- Transcript BART1_0-u12609.007
- Transcript IDBART1_0-u12609.007
- Gene IDBART1_0-u12609
Barley RTD
Exon Structure of BART1_0-u12609.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 560839280 | 560838377 | - |
| chr2H | 2 | 560839592 | 560839583 | - |
| chr2H | 3 | 560840111 | 560839880 | - |
| chr2H | 4 | 560841176 | 560840973 | - |
| chr2H | 5 | 560841423 | 560841263 | - |
| chr2H | 6 | 560842052 | 560841505 | - |
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 | 33.5479 | 28.2897 | 16.9044 |
| morex | ETI | 0.942005 | 6.57309 | 0.0000794383 |
| morex | LEA | 36.8162 | 46.0283 | 12.9065 |
| morex | EPI | 6.79509 | 6.12109 | 7.44421 |
| morex | ROO | 12.9933 | 14.6384 | 10.1516 |
| morex | ROO2 | 14.6918 | 9.06009 | 11.0704 |
| morex | NOD | 39.4166 | 26.9027 | 35.5038 |
| morex | RAC | 0.00903335 | 7.04551 | 0.0000210258 |
| morex | INF1 | 20.2886 | 25.4965 | 22.3382 |
| morex | INF2 | 6.54153 | 6.91182 | 0.0000715652 |
| morex | CAR5 | 0 | 0 | 4.84422 |
| morex | CAR15 | 0 | 0.510185 | 2.09361 |
| morex | LEM | 0 | 1.78625 | 0.738515 |
| morex | LOD | 0 | 0.000123356 | 0.0000911576 |
| morex | PAL | 1.27521 | 0 | 0.153409 |
| morex | SEN | 15.1942 | 6.98376 | 14.1731 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os04g36660.1 | +2 | 0.0 | 604 | 314/357 (88%) | protein|calmodulin binding protein, putative, expressed |
| TAIR PP10 | AT4G25800 @ ARAPORT AT4G25800.2 @ TAIR |
+2 | 6e-158 | 469 | 225/306 (74%) | Symbols: | Calmodulin-binding protein | chr4:13125224-13127765 FORWARD LENGTH=601 |
| BRACH PP3 | Bradi3g46060.1.p | +2 | 0.0 | 561 | 295/378 (78%) | pacid=32814592 transcript=Bradi3g46060.1 locus=Bradi3g46060 ID=Bradi3g46060.1.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 (2059 bp)
>BART1_0-u12609.007 2059 150831_barley_pseudomolecules ATTTCTGTAGTGGTATTTGGATCTGTTACTTAAGTCAAGCTTCATGTTAAACAGGACCTC TCCCAAAAGAATTGAGGGCCCCAATGGTAGTAACCTCCAGCTTCAGTTTCGGAGTAGGTT AGCACTCCCACTCTTTACTGGAGGAAAAGTGGAAGGCGAGCAGGGAGCATCAATACATGT TGTGCTGTTAGATGCAAACACTGGACATGTCGTCACTTCAGGACCCCAGTCATCTGCGAA ACTGGATGTTCTTGTTCTCGAGGGTGATTTTAATAAAGAGAAGGACGAGGATTGGACTGA AGAAGAATTTGAGAGCCACATTGTGAAAGAACGTGAAGGGAAGAGGCCTCTTTTAAACGG TGATATCCATGTGACACTTAAAGAAGGCGTAGGGACCATAGGAGAGCTTATCTTCACTGA CAATTCCAGCTGGATAAGGAGCAGAAAATTCAGACTTGGGATGAGAGTCTCTTCAGGATT TTGTGACGGAGTTCGTATCAAAGAGGCGAAGACAGAGGCTTTTACTGTGAAAGATCACAG AGGAGAATTGTACAAGAAACATTACCCTCCTGCGCTTAAGGATGATGTTTGGAGACTGGA AAAGATTGGAAAGGACGGTGCATTCCACGGGAAACTAAACTCAAACGGAATCTATACAGT TGAACATTTTCTTCAACTTCTTGTTAAAGATCAACAGAAGTTAAGAAGTATCCTTGGTAC TGGCATGTCAAATAAGATGTGGGAAAGTCTTGTTGAACATGCAAAAACTTGTGTTCTGAG TGGCAAACATTATATATATTACTCGAAGGATACAGCAAGTGTTGGTGCAATATTCAATAA CATATATGAGTTCACTGGTTTGATTGCTGATGATCAGTTTATTTCAACGGAAAATCTTAC TGAAAACCAGAGGGTGTTTGCGGATACGTTGGTGAAGCAAGCATACGATGATTGGATCAA TGTTGTAGAATATGATGGCAAGGGATTGTTGAAATTTAAGCAGAAAAAGAAATCTGTCAC AACAAGAAGTGATGTTGCAAATGTCTCTACAAGCTACACTTCTTATGATTCAGCGCACTC TCAGAAACAATTGGCACGAGGACATGCCAATATTGAGCGATCTCTCATGAGCAGTACGAC TAAAGGGTCTAAAGACAGACGAGACAAGAATTGCATCCAACGGGAATCAAGTAGCAATAT ATGAAGCCAATCCTCAGGACATTTCACCAAGTATTACCATGCAATATGGCATGAGTTCAT TGATCCCTGAAGGCCAGTTCAATGGCTCTTCCATCCAAACTCAAGCATCAAGAAGCTCCA ACATGCTAGCATTTGGACCTCCACCACAGCAGCCGCATAACTTCGAATTCTCAGCATTTG GTCTGTCCATGCAATCCCCAGCTCCTAATCCTTTTGATGACTGGCCTGGACGGTTGCAGG AGAACCGCGGTGGTGTTGATGACTGTCTGATGGAGGAGATAAGAGGGAGAAGCCATGACA TGCTGGAGAATGAAGAAGAGATGCAACATATGCTGCGCATTCTTAGCGGCGGGGCAGCAG CAAACATGAATAATGTAGGTGGCTTTCCCTCCTACCCTTCTCCTGTACCGGACTTCAACT TCGTGGATGATCGTGCTCCCTCATCCGGTAAGGCTGTTGTTGGGTGGCTTAAGATTAAGG CTGCCATGCGGTGGGGCATCTTCGTCAGGAAGAAAGCAGCTGAGAGAAGAGCTCAGCTTG TTGAGCTGGATGACTAGGGGATACGGATGTTGGTAAGACACTTGTTTTTCTCGTCTTGTA TAATTGCTTTGTTGACGCAATTATAGTCAGGATCTCAAGCTCCAAAAGTATGAATGGACT CACGTTGGTTGTATAGGTAGCTGTTTGATGGTCATTATCTAAGTTTTGTTGGTGTTCAGA AAAACAAAACTGCTACAACATTGGCCTCTACTGTGCAAACTTATTTGTTGGAGATTGGAC ACTTGAAACAGGCTTTTTTTATGGGAACTAGCAGGTGATCTGCTTTTGCATTAAATGGGC AAATGAGTTACTCCCTCCA
Protein Sequence (386 aa)
>BART1_0-u12609.007 386 150831_barley_pseudomolecules MLNRTSPKRIEGPNGSNLQLQFRSRLALPLFTGGKVEGEQGASIHVVLLDANTGHVVTSG PQSSAKLDVLVLEGDFNKEKDEDWTEEEFESHIVKEREGKRPLLNGDIHVTLKEGVGTIG ELIFTDNSSWIRSRKFRLGMRVSSGFCDGVRIKEAKTEAFTVKDHRGELYKKHYPPALKD DVWRLEKIGKDGAFHGKLNSNGIYTVEHFLQLLVKDQQKLRSILGTGMSNKMWESLVEHA KTCVLSGKHYIYYSKDTASVGAIFNNIYEFTGLIADDQFISTENLTENQRVFADTLVKQA YDDWINVVEYDGKGLLKFKQKKKSVTTRSDVANVSTSYTSYDSAHSQKQLARGHANIERS LMSSTTKGSKDRRDKNCIQRESSSNI