- Transcript BART1_0-u26508.002
- Transcript IDBART1_0-u26508.002
- Gene IDBART1_0-u26508
Barley RTD
Exon Structure of BART1_0-u26508.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 14990298 | 14989892 | - |
| chr4H | 2 | 14992074 | 14991677 | - |
| chr4H | 3 | 14993250 | 14993166 | - |
| chr4H | 4 | 14993667 | 14993567 | - |
| chr4H | 5 | 14993855 | 14993772 | - |
| chr4H | 6 | 14994586 | 14994515 | - |
| chr4H | 7 | 14996598 | 14996482 | - |
| chr4H | 8 | 14996852 | 14996718 | - |
| chr4H | 9 | 14997015 | 14996956 | - |
| chr4H | 10 | 14997507 | 14997103 | - |
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 | 10.2285 | 3.96806 | 9.1739 |
| morex | ETI | 11.4866 | 11.9631 | 10.4598 |
| morex | LEA | 0.0000000763157 | 0.0000000030642 | 4.26399 |
| morex | EPI | 2.85895 | 10.078 | 3.11195 |
| morex | ROO | 6.08429 | 6.55334 | 0 |
| morex | ROO2 | 19.3527 | 19.7382 | 22.028 |
| morex | NOD | 0.266215 | 7.25431 | 7.17949 |
| morex | RAC | 16.1145 | 16.8817 | 15.4523 |
| morex | INF1 | 0.00000000101836 | 0.00000687277 | 0.0000000591711 |
| morex | INF2 | 0.104978 | 20.4973 | 0.258792 |
| morex | CAR5 | 1.48472 | 11.0415 | 0.0899564 |
| morex | CAR15 | 0.824029 | 0.0398041 | 6.23402 |
| morex | LEM | 12.9208 | 14.0811 | 13.664 |
| morex | LOD | 18.0301 | 21.2888 | 16.9158 |
| morex | PAL | 14.4301 | 12.4357 | 13.1997 |
| morex | SEN | 17.0735 | 13.2422 | 11.4454 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g49520.1 | +1 | 3e-162 | 471 | 260/346 (75%) | protein|pinin/SDK/memA protein, putative, expressed |
| TAIR PP10 | AT1G15200 @ ARAPORT AT1G15200.1 @ TAIR |
+1 | 2e-92 | 291 | 165/299 (55%) | Symbols: | protein-protein interaction regulator family protein | chr1:5228477-5231017 REVERSE LENGTH=423 |
| BRACH PP3 | Bradi1g10810.1.p | +1 | 0.0 | 537 | 292/348 (84%) | 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 (1864 bp)
>BART1_0-u26508.002 1864 150831_barley_pseudomolecules CCAGGCACCACATCACTCTCCTAGGCATCCAAACCCTCCCGAACGCATCCACCCCCACCC TCCCTCGCGCAGCCAAACCCTCCCTCCCCCCCTCTCTCCATCGCCGACGACGATGGCCGC CGCGGCGGAGAAGACGGCCGAGGAGATCCGCCGCGAGCTCCAAGAGCTCCAGCGCCAGCA CCGCGAGGTCCCTCTCCCCCTCCCCCGCCCCCTACCCTCCCACGGCCCTTCCGTGACCGT CGACCCGTCTCCCCTGACCCGTTTGTTCGTCCTCGTGTCCTCCTCCCCCCATCGCAGATC AGCGAGCGCCTGCGCGACCCCCGAGGCCTTCGACGCGGCGCTCCCGCCGCCGGCCTCGGC CCGGGCCCCGGAGGCCCCCGCCCGCTCCGCGGCTTCGCCAGACCCGCCCCGGAGCCGGCG GACCAGCCCGAGCCCAAGCGCCGGCTTCTGTCTGCCGTGGTTAAAGTGGATGGCTCTGGA ACTAATGAGGATGACGCAGAGGGGCGAGGGGATGAGCCAACTGCCGCTCAAGGTGGCGAG AGGAGGGGAGCCAGTAATGGTGGGTTCAGGAGGGATGGAAGCCAGTGGGTATCCAGGAGG GAGCTTGATAATCAGCTGCCAGAGCCTCTCCCGAGGCCGGCTCCCAAGGAAGAGGACCAG AGCTTGGTGAGGAGGAACAAGAGAATGCTGGGGAAGCTTCTTGTTGGCACGCTAGAGAAA TTTCAGCAAGAGAACAAAAAACTTTCCAACTCAGAGGCTTTTATGCGTAGATCAGAGGCT CAGCAGAAGGCTGATCAAAAGGCTCGTGAGGACAGTGAAAGATTGCGGCAGCAAGTGCGG GAGCAAGCAGCTGAGAAGCGTAGGCGTGATATGACGCTTCGTGCTCGAGTAGCTGCTAAG TCAGAAGAAAAGAGGTTGGAGCTATTGTACATTCAGTGGTCTGAGCATCACAAAAAGCTG TCCAGTTTCTTAAGGACAAAAGCTGAACCAGCTATTTATTACATGCCGGCTAAACCAATA GTTGATGATCCGCTTATTGTTGAGCAAAACAAGGAAAAGGCATTTGAAGAATGGAAATCT GTGCGCAGAACGGAGCTCACACAGTTTCAAAAGCAAGTTGAGGAGCAGTATCTGTCTAAC GTTGAGAGGCAGCTGGAAAGAATTCAGAATGCCCGGAATGCTCGGAGGGGGAACGTGCCT GCTAACATGCAGGAAATGGACAAGGAGCTGGACACACACAGGGCGGAGCATGGCCCCAAG GCTCGGCGGATCCCCGACGGTGGCAACGACGAGGATGATGATGTGGACGTGGACGACATG GCCGCGGAGGACGACCTGATGGATGAAGTGCTTGGCGTTAATGAGGCGATCAACGAGGAC CCGACCAAGCCATCTGAAGAGGCTACCGATGTTGCCCCTGTACCCGAGGAGGCACAGTAG GCAAAGTTATTTGCAAGCACGGGAAATCGAAGGTACTCTAGACTCTAAGTGCAGCCCATT GAAGACGACAACTCAAGCTTTGTTCAACCGATATGTGATGCCTGAGTTGGAACAATCGGC GTTCCTTTCTTGATACTTATGTAATAAGTTACTTTAATAAAGACGGTTTTGTGCATTGAT CGATGGAAAGGCCAGAGGTACTCCCTCATTTTCAGGAAAAAATGTGTTCAAGTGAAAAGT GGATTCAAACAAGATGGATTTTGGTGTAGACATCACCATATAACACTTAAGCTCGAGGTC ATATATCTTCTGTTATGTATATTCAAGGAGCATTCATGACTTTACAAACAAGAACTAGGT AGTGTAAAGGAAGATACATACATGAATATAAAATACATATATTTATGCAATATTTGTAGA GATA
Protein Sequence (251 aa)
>BART1_0-u26508.002 251 150831_barley_pseudomolecules MLGKLLVGTLEKFQQENKKLSNSEAFMRRSEAQQKADQKAREDSERLRQQVREQAAEKRR RDMTLRARVAAKSEEKRLELLYIQWSEHHKKLSSFLRTKAEPAIYYMPAKPIVDDPLIVE QNKEKAFEEWKSVRRTELTQFQKQVEEQYLSNVERQLERIQNARNARRGNVPANMQEMDK ELDTHRAEHGPKARRIPDGGNDEDDDVDVDDMAAEDDLMDEVLGVNEAINEDPTKPSEEA TDVAPVPEEAQ