- Transcript BART1_0-u26508.006
- Transcript IDBART1_0-u26508.006
- Gene IDBART1_0-u26508
Barley RTD
Exon Structure of BART1_0-u26508.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 14990298 | 14989943 | - |
| 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 | 14997015 | 14996956 | - |
| chr4H | 10 | 14997460 | 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 | 0 | 7.39556 | 0.525627 |
| morex | ETI | 12.1667 | 9.6633 | 7.93484 |
| morex | LEA | 4.55113 | 11.5131 | 8.97439 |
| morex | EPI | 11.9701 | 14.3669 | 16.3634 |
| morex | ROO | 2.27652 | 7.75866 | 0 |
| morex | ROO2 | 0.647284 | 1.09876 | 0.581957 |
| morex | NOD | 1.94374 | 5.24186 | 5.44715 |
| morex | RAC | 9.3931 | 8.55582 | 9.25679 |
| morex | INF1 | 6.76511 | 10.2223 | 3.92667 |
| morex | INF2 | 25.8195 | 30.204 | 27.1951 |
| morex | CAR5 | 12.3367 | 12.0633 | 13.2299 |
| morex | CAR15 | 7.98986 | 5.38056 | 2.94969 |
| morex | LEM | 9.51495 | 14.337 | 10.4729 |
| morex | LOD | 16.1475 | 9.66196 | 6.10729 |
| morex | PAL | 3.53792 | 11.2256 | 14.076 |
| morex | SEN | 0.0000451576 | 6.71954 | 7.52602 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g49520.2 | +2 | 1e-82 | 262 | 153/203 (75%) | protein|pinin/SDK/memA protein, putative, expressed |
| TAIR PP10 | AT1G15200 @ ARAPORT AT1G15200.4 @ TAIR |
+2 | 6e-85 | 273 | 168/354 (47%) | Symbols: | protein-protein interaction regulator family protein | chr1:5228477-5231017 REVERSE LENGTH=442 |
| BRACH PP3 | Bradi1g10810.1.p | +2 | 5e-133 | 397 | 253/403 (63%) | 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 (1931 bp)
>BART1_0-u26508.006 1931 150831_barley_pseudomolecules TCCACCCCCACCCTCCCTCGCGCAGCCAAACCCTCCCTCCCCCCCTCTCTCCATCGCCGA CGACGATGGCCGCCGCGGCGGAGAAGACGGCCGAGGAGATCCGCCGCGAGCTCCAAGAGC TCCAGCGCCAGCACCGCGAGGTCCCTCTCCCCCTCCCCCGCCCCCTACCCTCCCACGGCC CTTCCGTGACCGTCGACCCGTCTCCCCTGACCCGTTTGTTCGTCCTCGTGTCCTCCTCCC CCCATCGCAGATCAGCGAGCGCCTGCGCGACCCCCGAGGCCTTCGACGCGGCGCTCCCGC CGCCGGCCTCGGCCCGGGCCCCGGAGGCCCCCGCCCGCTCCGCGGCTTCGCCAGACCCGC CCCGGAGCCGGCGGACCAGCCCGAGCCCAAGCGCCGGCTTCTGTCTGCCGTGGTTAAAGT GGATGGCTCTGGAACTAATGAGGATGACGCAGAGGGGCGAGGGGATGAGCCAACTGCCGC TCAAGGTGGCGAGAGGAGGGGAGCCAGTAATGGTGGGTTCAGGAGGGATGGAAGCCAGTG GGTATCCAGGAGGGAGCTTGATAATCAGCTGCCAGAGCCTCTCCCGAGGCCGGCTCCCAA GGAAGAGGACCAGAGCTTGGTGAGGAGGAACAAGAGAATGCTGGGGAAGCTTCTTGTTGG CACGCTAGAGAAATTTCAGCAAGAGAACAAAAAACTTTCCAACTCAGAGGCTTTTATGCG TAGATCAGAGGCTCAGCAGAAGGCTGATCAAAAGGCTCGTGAGGACAGTGAAAGATTGCG GCAGCAAGTGCGGGAGCAAGCAGCTGAGAAGCGTAGGCGTGATATGACGCTTCGTGCTCG AGTAGCTGCTAAGTCAGAAGAAAAGAGGTTGGAGCTATTGTACATTCAGTGGTCTGAGCA TCACAAAAAGCTGTCCAGTTTCTTAAGGTTATTTTTATTCCTGGTCCAAAAGTATCCATA TTGACAATTAAATTGAGGGAAGATGCGTTTCTGATTGTACGCAAATCTTGATGTTTGATG TCTATAGGGGTTTCCATATCCACTCATTATACTATATGTTTGTTCCTTGTTTGATTCCAT TTGTATTTTCAGGACAAAAGCTGAACCAGCTATTTATTACATGCCGGCTAAACCAATAGT TGATGATCCGCTTATTGTTGAGCAAAACAAGGAAAAGGCATTTGAAGAATGGAAATCTGT GCGCAGAACGGAGCTCACACAGTTTCAAAAGCAAGTTGAGGAGCAGTATCTGTCTAACGT TGAGAGGCAGCTGGAAAGAATTCAGAATGCCCGGAATGCTCGGAGGGGGAACGTGCCTGC TAACATGCAGGAAATGGACAAGGAGCTGGACACACACAGGGCGGAGCATGGCCCCAAGGC TCGGCGGATCCCCGACGGTGGCAACGACGAGGATGATGATGTGGACGTGGACGACATGGC CGCGGAGGACGACCTGATGGATGAAGTGCTTGGCGTTAATGAGGCGATCAACGAGGACCC GACCAAGCCATCTGAAGAGGCTACCGATGTTGCCCCTGTACCCGAGGAGGCACAGTAGGC AAAGTTATTTGCAAGCACGGGAAATCGAAGGTACTCTAGACTCTAAGTGCAGCCCATTGA AGACGACAACTCAAGCTTTGTTCAACCGATATGTGATGCCTGAGTTGGAACAATCGGCGT TCCTTTCTTGATACTTATGTAATAAGTTACTTTAATAAAGACGGTTTTGTGCATTGATCG ATGGAAAGGCCAGAGGTACTCCCTCATTTTCAGGAAAAAATGTGTTCAAGTGAAAAGTGG ATTCAAACAAGATGGATTTTGGTGTAGACATCACCATATAACACTTAAGCTCGAGGTCAT ATATCTTCTGTTATGTATATTCAAGGAGCATTCATGACTTTACAAACAAGAACTAGGTAG TGTAAAGGAAG
Protein Sequence (320 aa)
>BART1_0-u26508.006 320 150831_barley_pseudomolecules PPPPSLAQPNPPSPPLSIADDDGRRGGEDGRGDPPRAPRAPAPAPRGPSPPPPPPTLPRP FRDRRPVSPDPFVRPRVLLPPSQISERLRDPRGLRRGAPAAGLGPGPGGPRPLRGFARPA PEPADQPEPKRRLLSAVVKVDGSGTNEDDAEGRGDEPTAAQGGERRGASNGGFRRDGSQW VSRRELDNQLPEPLPRPAPKEEDQSLVRRNKRMLGKLLVGTLEKFQQENKKLSNSEAFMR RSEAQQKADQKAREDSERLRQQVREQAAEKRRRDMTLRARVAAKSEEKRLELLYIQWSEH HKKLSSFLRLFLFLVQKYPY