- Transcript BART1_0-u26508.001
- Transcript IDBART1_0-u26508.001
- Gene IDBART1_0-u26508
Barley RTD
Exon Structure of BART1_0-u26508.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 14990298 | 14989860 | - |
| 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 | 14997210 | 14997103 | - |
| chr4H | 11 | 14997614 | 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 | 2.78331 | 7.78343 | 3.35432 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 5.05221 | 4.68167 | 3.28329 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 1.71787 | 4.38159 |
| morex | ROO2 | 0.0116909 | 0.000000000268196 | 1.27382 |
| morex | NOD | 5.57445 | 0 | 0.00542981 |
| morex | RAC | 0 | 0 | 0.000000000562392 |
| morex | INF1 | 24.0754 | 27.9447 | 27.9923 |
| morex | INF2 | 24.4321 | 7.32688 | 22.8194 |
| morex | CAR5 | 13.6691 | 2.51058 | 17.1082 |
| morex | CAR15 | 1.0144 | 3.49216 | 0.000235494 |
| morex | LEM | 0 | 0.00000195952 | 0.00000000068497 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0.00000216484 | 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_Os03g49520.1 | +1 | 4e-162 | 471 | 261/346 (75%) | protein|pinin/SDK/memA protein, putative, expressed |
| TAIR PP10 | AT1G15200 @ ARAPORT AT1G15200.1 @ TAIR |
+1 | 4e-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 (1893 bp)
>BART1_0-u26508.001 1893 150831_barley_pseudomolecules ATCGATCTGACCCGACGGCAACAACCGACCTGGCTGGTCAAGCGACCACGGCCCAACCGC AACGGAGACGGCACTCCCCAAGATCCAACGGCCGAGATCGCTCCCAGCCAGGCACCACAT CACTCTCCTAGGCATCCAAACCCTCCCGAACGCATCCACCCCCACCCTCCCTCGCGCAGC CAAACCCTCCCTCCCCCCCTCTCTCCATCGCCGACGACGATGGCCGCCGCGGCGGAGAAG ACGGCCGAGGAGATCCGCCGCGAGCTCCAAGAGCTCCAGCGCCAGCACCGCGAGATCAGC GAGCGCCTGCGCGACCCCCGAGGCCTTCGACGCGGCGCTCCCGCCGCCGGCCTCGGCCCG GGCCCCGGAGGCCCCCGCCCGCTCCGCGGCTTCGCCAGACCCGCCCCGGAGCCGGCGGAC CAGCCCGAGCCCAAGCGCCGGCTTCTGTCTGCCGTGGTTAAAGTGGATGGCTCTGGAACT AATGAGGATGACGCAGAGGGGCGAGGGGATGAGCCAACTGCCGCTCAAGGTGGCGAGAGG AGGGGAGCCAGTAATGGTGGGTTCAGGAGGGATGGAAGCCAGTGGGTATCCAGGAGGGAG CTTGATAATCAGCTGCCAGAGCCTCTCCCGAGGCCGGCTCCCAAGGAAGAGGACCAGAGC TTGGTGAGGAGGAACAAGAGAATGCTGGGGAAGCTTCTTGTTGGCACGCTAGAGAAATTT CAGCAAGAGAACAAAAAACTTTCCAACTCAGAGGCTTTTATGCGTAGATCAGAGGCTCAG CAGAAGGCTGATCAAAAGGCTCGTGAGGACAGTGAAAGATTGCGGCAGCAAGTGCGGGAG CAAGCAGCTGAGAAGCGTAGGCGTGATATGACGCTTCGTGCTCGAGTAGCTGCTAAGTCA GAAGAAAAGAGGTTGGAGCTATTGTACATTCAGTGGTCTGAGCATCACAAAAAGCTGTCC AGTTTCTTAAGGACAAAAGCTGAACCAGCTATTTATTACATGCCGGCTAAACCAATAGTT GATGATCCGCTTATTGTTGAGCAAAACAAGGAAAAGGCATTTGAAGAATGGAAATCTGTG CGCAGAACGGAGCTCACACAGTTTCAAAAGCAAGTTGAGGAGCAGTATCTGTCTAACGTT GAGAGGCAGCTGGAAAGAATTCAGAATGCCCGGAATGCTCGGAGGGGGAACGTGCCTGCT AACATGCAGGAAATGGACAAGGAGCTGGACACACACAGGGCGGAGCATGGCCCCAAGGCT CGGCGGATCCCCGACGGTGGCAACGACGAGGATGATGATGTGGACGTGGACGACATGGCC GCGGAGGACGACCTGATGGATGAAGTGCTTGGCGTTAATGAGGCGATCAACGAGGACCCG ACCAAGCCATCTGAAGAGGCTACCGATGTTGCCCCTGTACCCGAGGAGGCACAGTAGGCA AAGTTATTTGCAAGCACGGGAAATCGAAGGTACTCTAGACTCTAAGTGCAGCCCATTGAA GACGACAACTCAAGCTTTGTTCAACCGATATGTGATGCCTGAGTTGGAACAATCGGCGTT CCTTTCTTGATACTTATGTAATAAGTTACTTTAATAAAGACGGTTTTGTGCATTGATCGA TGGAAAGGCCAGAGGTACTCCCTCATTTTCAGGAAAAAATGTGTTCAAGTGAAAAGTGGA TTCAAACAAGATGGATTTTGGTGTAGACATCACCATATAACACTTAAGCTCGAGGTCATA TATCTTCTGTTATGTATATTCAAGGAGCATTCATGACTTTACAAACAAGAACTAGGTAGT GTAAAGGAAGATACATACATGAATATAAAATACATATATTTATGCAATATTTGTAGAGAT ATAGGTGGCAATGTATATCTCCTACTCGGTGGG
Protein Sequence (478 aa)
>BART1_0-u26508.001 478 150831_barley_pseudomolecules IDLTRRQQPTWLVKRPRPNRNGDGTPQDPTAEIAPSQAPHHSPRHPNPPERIHPHPPSRS QTLPPPLSPSPTTMAAAAEKTAEEIRRELQELQRQHREISERLRDPRGLRRGAPAAGLGP GPGGPRPLRGFARPAPEPADQPEPKRRLLSAVVKVDGSGTNEDDAEGRGDEPTAAQGGER RGASNGGFRRDGSQWVSRRELDNQLPEPLPRPAPKEEDQSLVRRNKRMLGKLLVGTLEKF QQENKKLSNSEAFMRRSEAQQKADQKAREDSERLRQQVREQAAEKRRRDMTLRARVAAKS EEKRLELLYIQWSEHHKKLSSFLRTKAEPAIYYMPAKPIVDDPLIVEQNKEKAFEEWKSV RRTELTQFQKQVEEQYLSNVERQLERIQNARNARRGNVPANMQEMDKELDTHRAEHGPKA RRIPDGGNDEDDDVDVDDMAAEDDLMDEVLGVNEAINEDPTKPSEEATDVAPVPEEAQ