- Transcript BART1_0-u20988.001
- Transcript IDBART1_0-u20988.001
- Gene IDBART1_0-u20988
Barley RTD
Exon Structure of BART1_0-u20988.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 413471863 | 413469036 | - |
| chr3H | 2 | 413472753 | 413472688 | - |
| chr3H | 3 | 413474829 | 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 | 8.53054 | 0.114246 | 13.2722 |
| morex | ETI | 0.556872 | 0.0000000960165 | 0 |
| morex | LEA | 7.14267 | 4.334 | 3.75606 |
| morex | EPI | 0.848824 | 0 | 0 |
| morex | ROO | 0.0226208 | 6.17465 | 0.000111305 |
| morex | ROO2 | 0.000000000863064 | 0.000000000947612 | 0.760282 |
| morex | NOD | 3.45824 | 0 | 0 |
| morex | RAC | 0.0000769866 | 1.28445 | 0.00000000258279 |
| morex | INF1 | 2.37772 | 6.28141 | 0.643974 |
| morex | INF2 | 1.63641 | 7.23576 | 2.13324 |
| morex | CAR5 | 10.3539 | 7.97892 | 13.8384 |
| morex | CAR15 | 11.851 | 13.3443 | 6.8282 |
| morex | LEM | 0 | 0.000112699 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 2.00121 |
| morex | SEN | 0.0000000211319 | 0 | 0.889047 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g43372.1 | +2 | 0.0 | 823 | 489/648 (75%) | protein|expressed protein |
| TAIR PP10 | AT1G64140 @ ARAPORT AT1G64140.1 @ TAIR |
+2 | 4e-169 | 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 | +2 | 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 (3334 bp)
>BART1_0-u20988.001 3334 150831_barley_pseudomolecules CTTTCATTCCAGGGGTCAAAATCGTGAAAAAAAAATCCGAGAAGAGAAGCGGTCGTACCT GGACAAGATGCCAAACCAGGTGGAAAGGGGAGGGCACGAGTGCATTGCCTTTTGCCCGCT TTCCAATTTCCCCTCGCCCACAACGGGGTGGCCACAGCGATTTACCTGTGGCGCCCCGAC CCGCCCCACTCCTTCCTCTCTCTCTCTCTCTTTTATAGCGCTCCCCCTGCGCGCCTGCGT CCTCGGTTTTTCTCCGCTGAGCTTTCCTTCAACCCCGCTCAGCTCCCTCCCTTCCTACAA ATCTGGTCTGGTGGGCGCTGTTCGCCGCGGCGGGTCTCTCGCGCCCGCGCTCCCGCAACA ACCTCAAAACCCTAGCCATCCTCGCGACCCAGTCGATTGGATCGACCGCTTCCTCCTCCT CCGCCCAGACCCAGACCCAGGGACCGCTGATTTCACTCCTGTGTGTTTTCAACTCACTTG GGATCCGCGAGAGTGCTGCTATACTGGATCATCGCTTTCTGTTTGGCCTGAGCTGTGGAA GTTTCTAAGTAGAAACTGAGGGTCAGTTCAAAACTTTATCCCACTCACCCCATACATACT GGCGAGAAATGGATCGTGATGATGTATCTGGCTTTGTTAGCGGGGGTTGCAAGCTGTTCT GAGTTTTCTAACCTAGTAGAAGTTAATAAATAAAGTTATGATACCAGGAAGTCAGTCAAC TGGCGGTTCTTTTCATTTACTAATTGGTTGATGTTTCCGAATTGGAATGGACAAAACTTC TCATGGCCTTGGATTTGGTGATAGCATCAACTCGTTAAACACTTCTCATTACCGGAGTTC AGTCCAACACACTGCTCAGCATAGAGACACTACACTTGATTCCACATCATATTCCAGCTT CTCATCCACCAACACAAAAGCCCTGAAAAGGAAGTGGGGTACTATGGCTGGAGCAGAAGG TACTGGGGATGCATTACTCACTCTGGGTTTAGGCCGTTCACCAAGTTCATCTGACAATAG CAAAGTAAGCTCTGCCACAGCCTGTGCAATGTCTCCATGCTCGCTAAAGGAGGCTGATGA GGAGTCATCTGTTGATCTTAGCTTGAATTTTGAGCTTTCCCTTGGCAATGATGTTGCACG TTTTCAAAGGAAATCCTCTGCTGGTTTAGTAGCCAATTCTCCTAAACTGGATCTTCAGTT GAGTTTATCCACTGGCTCACCTGAATCTGCTGTCACTTGTACAAATATGGTGTCACCAAA TATTCATGATGGCTTGGACATACCAGTGACCTATTCATTACCAGCCATTATAGGGAATGG GTCAGCACCGTCTAGTTGGGGTTTTGAGCACTCTGTGGTTTCATCATCATATGCGTCTGA AGCAACATATGCATTTCCATTTTCGAAGATACCCAGACAAGAGAATGGTACTTTGTCTTC ACCAGTCATATCGTCAACTATGCCAGCAAGTGTGAAGAGCTCAGTTGCCTGTACTTCGGT GGTAACTAACCCTCAGCAGCGCAATCTTAACACTAAAACCTGCCAGTTCCCTGGATGTGG CAAAGGGGCAAGAGGTGCATCAGGGCATTGTATAGCCCATGGTGGTGGTAGGCGATGCCA GAAAGCTGGTTGCCAGAAGGGTGCTGAAGGAAGGACCATATATTGCAAGGCCCATGGTGG AGGGAGGAGATGTGAGTTTCTTGGATGTACAAAGAGCGCTGAAGGACGCACCGACCACTG CATTGCCCATGGTGGTGGCCGCCGGTGCAGTAATGATGGCTGCTCCCGTGCTGCCCGAGG AAGATCTGGCTTATGCATCAGGCATGGTGGTGGAAAAAGGTGTCAGCAGGAGAAGTGCAC CAAGAGCGCAGAAGGTCATTCTGGCCTCTGCATCTCTCATGGGGGTGGGAGGCGCTGCCA GTTTCCAGAATGTGCAAAGGGTGCACAGGGAAGCACAAAGTTCTGCAAGGCACATGGTGG AGGCAAGCGCTGCACTTTCTTGGGCTGTACCAAAGGAGCTGAAGGCAGCACCCCTTACTG CAAGGGCCATGGAGGAGGCAAGCGCTGCTTATTTGAGGGTGGTGGAGTGTGCCCCAAGAG CGTGCATGGCGGGACGCAGTACTGTGTTGCGCACGGTGGTGGCAAGAGGTGCGCTATTTC TGATTGCACCAAGAGTGCTAGAGGGCGGACGGAGTACTGCGTGCGCCATGGTGGTGGCAA GAGATGCAGGTTCGACGGCTGTGTGAAGAGTGCACAGGGGAGCACTGATTTCTGCAAGGC GCATGGGGGAGGCAAACGCTGCTCATGGGGCCTGCCGGGCTCAAGCTTCGGTATTGGCAC TGAGCAGTGTGATAAGTTTGCTCGCAGCAAGACTGGCCTCTGTTCAGCTCACACCGCTCT AGTCCAGGACCACTGTGTTCATGGTGGTGGTACATTAGGCCCTGTAATCCACCACTTCGC CGCAGATGTTAAACCCGGCGAGATGGAAGTTGCTGCAGCAGTGAAGGTTGATCCTGTTTC GATGCAGTCGGGGTCTCCATTGCCGGAGCCGGAGGGCAGGGTGCATGGTGGTGGGCTGCT GGCGCTGCTTTCTCGCGGCGGCAACCACACAGGCCCTGTTGGTAACTCCGATAACGGCGC TTCTGTCATGATGGCGTGGATGTGAGCGGGCGGGCATTCTCATCAAGAATTGGTTGCTTC AAGTTTTGATCTGTTTCCAGAGCTAATGCTGTGGCGGGATAAAGTTCCACATTTCACCAA TTGTTGTCCTAGTCGTTTGGAACTGGTAGGACATATATCCTCCGTGTAGAATAAATAAGG GAGAGCGTTGTGGGCTTCTCTGTTATTGTAATGTAATTAATTAATTAATGTCGTCAAACT GCCCTTGCTTTGTGTTTATTACAATTTGTGTAATCTGATACTACTTCACAGTTCCTACTT GGATACAATGTCTTCGCAGTTTGCTTTGCTTTGTGTTTCTGGTAACACTGTAGTATGTGC TTTGTGTTTCTGGTAAAGTGGTAATACTGTAGTCTGTAGTACAACTTTTTTGGCGGGTGA GGGTTATCTGGTCATGTCATCAGATAATTCTCTTCCGCCATCAACATCAAGAGATGAATG TTGATGTCCATATCATTGCTAGAAACTGTAAATTTAGTACCATGAGATGAATGTTGATAA CTCTGCCTATGTTGTCTCAACATAGCCGGTCCAAGCCTGGGTAAAGAAGGAGGATTGTGA TAGACTTGACGAGCCAACGTCATAACTCAGTCACTCTTATGAAGATGAAATCCAAAAGAT TTTCGTTGGGGTGTAACCCTTTCATCAACGCGCC
Protein Sequence (632 aa)
>BART1_0-u20988.001 632 150831_barley_pseudomolecules MDKTSHGLGFGDSINSLNTSHYRSSVQHTAQHRDTTLDSTSYSSFSSTNTKALKRKWGTM AGAEGTGDALLTLGLGRSPSSSDNSKVSSATACAMSPCSLKEADEESSVDLSLNFELSLG NDVARFQRKSSAGLVANSPKLDLQLSLSTGSPESAVTCTNMVSPNIHDGLDIPVTYSLPA IIGNGSAPSSWGFEHSVVSSSYASEATYAFPFSKIPRQENGTLSSPVISSTMPASVKSSV ACTSVVTNPQQRNLNTKTCQFPGCGKGARGASGHCIAHGGGRRCQKAGCQKGAEGRTIYC KAHGGGRRCEFLGCTKSAEGRTDHCIAHGGGRRCSNDGCSRAARGRSGLCIRHGGGKRCQ QEKCTKSAEGHSGLCISHGGGRRCQFPECAKGAQGSTKFCKAHGGGKRCTFLGCTKGAEG STPYCKGHGGGKRCLFEGGGVCPKSVHGGTQYCVAHGGGKRCAISDCTKSARGRTEYCVR HGGGKRCRFDGCVKSAQGSTDFCKAHGGGKRCSWGLPGSSFGIGTEQCDKFARSKTGLCS AHTALVQDHCVHGGGTLGPVIHHFAADVKPGEMEVAAAVKVDPVSMQSGSPLPEPEGRVH GGGLLALLSRGGNHTGPVGNSDNGASVMMAWM