAATGTTGTGAGCTGTGTTTGCTGTTGAGGCCATATCCATACTTTTCATTA TTGTTATTGTCATTCGTACGTACTCTGCGTCTGCTCTTTTACGATCAAGTGTCAACCTGC GAAAACAATCATCATGCGATCAACCTGTTCTTCACCTGCGCCGTTAGCGTACAGGTGTTG CGGTACTGTTGATGACCTCTATCACTGTACGTTCAAGTTGTATGCTTTGGCAAAACCAGT TTAATCGTGCCAATAGTTCTATTTCCTTCTAGCACTGTATTTTCCTTGCTAGTTTATCTG AAAATTCTAATGAGTGGAAATGACCGCTTGCTGATCTCTTTGACTCTCCCTTTAGGAAAA TGATCTCTTTGACTCTCCCTTTAGGAAAAGTGTGATGAAAGTTTCTGTTAATAATATCAC CCCTTTGTTAGGTTTCCATTTTCTATACGTTAATAGCGGC
Protein Sequence (145 aa)
>BART1_0-u26508.007 145 150831_barley_pseudomolecules MPAKPIVDDPLIVEQNKEKAFEEWKSVRRTELTQFQKQVEEQYLSNVERQLERIQNARNA RRGNVPANMQEMDKELDTHRAEHGPKARRIPDGGNDEDDDVDVDDMAAEDDLMDEVLGVN EAINEDPTKPSEEATDVAPVPEEAQ