- Transcript BART1_0-u26508.005
- Transcript IDBART1_0-u26508.005
- Gene IDBART1_0-u26508
Barley RTD
Exon Structure of BART1_0-u26508.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 14990298 | 14989942 | - |
| 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 | 14997210 | 14996956 | - |
| chr4H | 10 | 14997581 | 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 | 0.629022 |
| morex | LEA | 2.20989 | 0 | 0 |
| morex | EPI | 2.62829 | 0 | 0 |
| morex | ROO | 1.01332 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0.99498 | 1.29994 |
| morex | RAC | 0.884877 | 0.510622 | 0 |
| morex | INF1 | 0 | 0 | 0.000000385591 |
| morex | INF2 | 0.929303 | 0 | 1.95415 |
| morex | CAR5 | 3.05396 | 3.31642 | 0.163172 |
| morex | CAR15 | 1.05063 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0.698891 |
| morex | PAL | 0 | 0 | 0.0000000324227 |
| morex | SEN | 0.878365 | 0 | 1.60913 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g49520.1 | +1 | 2e-162 | 471 | 264/353 (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 | 540 | 295/356 (83%) | 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 (1865 bp)
>BART1_0-u26508.005 1865 150831_barley_pseudomolecules CTGGTCAAGCGACCACGGCCCAACCGCAACGGAGACGGCACTCCCCAAGATCCAACGGCC GAGATCGCTCCCAGCCAGGCACCACATCACTCTCCTAGGCATCCAAACCCTCCCGAACGC ATCCACCCCCACCCTCCCTCGCGCAGCCAAACCCTCCCTCCCCCCCTCTCTCCATCGCCG ACGACGATGGCCGCCGCGGCGGAGAAGACGGCCGAGGAGATCCGCCGCGAGCTCCAAGAG CTCCAGCGCCAGCACCGCGAGATCAGCGAGCGCCTGCGCGACCCCCGAGGCCTTCGACGC GGCGCTCCCGCCGCCGGCCTCGGCCCGGGCCCCGGAGGCCCCCGCCCGCTCCGCGGCTTC GCCAGACCCGTGCGCGCCTCTCGCTTCGCGTCCCCTTCTCGTCCCTGCCTCTGCTTCCCG TGCGTGATTTTTTCTCCCCGCGTGTTTCTGATGCAGGCCCCGGAGCCGGCGGACCAGCCC GAGCCCAAGCGCCGGCTTCTGTCTGCCGTGGTTAAAGTGGATGGCTCTGGAACTAATGAG GATGACGCAGAGGGGCGAGGGGATGAGCCAACTGCCGCTCAAGGTGGCGAGAGGAGGGGA GCCAGTAATGGTGGGTTCAGGAGGGATGGAAGCCAGTGGGTATCCAGGAGGGAGCTTGAT AATCAGCTGCCAGAGCCTCTCCCGAGGCCGGCTCCCAAGGAAGAGGACCAGAGCTTGGTG AGGAGGAACAAGAGAATGCTGGGGAAGCTTCTTGTTGGCACGCTAGAGAAATTTCAGCAA GAGAACAAAAAACTTTCCAACTCAGAGGCTTTTATGCGTAGATCAGAGGCTCAGCAGAAG GCTGATCAAAAGGCTCGTGAGGACAGTGAAAGATTGCGGCAGCAAGTGCGGGAGCAAGCA GCTGAGAAGCGTAGGCGTGATATGACGCTTCGTGCTCGAGTAGCTGCTAAGTCAGAAGAA AAGAGGTTGGAGCTATTGTACATTCAGTGGTCTGAGCATCACAAAAAGCTGTCCAGTTTC TTAAGGACAAAAGCTGAACCAGCTATTTATTACATGCCGGCTAAACCAATAGTTGATGAT CCGCTTATTGTTGAGCAAAACAAGGAAAAGGCATTTGAAGAATGGAAATCTGTGCGCAGA ACGGAGCTCACACAGTTTCAAAAGCAAGTTGAGGAGCAGTATCTGTCTAACGTTGAGAGG CAGCTGGAAAGAATTCAGAATGCCCGGAATGCTCGGAGGGGGAACGTGCCTGCTAACATG CAGGAAATGGACAAGGAGCTGGACACACACAGGGCGGAGCATGGCCCCAAGGCTCGGCGG ATCCCCGACGGTGGCAACGACGAGGATGATGATGTGGACGTGGACGACATGGCCGCGGAG GACGACCTGATGGATGAAGTGCTTGGCGTTAATGAGGCGATCAACGAGGACCCGACCAAG CCATCTGAAGAGGCTACCGATGTTGCCCCTGTACCCGAGGAGGCACAGTAGGCAAAGTTA TTTGCAAGCACGGGAAATCGAAGGTACTCTAGACTCTAAGTGCAGCCCATTGAAGACGAC AACTCAAGCTTTGTTCAACCGATATGTGATGCCTGAGTTGGAACAATCGGCGTTCCTTTC TTGATACTTATGTAATAAGTTACTTTAATAAAGACGGTTTTGTGCATTGATCGATGGAAA GGCCAGAGGTACTCCCTCATTTTCAGGAAAAAATGTGTTCAAGTGAAAAGTGGATTCAAA CAAGATGGATTTTGGTGTAGACATCACCATATAACACTTAAGCTCGAGGTCATATATCTT CTGTTATGTATATTCAAGGAGCATTCATGACTTTACAAACAAGAACTAGGTAGTGTAAAG GAAGA
Protein Sequence (434 aa)
>BART1_0-u26508.005 434 150831_barley_pseudomolecules MAAAAEKTAEEIRRELQELQRQHREISERLRDPRGLRRGAPAAGLGPGPGGPRPLRGFAR PVRASRFASPSRPCLCFPCVIFSPRVFLMQAPEPADQPEPKRRLLSAVVKVDGSGTNEDD AEGRGDEPTAAQGGERRGASNGGFRRDGSQWVSRRELDNQLPEPLPRPAPKEEDQSLVRR NKRMLGKLLVGTLEKFQQENKKLSNSEAFMRRSEAQQKADQKAREDSERLRQQVREQAAE KRRRDMTLRARVAAKSEEKRLELLYIQWSEHHKKLSSFLRTKAEPAIYYMPAKPIVDDPL IVEQNKEKAFEEWKSVRRTELTQFQKQVEEQYLSNVERQLERIQNARNARRGNVPANMQE MDKELDTHRAEHGPKARRIPDGGNDEDDDVDVDDMAAEDDLMDEVLGVNEAINEDPTKPS EEATDVAPVPEEAQ