- Transcript BART1_0-u20988.008
- Transcript IDBART1_0-u20988.008
- Gene IDBART1_0-u20988
Barley RTD
Exon Structure of BART1_0-u20988.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 413471662 | 413469331 | - |
| chr3H | 2 | 413471866 | 413471809 | - |
| chr3H | 3 | 413472753 | 413472688 | - |
| chr3H | 4 | 413474610 | 413474390 | - |
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 | 37.0006 | 19.0521 | 24.167 |
| morex | ETI | 8.61274 | 15.6683 | 16.6429 |
| morex | LEA | 9.58006 | 10.5305 | 32.1529 |
| morex | EPI | 13.0744 | 35.0916 | 13.9275 |
| morex | ROO | 10.9508 | 8.79597 | 4.31636 |
| morex | ROO2 | 27.2564 | 27.7563 | 26.3238 |
| morex | NOD | 17.0693 | 19.0881 | 35.9365 |
| morex | RAC | 48.9273 | 46.1254 | 34.923 |
| morex | INF1 | 16.5045 | 12.372 | 21.2003 |
| morex | INF2 | 19.079 | 17.409 | 8.38494 |
| morex | CAR5 | 20.6412 | 21.3052 | 18.879 |
| morex | CAR15 | 5.28215 | 4.76855 | 3.97702 |
| morex | LEM | 32.6105 | 30.5938 | 18.1629 |
| morex | LOD | 32.1707 | 26.379 | 38.2022 |
| morex | PAL | 16.3651 | 14.0327 | 15.8272 |
| morex | SEN | 22.8829 | 15.5648 | 20.1105 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g43372.1 | +3 | 0.0 | 823 | 489/648 (75%) | protein|expressed protein |
| TAIR PP10 | AT1G64140 @ ARAPORT AT1G64140.1 @ TAIR |
+3 | 9e-172 | 513 | 302/545 (55%) | Symbols: | BEST Arabidopsis thaliana protein match is: loricrin-related (TAIR:AT5G64550.1); Has 3596 Blast hits to 2004 proteins in 150 species: Archae - 0; Bacteria - 54; Metazoa - 1597; Fungi - 38; Plants - 513; Viruses - 9; Other Eukaryotes - 1385 (source: NCBI BLink). | chr1:23804069-23806009 REVERSE LENGTH=646 |
| BRACH PP3 | Bradi2g43880.2.p | +3 | 0.0 | 982 | 543/635 (86%) | pacid=32778732 transcript=Bradi2g43880.2 locus=Bradi2g43880 ID=Bradi2g43880.2.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 (2677 bp)
>BART1_0-u20988.008 2677 150831_barley_pseudomolecules GCTCCCCCTGCGCGCCTGCGTCCTCGGTTTTTCTCCGCTGAGCTTTCCTTCAACCCCGCT CAGCTCCCTCCCTTCCTACAAATCTGGTCTGGTGGGCGCTGTTCGCCGCGGCGGGTCTCT CGCGCCCGCGCTCCCGCAACAACCTCAAAACCCTAGCCATCCTCGCGACCCAGTCGATTG GATCGACCGCTTCCTCCTCCTCCGCCCAGACCCAGACCCAGGGACCGCTGATTTCACTCC TGTGTGTTTTCAACTCACTTGGGATCCGCGAGAGTGCTGCTATACTGCAGGATCATCGCT TTCTGTTTGGCCTGAGCTGTGGAAGTTTCTAAGTAGAAACTGAGGGAAGTCAGTCAACTG GCGGTTCTTTTCATTTACTAATTGGTTGATGTTTCCGAATTGGAATGGACAAAACTTCTC ATGGCCTTGGATTTGGTGATAGCATCAACTCGTTAAACACTTCTCATTACCGGAGTTCAG TCCAACACACTGCTCAGCATAGAGACACTACACTTGATTCCACATCATATTCCAGCTTCT CATCCACCAACACAAAAGCCCTGAAAAGGAAGTGGGGTACTATGGCTGGAGCAGAAGGTA CTGGGGATGCATTACTCACTCTGGGTTTAGGCCGTTCACCAAGTTCATCTGACAATAGCA AAGTAAGCTCTGCCACAGCCTGTGCAATGTCTCCATGCTCGCTAAAGGAGGCTGATGAGG AGTCATCTGTTGATCTTAGCTTGAATTTTGAGCTTTCCCTTGGCAATGATGTTGCACGTT TTCAAAGGAAATCCTCTGCTGGTTTAGTAGCCAATTCTCCTAAACTGGATCTTCAGTTGA GTTTATCCACTGGCTCACCTGAATCTGCTGTCACTTGTACAAATATGGTGTCACCAAATA TTCATGATGGCTTGGACATACCAGTGACCTATTCATTACCAGCCATTATAGGGAATGGGT CAGCACCGTCTAGTTGGGGTTTTGAGCACTCTGTGGTTTCATCATCATATGCGTCTGAAG CAACATATGCATTTCCATTTTCGAAGATACCCAGACAAGAGAATGGTACTTTGTCTTCAC CAGTCATATCGTCAACTATGCCAGCAAGTGTGAAGAGCTCAGTTGCCTGTACTTCGGTGG TAACTAACCCTCAGCAGCGCAATCTTAACACTAAAACCTGCCAGTTCCCTGGATGTGGCA AAGGGGCAAGAGGTGCATCAGGGCATTGTATAGCCCATGGTGGTGGTAGGCGATGCCAGA AAGCTGGTTGCCAGAAGGGTGCTGAAGGAAGGACCATATATTGCAAGGCCCATGGTGGAG GGAGGAGATGTGAGTTTCTTGGATGTACAAAGAGCGCTGAAGGACGCACCGACCACTGCA TTGCCCATGGTGGTGGCCGCCGGTGCAGTAATGATGGCTGCTCCCGTGCTGCCCGAGGAA GATCTGGCTTATGCATCAGGCATGGTGGTGGAAAAAGGTGTCAGCAGGAGAAGTGCACCA AGAGCGCAGAAGGTCATTCTGGCCTCTGCATCTCTCATGGGGGTGGGAGGCGCTGCCAGT TTCCAGAATGTGCAAAGGGTGCACAGGGAAGCACAAAGTTCTGCAAGGCACATGGTGGAG GCAAGCGCTGCACTTTCTTGGGCTGTACCAAAGGAGCTGAAGGCAGCACCCCTTACTGCA AGGGCCATGGAGGAGGCAAGCGCTGCTTATTTGAGGGTGGTGGAGTGTGCCCCAAGAGCG TGCATGGCGGGACGCAGTACTGTGTTGCGCACGGTGGTGGCAAGAGGTGCGCTATTTCTG ATTGCACCAAGAGTGCTAGAGGGCGGACGGAGTACTGCGTGCGCCATGGTGGTGGCAAGA GATGCAGGTTCGACGGCTGTGTGAAGAGTGCACAGGGGAGCACTGATTTCTGCAAGGCGC ATGGGGGAGGCAAACGCTGCTCATGGGGCCTGCCGGGCTCAAGCTTCGGTATTGGCACTG AGCAGTGTGATAAGTTTGCTCGCAGCAAGACTGGCCTCTGTTCAGCTCACACCGCTCTAG TCCAGGACCACTGTGTTCATGGTGGTGGTACATTAGGCCCTGTAATCCACCACTTCGCCG CAGATGTTAAACCCGGCGAGATGGAAGTTGCTGCAGCAGTGAAGGTTGATCCTGTTTCGA TGCAGTCGGGGTCTCCATTGCCGGAGCCGGAGGGCAGGGTGCATGGTGGTGGGCTGCTGG CGCTGCTTTCTCGCGGCGGCAACCACACAGGCCCTGTTGGTAACTCCGATAACGGCGCTT CTGTCATGATGGCGTGGATGTGAGCGGGCGGGCATTCTCATCAAGAATTGGTTGCTTCAA GTTTTGATCTGTTTCCAGAGCTAATGCTGTGGCGGGATAAAGTTCCACATTTCACCAATT GTTGTCCTAGTCGTTTGGAACTGGTAGGACATATATCCTCCGTGTAGAATAAATAAGGGA GAGCGTTGTGGGCTTCTCTGTTATTGTAATGTAATTAATTAATTAATGTCGTCAAACTGC CCTTGCTTTGTGTTTATTACAATTTGTGTAATCTGATACTACTTCACAGTTCCTACTTGG ATACAATGTCTTCGCAGTTTGCTTTGCTTTGTGTTTCTGGTAACACTGTAGTATGTGCTT TGTGTTTCTGGTAAAGTGGTAATACTGTAGTCTGTAG
Protein Sequence (632 aa)
>BART1_0-u20988.008 632 150831_barley_pseudomolecules MDKTSHGLGFGDSINSLNTSHYRSSVQHTAQHRDTTLDSTSYSSFSSTNTKALKRKWGTM AGAEGTGDALLTLGLGRSPSSSDNSKVSSATACAMSPCSLKEADEESSVDLSLNFELSLG NDVARFQRKSSAGLVANSPKLDLQLSLSTGSPESAVTCTNMVSPNIHDGLDIPVTYSLPA IIGNGSAPSSWGFEHSVVSSSYASEATYAFPFSKIPRQENGTLSSPVISSTMPASVKSSV ACTSVVTNPQQRNLNTKTCQFPGCGKGARGASGHCIAHGGGRRCQKAGCQKGAEGRTIYC KAHGGGRRCEFLGCTKSAEGRTDHCIAHGGGRRCSNDGCSRAARGRSGLCIRHGGGKRCQ QEKCTKSAEGHSGLCISHGGGRRCQFPECAKGAQGSTKFCKAHGGGKRCTFLGCTKGAEG STPYCKGHGGGKRCLFEGGGVCPKSVHGGTQYCVAHGGGKRCAISDCTKSARGRTEYCVR HGGGKRCRFDGCVKSAQGSTDFCKAHGGGKRCSWGLPGSSFGIGTEQCDKFARSKTGLCS AHTALVQDHCVHGGGTLGPVIHHFAADVKPGEMEVAAAVKVDPVSMQSGSPLPEPEGRVH GGGLLALLSRGGNHTGPVGNSDNGASVMMAWM