- Transcript BART1_0-u26508.008
- Transcript IDBART1_0-u26508.008
- Gene IDBART1_0-u26508
Barley RTD
Exon Structure of BART1_0-u26508.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 14992074 | 14991287 | - |
| 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 | 14996852 | 14996718 | - |
| chr4H | 9 | 14997015 | 14996956 | - |
| chr4H | 10 | 14997210 | 14997103 | - |
| chr4H | 11 | 14997592 | 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 | 2.66839 | 1.14515 | 3.9383 |
| morex | ETI | 14.5552 | 11.8068 | 20.7261 |
| morex | LEA | 6.51962 | 0.819222 | 2.80751 |
| morex | EPI | 5.6331 | 9.44859 | 7.41979 |
| morex | ROO | 4.32454 | 2.4552 | 1.8172 |
| morex | ROO2 | 9.58083 | 5.15337 | 5.18944 |
| morex | NOD | 4.20606 | 9.87287 | 8.05364 |
| morex | RAC | 13.6659 | 15.7283 | 13.3477 |
| morex | INF1 | 7.48776 | 1.87452 | 10.502 |
| morex | INF2 | 17.3489 | 18.1699 | 10.918 |
| morex | CAR5 | 11.506 | 12.3987 | 8.72963 |
| morex | CAR15 | 3.44389 | 2.15451 | 4.45336 |
| morex | LEM | 15.6007 | 12.4264 | 12.9305 |
| morex | LOD | 13.1412 | 18.7838 | 15.4869 |
| morex | PAL | 12.6925 | 11.7413 | 11.6225 |
| morex | SEN | 16.4443 | 11.5552 | 9.86971 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g49520.1 | +3 | 2e-152 | 446 | 259/369 (70%) | protein|pinin/SDK/memA protein, putative, expressed |
| TAIR PP10 | AT1G15200 @ ARAPORT AT1G15200.2 @ TAIR |
+3 | 3e-83 | 268 | 164/322 (51%) | Symbols: | protein-protein interaction regulator family protein | chr1:5228477-5231017 REVERSE LENGTH=428 |
| BRACH PP3 | Bradi1g10810.1.p | +3 | 2e-178 | 512 | 290/371 (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 (1891 bp)
>BART1_0-u26508.008 1891 150831_barley_pseudomolecules AACCGACCTGGCTGGTCAAGCGACCACGGCCCAACCGCAACGGAGACGGCACTCCCCAAG ATCCAACGGCCGAGATCGCTCCCAGCCAGGCACCACATCACTCTCCTAGGCATCCAAACC CTCCCGAACGCATCCACCCCCACCCTCCCTCGCGCAGCCAAACCCTCCCTCCCCCCCTCT CTCCATCGCCGACGACGATGGCCGCCGCGGCGGAGAAGACGGCCGAGGAGATCCGCCGCG AGCTCCAAGAGCTCCAGCGCCAGCACCGCGAGATCAGCGAGCGCCTGCGCGACCCCCGAG GCCTTCGACGCGGCGCTCCCGCCGCCGGCCTCGGCCCGGGCCCCGGAGGCCCCCGCCCGC TCCGCGGCTTCGCCAGACCCGCCCCGGAGCCGGCGGACCAGCCCGAGCCCAAGCGCCGGC TTCTGTCTGCCGTGGTTAAAGTGGATGGCTCTGGAACTAATGAGGATGACGCAGAGGGGC GAGGGGATGAGCCAACTGCCGCTCAAGGTGGCGAGAGGAGGGGAGCCAGTAATGGTGGGT TCAGGAGGGATGGAAGCCAGTGGGTATCCAGGAGGGAGCTTGATAATCAGCTGCCAGAGC CTCTCCCGAGGCCGGCTCCCAAGGAAGAGGACCAGAGCTTGGTGAGGAGGAACAAGAGAA TGCTGGGGAAGCTTCTTGTTGGCACGCTAGAGAAATTTCAGCAAGAGAACAAAAAACTTT CCAACTCAGAGGCTTTTATGCGTAGATCAGAGGCTCAGCAGAAGGCTGATCAAAAGGCTC GTGAGGACAGTGAAAGATTGCGGCAGCAAGTGCGGGAGCAAGCAGCTGAGAAGCGTAGGC GTGATATGACGCTTCGTGCTCGAGTAGCTGCTAAGTCAGAAGAAAAGAGGTTGGAGCTAT TGTACATTCAGTGGTCTGAGCATCACAAAAAGCTGTCCAGTTTCTTAAGGTTATTTTTAT TCCTGGTCCAAAAGTATCCATATTGACAATTAAATTGAGGGAAGATGCGTTTCTGATTGA CAAAAGCTGAACCAGCTATTTATTACATGCCGGCTAAACCAATAGTTGATGATCCGCTTA TTGTTGAGCAAAACAAGGAAAAGGCATTTGAAGAATGGAAATCTGTGCGCAGAACGGAGC TCACACAGTTTCAAAAGCAAGTTGAGGAGCAGTATCTGTCTAACGTTGAGAGGCAGCTGG AAAGAATTCAGAATGCCCGGAATGCTCGGAGGGGGAACGTGCCTGCTAACATGCAGGAAA TGGACAAGGAGCTGGACACACACAGGGCGGAGCATGGCCCCAAGGCTCGGCGGATCCCCG ACGGTGGCAACGACGAGGATGATGATGTGGACGTGGACGACATGGCCGCGGAGGACGACC TGATGGATGAAGTGCTTGGCGTTAATGAGGCGATCAACGAGGACCCGACCAAGCCATCTG AAGAGGCTACCGATGTTGCCCCTGTACCCGAGGAGGCACAGTAGGCAAAGTTATTTGCAA GGTAGGCACTTACGCATTATGATTCTATATCGTTGTAGTTGCCCTCTTCTGTTGTGACTG TATTGTTGTTGGGTTTTTGTCTTTGGGAATGTTGTGAGCTGTGTTTGCTGTTGAGGCCAT ATCCATACTTTTCATTATTGTTATTGTCATTCGTACGTACTCTGCGTCTGCTCTTTTACG ATCAAGTGTCAACCTGCGAAAACAATCATCATGCGATCAACCTGTTCTTCACCTGCGCCG TTAGCGTACAGGTGTTGCGGTACTGTTGATGACCTCTATCACTGTACGTTCAAGTTGTAT GCTTTGGCAAAACCAGTTTAATCGTGCCAATAGTTCTATTTCCTTCTAGCACTGTATTTT CCTTGCTAGTTTATCTGAAAATTCTAATGAG
Protein Sequence (327 aa)
>BART1_0-u26508.008 327 150831_barley_pseudomolecules PTWLVKRPRPNRNGDGTPQDPTAEIAPSQAPHHSPRHPNPPERIHPHPPSRSQTLPPPLS PSPTTMAAAAEKTAEEIRRELQELQRQHREISERLRDPRGLRRGAPAAGLGPGPGGPRPL RGFARPAPEPADQPEPKRRLLSAVVKVDGSGTNEDDAEGRGDEPTAAQGGERRGASNGGF RRDGSQWVSRRELDNQLPEPLPRPAPKEEDQSLVRRNKRMLGKLLVGTLEKFQQENKKLS NSEAFMRRSEAQQKADQKAREDSERLRQQVREQAAEKRRRDMTLRARVAAKSEEKRLELL YIQWSEHHKKLSSFLRLFLFLVQKYPY