- Transcript BART1_0-u26508.003
- Transcript IDBART1_0-u26508.003
- Gene IDBART1_0-u26508
Barley RTD
Exon Structure of BART1_0-u26508.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 14990298 | 14989937 | - |
| chr4H | 2 | 14992074 | 14991677 | - |
| chr4H | 3 | 14993415 | 14993166 | - |
| chr4H | 4 | 14993667 | 14993567 | - |
| chr4H | 5 | 14993855 | 14993772 | - |
| chr4H | 6 | 14994586 | 14994515 | - |
| chr4H | 7 | 14996598 | 14996482 | - |
| chr4H | 8 | 14996852 | 14996718 | - |
| chr4H | 9 | 14997210 | 14996956 | - |
| chr4H | 10 | 14997604 | 14997321 | - |
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 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 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_Os03g49520.2 | +3 | 7e-83 | 263 | 154/207 (74%) | protein|pinin/SDK/memA protein, putative, expressed |
| TAIR PP10 | AT1G15200 @ ARAPORT AT1G15200.4 @ TAIR |
+3 | 6e-84 | 271 | 168/354 (47%) | Symbols: | protein-protein interaction regulator family protein | chr1:5228477-5231017 REVERSE LENGTH=442 |
| BRACH PP3 | Bradi1g10810.1.p | +3 | 7e-134 | 400 | 256/411 (62%) | 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 (2058 bp)
>BART1_0-u26508.003 2058 150831_barley_pseudomolecules CCCGACGGCAACAACCGACCTGGCTGGTCAAGCGACCACGGCCCAACCGCAACGGAGACG GCACTCCCCAAGATCCAACGGCCGAGATCGCTCCCAGCCAGGCACCACATCACTCTCCTA GGCATCCAAACCCTCCCGAACGCATCCACCCCCACCCTCCCTCGCGCAGCCAAACCCTCC CTCCCCCCCTCTCTCCATCGCCGACGACGATGGCCGCCGCGGCGGAGAAGACGGCCGAGG AGATCCGCCGCGAGCTCCAAGAGCTCCAGCGCCAGCACCGCGAGATCAGCGAGCGCCTGC GCGACCCCCGAGGCCTTCGACGCGGCGCTCCCGCCGCCGGCCTCGGCCCGGGCCCCGGAG GCCCCCGCCCGCTCCGCGGCTTCGCCAGACCCGTGCGCGCCTCTCGCTTCGCGTCCCCTT CTCGTCCCTGCCTCTGCTTCCCGTGCGTGATTTTTTCTCCCCGCGTGTTTCTGATGCAGG CCCCGGAGCCGGCGGACCAGCCCGAGCCCAAGCGCCGGCTTCTGTCTGCCGTGGTTAAAG TGGATGGCTCTGGAACTAATGAGGATGACGCAGAGGGGCGAGGGGATGAGCCAACTGCCG CTCAAGGTGGCGAGAGGAGGGGAGCCAGTAATGGTGGGTTCAGGAGGGATGGAAGCCAGT GGGTATCCAGGAGGGAGCTTGATAATCAGCTGCCAGAGCCTCTCCCGAGGCCGGCTCCCA AGGAAGAGGACCAGAGCTTGGTGAGGAGGAACAAGAGAATGCTGGGGAAGCTTCTTGTTG GCACGCTAGAGAAATTTCAGCAAGAGAACAAAAAACTTTCCAACTCAGAGGCTTTTATGC GTAGATCAGAGGCTCAGCAGAAGGCTGATCAAAAGGCTCGTGAGGACAGTGAAAGATTGC GGCAGCAAGTGCGGGAGCAAGCAGCTGAGAAGCGTAGGCGTGATATGACGCTTCGTGCTC GAGTAGCTGCTAAGTCAGAAGAAAAGAGGTTGGAGCTATTGTACATTCAGTGGTCTGAGC ATCACAAAAAGCTGTCCAGTTTCTTAAGGTTATTTTTATTCCTGGTCCAAAAGTATCCAT ATTGACAATTAAATTGAGGGAAGATGCGTTTCTGATTGTACGCAAATCTTGATGTTTGAT GTCTATAGGGGTTTCCATATCCACTCATTATACTATATGTTTGTTCCTTGTTTGATTCCA TTTGTATTTTCAGGACAAAAGCTGAACCAGCTATTTATTACATGCCGGCTAAACCAATAG TTGATGATCCGCTTATTGTTGAGCAAAACAAGGAAAAGGCATTTGAAGAATGGAAATCTG TGCGCAGAACGGAGCTCACACAGTTTCAAAAGCAAGTTGAGGAGCAGTATCTGTCTAACG TTGAGAGGCAGCTGGAAAGAATTCAGAATGCCCGGAATGCTCGGAGGGGGAACGTGCCTG CTAACATGCAGGAAATGGACAAGGAGCTGGACACACACAGGGCGGAGCATGGCCCCAAGG CTCGGCGGATCCCCGACGGTGGCAACGACGAGGATGATGATGTGGACGTGGACGACATGG CCGCGGAGGACGACCTGATGGATGAAGTGCTTGGCGTTAATGAGGCGATCAACGAGGACC CGACCAAGCCATCTGAAGAGGCTACCGATGTTGCCCCTGTACCCGAGGAGGCACAGTAGG CAAAGTTATTTGCAAGCACGGGAAATCGAAGGTACTCTAGACTCTAAGTGCAGCCCATTG AAGACGACAACTCAAGCTTTGTTCAACCGATATGTGATGCCTGAGTTGGAACAATCGGCG TTCCTTTCTTGATACTTATGTAATAAGTTACTTTAATAAAGACGGTTTTGTGCATTGATC GATGGAAAGGCCAGAGGTACTCCCTCATTTTCAGGAAAAAATGTGTTCAAGTGAAAAGTG GATTCAAACAAGATGGATTTTGGTGTAGACATCACCATATAACACTTAAGCTCGAGGTCA TATATCTTCTGTTATGTATATTCAAGGAGCATTCATGACTTTACAAACAAGAACTAGGTA GTGTAAAGGAAGATACAT
Protein Sequence (360 aa)
>BART1_0-u26508.003 360 150831_barley_pseudomolecules RRQQPTWLVKRPRPNRNGDGTPQDPTAEIAPSQAPHHSPRHPNPPERIHPHPPSRSQTLP PPLSPSPTTMAAAAEKTAEEIRRELQELQRQHREISERLRDPRGLRRGAPAAGLGPGPGG PRPLRGFARPVRASRFASPSRPCLCFPCVIFSPRVFLMQAPEPADQPEPKRRLLSAVVKV DGSGTNEDDAEGRGDEPTAAQGGERRGASNGGFRRDGSQWVSRRELDNQLPEPLPRPAPK EEDQSLVRRNKRMLGKLLVGTLEKFQQENKKLSNSEAFMRRSEAQQKADQKAREDSERLR QQVREQAAEKRRRDMTLRARVAAKSEEKRLELLYIQWSEHHKKLSSFLRLFLFLVQKYPY